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Conserved domains on  [gi|17568765|ref|NP_510572|]
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RAB family [Caenorhabditis elegans]

Protein Classification

Rab14 domain-containing protein (domain architecture ID 10134903)

Rab14 domain-containing protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Rab14 cd04122
Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, ...
10-175 1.03e-123

Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


:

Pssm-ID: 133322  Cd Length: 166  Bit Score: 351.06  E-value: 1.03e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd04122   1 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04122  81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA 160

                ....*.
gi 17568765 170 KQIYQN 175
Cdd:cd04122 161 KKIYQN 166
 
Name Accession Description Interval E-value
Rab14 cd04122
Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, ...
10-175 1.03e-123

Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133322  Cd Length: 166  Bit Score: 351.06  E-value: 1.03e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd04122   1 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04122  81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA 160

                ....*.
gi 17568765 170 KQIYQN 175
Cdd:cd04122 161 KKIYQN 166
RAB smart00175
Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.
12-175 3.36e-100

Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.


Pssm-ID: 197555  Cd Length: 164  Bit Score: 290.95  E-value: 3.36e-100
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:smart00175   1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:smart00175  81 DITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE 160

                   ....
gi 17568765    172 IYQN 175
Cdd:smart00175 161 ILKR 164
PLN03108 PLN03108
Rab family protein; Provisional
7-191 1.34e-93

Rab family protein; Provisional


Pssm-ID: 178655  Cd Length: 210  Bit Score: 276.05  E-value: 1.34e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 86
Cdd:PLN03108   2 SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAG 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   87 ALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFL 166
Cdd:PLN03108  82 ALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFI 161
                        170       180
                 ....*....|....*....|....*
gi 17568765  167 ETAKQIYQNIQDGSLDLNAADTGVQ 191
Cdd:PLN03108 162 KTAAKIYKKIQDGVFDVSNESYGIK 186
Ras pfam00071
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop ...
13-174 3.75e-86

Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.


Pssm-ID: 306559  Cd Length: 162  Bit Score: 255.12  E-value: 3.75e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:pfam00071   1 KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTVEVDGKTVKLQIWDTAGQERFRALRPLYYRGADGFLLVYD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQI 172
Cdd:pfam00071  81 ITSRDSFENVKKWVEEILRHADENVPIVLVGNKCDLEDQRVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREI 160

                  ..
gi 17568765   173 YQ 174
Cdd:pfam00071 161 LK 162
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
8-210 2.59e-46

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 224025  Cd Length: 219  Bit Score: 155.12  E-value: 2.59e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:COG1100   2 FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGI 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDIT-RRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQ------------RDVPYEEAKAFA---EENGLTFL 151
Cdd:COG1100  82 LIVYDSTlRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEqssseeilnqlnREVVLLVLAPKAvlpEVANPALL 161
                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 17568765 152 ECSAK--TGSNVEDAFLETAKQIYQNIQDGSLDlnaADTGVQPKQNLPRAAENNGKKDCNC 210
Cdd:COG1100 162 ETSAKslTGPNVNELFKELLRKLLEEIEKLVLK---NELRQLDRLNNPIEQAALASFNCVL 219
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
11-165 1.55e-31

small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model. [Unknown function, General]


Pssm-ID: 272973  Cd Length: 162  Bit Score: 115.16  E-value: 1.55e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    11 IFKYIIIGDMGVGKSCLLHQFTEKK-FMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:TIGR00231   1 DIKIVIVGHPNVGKSTLLNSLLGNKgSITEYYPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRLYYPQVERSLR 80
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17568765    90 VYDITRR--STYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDqRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:TIGR00231  81 VFDIVILvlDVEEILEKQTKEIIHHADSGVPIILVGNKIDLKD-ADLKTHVASEFAKLNGEPIIPLSAETGKNIDSAF 157
 
Name Accession Description Interval E-value
Rab14 cd04122
Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, ...
10-175 1.03e-123

Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133322  Cd Length: 166  Bit Score: 351.06  E-value: 1.03e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd04122   1 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04122  81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA 160

                ....*.
gi 17568765 170 KQIYQN 175
Cdd:cd04122 161 KKIYQN 166
RAB smart00175
Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.
12-175 3.36e-100

Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.


Pssm-ID: 197555  Cd Length: 164  Bit Score: 290.95  E-value: 3.36e-100
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:smart00175   1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:smart00175  81 DITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE 160

                   ....
gi 17568765    172 IYQN 175
Cdd:smart00175 161 ILKR 164
Rab2 cd01866
Rab GTPase family 2 (Rab2); Rab2 is localized on cis-Golgi membranes and interacts with Golgi ...
8-175 9.24e-97

Rab GTPase family 2 (Rab2); Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206658  Cd Length: 168  Bit Score: 282.39  E-value: 9.24e-97
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:cd01866   1 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGA 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd01866  81 LLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFIN 160

                ....*...
gi 17568765 168 TAKQIYQN 175
Cdd:cd01866 161 TAKEIYDK 168
PLN03108 PLN03108
Rab family protein; Provisional
7-191 1.34e-93

Rab family protein; Provisional


Pssm-ID: 178655  Cd Length: 210  Bit Score: 276.05  E-value: 1.34e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 86
Cdd:PLN03108   2 SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAG 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   87 ALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFL 166
Cdd:PLN03108  82 ALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFI 161
                        170       180
                 ....*....|....*....|....*
gi 17568765  167 ETAKQIYQNIQDGSLDLNAADTGVQ 191
Cdd:PLN03108 162 KTAAKIYKKIQDGVFDVSNESYGIK 186
Rab4 cd04113
Rab GTPase family 4 (Rab4); Rab4 subfamily. Rab4 has been implicated in numerous functions ...
12-172 1.20e-90

Rab GTPase family 4 (Rab4); Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206696  Cd Length: 161  Bit Score: 266.61  E-value: 1.20e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04113   1 FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:cd04113  81 DITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDDREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS 160

                .
gi 17568765 172 I 172
Cdd:cd04113 161 I 161
Rab cd00154
Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Rab GTPases ...
12-170 8.92e-90

Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible.


Pssm-ID: 206640  Cd Length: 159  Bit Score: 264.32  E-value: 8.92e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd00154   1 FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSYYRGAHGAILVY 80
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd00154  81 DVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDERQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159
Ras pfam00071
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop ...
13-174 3.75e-86

Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.


Pssm-ID: 306559  Cd Length: 162  Bit Score: 255.12  E-value: 3.75e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:pfam00071   1 KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTVEVDGKTVKLQIWDTAGQERFRALRPLYYRGADGFLLVYD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQI 172
Cdd:pfam00071  81 ITSRDSFENVKKWVEEILRHADENVPIVLVGNKCDLEDQRVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREI 160

                  ..
gi 17568765   173 YQ 174
Cdd:pfam00071 161 LK 162
Rab11_like cd01868
Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25; Rab11a, Rab11b, and ...
10-173 2.22e-83

Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25; Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206660  Cd Length: 165  Bit Score: 248.24  E-value: 2.22e-83
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd01868   2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd01868  82 VYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL 161

                ....
gi 17568765 170 KQIY 173
Cdd:cd01868 162 TEIY 165
Rab1_Ypt1 cd01869
Rab GTPase family 1 includes the yeast homolog Ypt1; Rab1/Ypt1 subfamily. Rab1 is found in ...
10-172 2.83e-70

Rab GTPase family 1 includes the yeast homolog Ypt1; Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206661  Cd Length: 166  Bit Score: 214.89  E-value: 2.83e-70
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd01869   1 YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd01869  81 VYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMA 160

                ...
gi 17568765 170 KQI 172
Cdd:cd01869 161 REI 163
Rab8_Rab10_Rab13_like cd01867
Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13); Rab8/Sec4/Ypt2 are known or suspected to ...
10-172 2.85e-69

Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13); Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206659  Cd Length: 167  Bit Score: 212.51  E-value: 2.85e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd01867   2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTSYYRGAMGIIL 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd01867  82 VYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLA 161

                ...
gi 17568765 170 KQI 172
Cdd:cd01867 162 KDI 164
Rab39 cd04111
Rab GTPase family 39 (Rab39); Found in eukaryotes, Rab39 is mainly found in epithelial cell ...
10-210 7.22e-69

Rab GTPase family 39 (Rab39); Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133311  Cd Length: 211  Bit Score: 213.08  E-value: 7.22e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-GQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL 88
Cdd:cd04111   1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEpGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  89 MVYDITRRSTYNHLSSWLADAKSLTNPNTAIF-LIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd04111  81 LVFDITNRESFEHVHDWLEEARSHIQPHRPVFiLVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFEL 160
                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 17568765 168 TAKQIYQNIQDGSLDLNAADTGVQPKQNLPRAAENNG--------KKDCNC 210
Cdd:cd04111 161 LTQEIYERIKRGELCALDGWDGVKSGFPAGRAFSLEErsptfaspEKSCCC 211
Rab5_related cd01860
Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion; The ...
12-173 1.51e-68

Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion; The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206653  Cd Length: 163  Bit Score: 210.49  E-value: 1.51e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd01860   2 FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVY 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:cd01860  82 DITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESKRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARK 161

                ..
gi 17568765 172 IY 173
Cdd:cd01860 162 LP 163
PLN03110 PLN03110
Rab GTPase; Provisional
8-209 2.76e-66

Rab GTPase; Provisional


Pssm-ID: 178657  Cd Length: 216  Bit Score: 206.70  E-value: 2.76e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:PLN03110   9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   88 LMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:PLN03110  89 LLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQT 168
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 17568765  168 TAKQIYQNIQDGSLDLN-AADTGVQPKQ----NLPRAAENNGKKDCN 209
Cdd:PLN03110 169 ILLEIYHIISKKALAAQeAAANSGLPGQgttiNVADTSGNNKRGCCS 215
Rab18 cd01863
Rab GTPase family 18 (Rab18); Rab18 subfamily. Mammalian Rab18 is implicated in endocytic ...
12-172 5.63e-66

Rab GTPase family 18 (Rab18); Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206656  Cd Length: 161  Bit Score: 203.70  E-value: 5.63e-66
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd01863   1 LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSL-TNPNTAIFLIGNKADLEdQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd01863  81 DVTRRDTFDNLDTWLNELDTYsTNPDAVKMLVGNKIDKE-NREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVE 159

                ..
gi 17568765 171 QI 172
Cdd:cd01863 160 KI 161
Rab19 cd01864
Rab GTPase family 19 (Rab19); Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. ...
10-172 5.59e-65

Rab GTPase family 19 (Rab19); Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133267  Cd Length: 165  Bit Score: 201.51  E-value: 5.59e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd01864   2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTF-LECSAKTGSNVEDAFLET 168
Cdd:cd01864  82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAvLETSAKESQNVEEAFLLM 161

                ....
gi 17568765 169 AKQI 172
Cdd:cd01864 162 ATEL 165
Rab30 cd04114
Rab GTPase family 30 (Rab30); Rab30 subfamily. Rab30 appears to be associated with the Golgi ...
7-172 1.88e-54

Rab GTPase family 30 (Rab30); Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133314  Cd Length: 169  Bit Score: 174.70  E-value: 1.88e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 86
Cdd:cd04114   3 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANA 82
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  87 ALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFL 166
Cdd:cd04114  83 LILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFL 162

                ....*.
gi 17568765 167 ETAKQI 172
Cdd:cd04114 163 DLACRL 168
Rab7 cd01862
Rab GTPase family 7 (Rab7); Rab7 subfamily. Rab7 is a small Rab GTPase that regulates ...
12-170 6.03e-54

Rab GTPase family 7 (Rab7); Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206655  Cd Length: 172  Bit Score: 173.23  E-value: 6.03e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd01862   1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSW----LADAkSLTNPNTAIF-LIGNKADLEDQRDVPYEEAKAFAEENG-LTFLECSAKTGSNVEDAF 165
Cdd:cd01862  81 DVTNPKSFESLDSWrdefLIQA-SPRDPENFPFvVLGNKIDLEEKRQVSTKKAQQWCKSKGnIPYFETSAKEAINVDQAF 159

                ....*
gi 17568765 166 LETAK 170
Cdd:cd01862 160 ETIAR 164
PLN03118 PLN03118
Rab family protein; Provisional
8-174 2.51e-53

Rab family protein; Provisional


Pssm-ID: 215587  Cd Length: 211  Bit Score: 173.32  E-value: 2.51e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKfMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:PLN03118  11 YDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGI 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   88 LMVYDITRRSTYNHLSSWLADAKSL--TNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:PLN03118  90 ILVYDVTRRETFTNLSDVWGKEVELysTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCF 169

                 ....*....
gi 17568765  166 LETAKQIYQ 174
Cdd:PLN03118 170 EELALKIME 178
Rab6 cd01861
Rab GTPase family 6 (Rab6); Rab6 is involved in microtubule-dependent transport pathways ...
12-165 3.74e-53

Rab GTPase family 6 (Rab6); Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206654  Cd Length: 161  Bit Score: 170.88  E-value: 3.74e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd01861   1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY 80
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd01861  81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLF 154
Rab26 cd04112
Rab GTPase family 26 (Rab26); Rab26 subfamily. First identified in rat pancreatic acinar cells, ...
12-210 1.58e-51

Rab GTPase family 26 (Rab26); Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206695  Cd Length: 191  Bit Score: 167.73  E-value: 1.58e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMA-DCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04112   1 FKVMLVGDSGVGKTCLLVRFKDGAFLAgSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04112  81 YDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAK 160
                       170       180       190       200
                ....*....|....*....|....*....|....*....|.
gi 17568765 171 QI-YQNIQDGSldlnaadtgvQPKQNLPRAAENNgKKDCNC 210
Cdd:cd04112 161 ELkHRSVEQPD----------EPKFKIQDYVEKQ-KKSSGC 190
Rab15 cd04117
Rab GTPase family 15 (Rab15); Rab15 colocalizes with the transferrin receptor in early ...
12-175 8.69e-51

Rab GTPase family 15 (Rab15); Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206698  Cd Length: 164  Bit Score: 165.15  E-value: 8.69e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04117   1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:cd04117  81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLTEL 160

                ....
gi 17568765 172 IYQN 175
Cdd:cd04117 161 VLQA 164
Rab32_Rab38 cd04107
Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are ...
12-201 1.43e-50

Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206692  Cd Length: 201  Bit Score: 165.56  E-value: 1.43e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKI-KLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04107   1 FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVvRLQLWDIAGQERFGGMTRVYYKGAVGAIIV 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSWLAD--AKSLTNPNTAI--FLIGNKADLEDQRD-VPYEEAKAFAEENGLT-FLECSAKTGSNVEDA 164
Cdd:cd04107  81 FDVTRPSTFEAVLKWKADldSKVTLPNGEPIpaLLLANKCDLKKERLaKDPEQMDQFCKENGFIgWFETSAKENINIEEA 160
                       170       180       190
                ....*....|....*....|....*....|....*..
gi 17568765 165 FLETAKQIYQNIQDGSLDLNAADTGVQPKQNLPRAAE 201
Cdd:cd04107 161 MRFLVKNILKNDKGLQSPEPDEDNVIDLKQETTTSKS 197
Rab12 cd04120
Rab GTPase family 12 (Rab12); Rab12 was first identified in canine cells, where it was ...
15-197 9.14e-49

Rab GTPase family 12 (Rab12); Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206699  Cd Length: 202  Bit Score: 160.95  E-value: 9.14e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:cd04120   4 IIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDIT 83
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  95 RRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEE-NGLTFLECSAKTGSNVEDAFLETAKQIY 173
Cdd:cd04120  84 KKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQiTGMRFCEASAKDNFNVDEIFLKLVDDIL 163
                       170       180
                ....*....|....*....|....*.
gi 17568765 174 QNIQDGSL--DLNAADTGVQPKQNLP 197
Cdd:cd04120 164 KKMPLDILrnELSNSILSLQPEPEIP 189
Rab35 cd04110
Rab GTPase family 35 (Rab35); Rab35 is one of several Rab proteins to be found to participate ...
7-210 1.67e-48

Rab GTPase family 35 (Rab35); Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133310  Cd Length: 199  Bit Score: 160.40  E-value: 1.67e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 86
Cdd:cd04110   2 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHG 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  87 ALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIfLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFL 166
Cdd:cd04110  82 VIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKV-LVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFN 160
                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 17568765 167 ETAKQIYQNIQDgsldlNAADTGVQPKQNLPRAAENNGKKDCNC 210
Cdd:cd04110 161 CITELVLRAKKD-----NLAKQQQQQQNDVVKLPKNSKRKKRCC 199
Rab21 cd04123
Rab GTPase family 21 (Rab21); The localization and function of Rab21 are not clearly defined, ...
12-172 2.01e-46

Rab GTPase family 21 (Rab21); The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133323  Cd Length: 162  Bit Score: 153.53  E-value: 2.01e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04123   1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:cd04123  81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR 160

                .
gi 17568765 172 I 172
Cdd:cd04123 161 M 161
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
8-210 2.59e-46

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 224025  Cd Length: 219  Bit Score: 155.12  E-value: 2.59e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:COG1100   2 FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGI 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDIT-RRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQ------------RDVPYEEAKAFA---EENGLTFL 151
Cdd:COG1100  82 LIVYDSTlRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEqssseeilnqlnREVVLLVLAPKAvlpEVANPALL 161
                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 17568765 152 ECSAK--TGSNVEDAFLETAKQIYQNIQDGSLDlnaADTGVQPKQNLPRAAENNGKKDCNC 210
Cdd:COG1100 162 ETSAKslTGPNVNELFKELLRKLLEEIEKLVLK---NELRQLDRLNNPIEQAALASFNCVL 219
Rab33B_Rab33A cd04115
Rab GTPase family 33 includes Rab33A and Rab33B; Rab33B/Rab33A subfamily. Rab33B is ...
11-172 1.73e-45

Rab GTPase family 33 includes Rab33A and Rab33B; Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133315  Cd Length: 170  Bit Score: 151.44  E-value: 1.73e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  11 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFR-AVTRSYYRGAAGALM 89
Cdd:cd04115   2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRkSMVQHYYRNVHAVVF 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKS-LTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGS---NVEDAF 165
Cdd:cd04115  82 VYDVTNMASFHSLPSWIEECEQhSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSendHVEAIF 161

                ....*..
gi 17568765 166 LETAKQI 172
Cdd:cd04115 162 MTLAHKL 168
Ras cd00876
Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases); The Ras family of the ...
13-172 3.98e-45

Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases); The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206642  Cd Length: 160  Bit Score: 150.37  E-value: 3.98e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd00876   1 KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEEFSAMRDQYIRNGDGFILVYS 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTN-PNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:cd00876  80 ITSRESFEEIKNIREQILRVKDkEDVPIVLVGNKCDLENERQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVRE 159

                .
gi 17568765 172 I 172
Cdd:cd00876 160 I 160
Rab27A cd04127
Rab GTPase family 27a (Rab27a); The Rab27a subfamily consists of Rab27a and its highly ...
8-164 1.28e-43

Rab GTPase family 27a (Rab27a); The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206700  Cd Length: 180  Bit Score: 146.88  E-value: 1.28e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEF-GTRIIEVS---------GQKIKLQIWDTAGQERFRAVT 77
Cdd:cd04127   1 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFrEKRVVYNSqgpdgtsgkAFRVHLQLWDTAGQERFRSLT 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  78 RSYYRGAAGALMVYDITRRSTYNHLSSWLADAKS---LTNPNtaIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECS 154
Cdd:cd04127  81 TAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAhayCENPD--IVLIGNKADLPDQREVSERQARELADKYGIPYFETS 158
                       170
                ....*....|
gi 17568765 155 AKTGSNVEDA 164
Cdd:cd04127 159 AATGQNVEKA 168
Rab3 cd01865
Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D; The Rab3 subfamily contains Rab3A, ...
11-165 7.01e-43

Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D; The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206657  Cd Length: 165  Bit Score: 144.67  E-value: 7.01e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  11 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd01865   1 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILM 80
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17568765  91 YDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd01865  81 YDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSAERGRQLADQLGFEFFEASAKENINVKQVF 155
RJL cd04119
Rab GTPase family J-like (RabJ-like); RJLs are found in many protists and as chimeras with ...
13-165 3.52e-41

Rab GTPase family J-like (RabJ-like); RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.


Pssm-ID: 133319  Cd Length: 168  Bit Score: 140.18  E-value: 3.52e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04119   2 KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYD 81
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTNP-----NTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd04119  82 VTDRQSFEALDSWLKEMKQEGGPhgnmeNIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMF 159
Roc pfam08477
Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial ...
13-127 3.73e-40

Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial Rho proteins (Miro-1, and Miro-2) and atypical Rho GTPases. Full-length proteins have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036) that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis.


Pssm-ID: 312094  Cd Length: 114  Bit Score: 135.71  E-value: 3.73e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS---GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:pfam08477   1 KIVLLGDSGVGKTSLLKRFVDDTFDPKYQSTIGVDFKTKTVLENddnGKKVKLNIWDTAGQERFRSLHPFYYRGAAAALL 80
                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 17568765    90 VYDITrrsTYNHLSSWLADAKSLtNPNTAIFLIGNKAD 127
Cdd:pfam08477  81 VYDSR---TFSNLKYWLRELREY-AGNSPVILVGNKID 114
Rab9 cd04116
Rab GTPase family 9 (Rab9); Rab9 is found in late endosomes, together with mannose 6-phosphate ...
9-172 4.45e-40

Rab GTPase family 9 (Rab9); Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206697  Cd Length: 170  Bit Score: 137.70  E-value: 4.45e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   9 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL 88
Cdd:cd04116   3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL 82
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  89 MVYDITRRSTYNHLSSW------LADAKsltNPNTAIFLI-GNKADLEdQRDVPYEEAKAFAEENGLT-FLECSAKTGSN 160
Cdd:cd04116  83 LTFSVDDSQSFQNLSNWkkefiyYADVK---EPESFPFVIlGNKIDIP-ERQVSTEEAQAWCRDNGDYpYFETSAKDATN 158
                       170
                ....*....|..
gi 17568765 161 VEDAFLETAKQI 172
Cdd:cd04116 159 VAAAFEEAVRRV 170
small_GTPase smart00010
Small GTPase of the Ras superfamily; ill-defined subfamily; SMART predicts Ras-like small ...
12-172 8.64e-40

Small GTPase of the Ras superfamily; ill-defined subfamily; SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.


Pssm-ID: 197466  Cd Length: 166  Bit Score: 136.54  E-value: 8.64e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:smart00010   3 YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY 81
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     92 DITRRSTYNHLSSW---LADAKSLTNpnTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLET 168
Cdd:smart00010  82 SITDRQSFEEIAKFreqILRVKDRDD--VPIVLVGNKCDLENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDL 159

                   ....
gi 17568765    169 AKQI 172
Cdd:smart00010 160 VREI 163
RAS smart00173
Ras subfamily of RAS small GTPases; Similar in fold and function to the bacterial EF-Tu GTPase. ...
12-172 1.41e-39

Ras subfamily of RAS small GTPases; Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades


Pssm-ID: 214541  Cd Length: 164  Bit Score: 136.15  E-value: 1.41e-39
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:smart00173   1 YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY 79
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     92 DITRRSTYNHLSSW---LADAKSLTNpnTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLET 168
Cdd:smart00173  80 SITDRQSFEEIKKFreqILRVKDRDD--VPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDL 157

                   ....
gi 17568765    169 AKQI 172
Cdd:smart00173 158 VREI 161
Rab40 cd04121
Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c; The Rab40 subfamily contains ...
8-170 3.44e-36

Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c; The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133321  Cd Length: 189  Bit Score: 128.13  E-value: 3.44e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA 87
Cdd:cd04121   3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI 82
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDITRRSTYNHLSSWLADAKSLTnPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd04121  83 ILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE 161

                ...
gi 17568765 168 TAK 170
Cdd:cd04121 162 LAR 164
Rab24 cd04118
Rab GTPase family 24 (Rab24); Rab24 is distinct from other Rabs in several ways. It exists ...
13-192 1.06e-35

Rab GTPase family 24 (Rab24); Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133318  Cd Length: 193  Bit Score: 126.90  E-value: 1.06e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFM-ADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04118   2 KVVMLGKESVGKTSLVERYVHHRFLvGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCY 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWladAKSLTN--PNTAIFLIGNKADL----EDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd04118  82 DLTDSSSFERAKFW---VKELQNleEHCKIYLCGTKSDLieqdRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELF 158
                       170       180
                ....*....|....*....|....*..
gi 17568765 166 LETAKQIYQNIQDGSLDLNAADTGVQP 192
Cdd:cd04118 159 QKVAEDFVSRANNQMNTEKGVDLGQKK 185
RalA_RalB cd04139
Ral (Ras-like) family containing highly homologous RalA and RalB; The Ral (Ras-like) subfamily ...
12-174 2.51e-35

Ral (Ras-like) family containing highly homologous RalA and RalB; The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206710  Cd Length: 163  Bit Score: 124.85  E-value: 2.51e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04139   1 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQLNILDTAGQEDYAAIRDNYFRSGEGFLLVF 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSS-WLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04139  80 SITDMESFTALAEfREQILRVKEDDNVPLLLVGNKCDLEDKRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVR 159

                ....
gi 17568765 171 QIYQ 174
Cdd:cd04139 160 EIRQ 163
M_R_Ras_like cd04145
R-Ras2/TC21, M-Ras/R-Ras3; The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, ...
12-172 6.11e-35

R-Ras2/TC21, M-Ras/R-Ras3; The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133345  Cd Length: 164  Bit Score: 124.06  E-value: 6.11e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04145   3 YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVF 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNT-AIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04145  82 SVTDRGSFEEVDKFHTQILRVKDRDEfPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVR 161

                ..
gi 17568765 171 QI 172
Cdd:cd04145 162 VI 163
Rab36_Rab34 cd04108
Rab GTPase families 34 (Rab34) and 36 (Rab36); Rab34/Rab36 subfamily. Rab34, found primarily ...
13-169 5.21e-34

Rab GTPase families 34 (Rab34) and 36 (Rab36); Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206693  Cd Length: 170  Bit Score: 121.91  E-value: 5.21e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04108   2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTNPNTA-IFLIGNKADLE--DQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04108  82 LTDVASLEHTRQWLEDALKENDPSSVlLFLVGTKKDLSspAQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVA 161
Rab23_like cd04106
Rab GTPase family 23 (Rab23)-like; Rab23-like subfamily. Rab23 is a member of the Rab family ...
13-171 1.21e-33

Rab GTPase family 23 (Rab23)-like; Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133306  Cd Length: 162  Bit Score: 120.62  E-value: 1.21e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV--SGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04106   2 KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLrqSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILV 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSWLADAKSLTNpNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04106  82 FSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAE 160

                .
gi 17568765 171 Q 171
Cdd:cd04106 161 K 161
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
11-165 1.55e-31

small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model. [Unknown function, General]


Pssm-ID: 272973  Cd Length: 162  Bit Score: 115.16  E-value: 1.55e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    11 IFKYIIIGDMGVGKSCLLHQFTEKK-FMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:TIGR00231   1 DIKIVIVGHPNVGKSTLLNSLLGNKgSITEYYPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRLYYPQVERSLR 80
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17568765    90 VYDITRR--STYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDqRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:TIGR00231  81 VFDIVILvlDVEEILEKQTKEIIHHADSGVPIILVGNKIDLKD-ADLKTHVASEFAKLNGEPIIPLSAETGKNIDSAF 157
RheB cd04137
Ras Homolog Enriched in Brain (RheB) is a small GTPase; Rheb (Ras Homolog Enriched in Brain) ...
13-165 3.94e-31

Ras Homolog Enriched in Brain (RheB) is a small GTPase; Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 206709  Cd Length: 180  Bit Score: 114.27  E-value: 3.94e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04137   3 KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYS 81
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17568765  93 ITRRSTYNHLSSwLADA--KSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd04137  82 VTSRKSFEVVKV-IYDKilDMLGKESVPIVLVGNKSDLHMERQVSAEEGKKLAESWGAAFLESSAKENENVEEAF 155
PTZ00099 PTZ00099
rab6; Provisional
43-210 1.82e-30

rab6; Provisional


Pssm-ID: 185444  Cd Length: 176  Bit Score: 112.53  E-value: 1.82e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   43 TIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLI 122
Cdd:PTZ00099  12 TIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALV 91
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  123 GNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQIYQNIQDGSLDLNAADTGVqpkQNLPRAAEN 202
Cdd:PTZ00099  92 GNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDNSNSNDANVVDIQL---TNNSNANDK 168

                 ....*...
gi 17568765  203 NGKKDCNC 210
Cdd:PTZ00099 169 NMLSKCMC 176
Rap1 cd04175
Rap1 family GTPase consists of Rap1a and Rap1b isoforms; The Rap1 subgroup is part of the Rap ...
12-172 1.53e-29

Rap1 family GTPase consists of Rap1a and Rap1b isoforms; The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133375  Cd Length: 164  Bit Score: 109.91  E-value: 1.53e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04175   2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTN-PNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04175  81 SITAQSTFNDLQDLREQILRVKDtEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVR 160

                ..
gi 17568765 171 QI 172
Cdd:cd04175 161 QI 162
Rap2 cd04176
Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c; The Rap2 subgroup is part of the Rap ...
12-172 1.90e-29

Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c; The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133376  Cd Length: 163  Bit Score: 109.54  E-value: 1.90e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04176   2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSW---LADAKSLTNpnTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLET 168
Cdd:cd04176  81 SLVNQQTFQDIKPMrdqIVRVKGYEK--VPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEI 158

                ....
gi 17568765 169 AKQI 172
Cdd:cd04176 159 VRQM 162
Rho cd00157
Ras homology family (Rho) of small guanosine triphosphatases (GTPases); Members of the Rho ...
13-170 2.29e-29

Ras homology family (Rho) of small guanosine triphosphatases (GTPases); Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy.


Pssm-ID: 206641  Cd Length: 171  Bit Score: 109.56  E-value: 2.29e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd00157   2 KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPQTDVFLLCFS 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSS-WLADAKSLtNPNTAIFLIGNKADLEDQRD-----------VPYEEAKAFAEENGLT-FLECSAKTGS 159
Cdd:cd00157  81 VDSPSSFENVKTkWYPEIKHY-CPNVPIILVGTKIDLRDDGNtlkklekkqkpITPEEGEKLAKEIGAVkYMECSALTQE 159
                       170
                ....*....|.
gi 17568765 160 NVEDAFLETAK 170
Cdd:cd00157 160 GLKEVFDEAIR 170
H_N_K_Ras_like cd04138
Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B; H-Ras/N-Ras/K-Ras subfamily. H-Ras, ...
12-172 5.36e-29

Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B; H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133338  Cd Length: 162  Bit Score: 108.28  E-value: 5.36e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04138   2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTA-IFLIGNKADLEDqRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04138  81 AINSRKSFEDIHTYREQIKRVKDSDDVpMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVR 159

                ..
gi 17568765 171 QI 172
Cdd:cd04138 160 EI 161
Ras2 cd04144
Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases); The Ras2 subfamily, ...
13-179 2.62e-28

Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases); The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 133344  Cd Length: 190  Bit Score: 107.24  E-value: 2.62e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04144   1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSSW---LADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04144  80 ITSRSTFERVERFreqIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV 159
                       170
                ....*....|
gi 17568765 170 KQIYQNIQDG 179
Cdd:cd04144 160 RALRQQRQGG 169
RSR1 cd04177
RSR1/Bud1p family GTPase; RSR1/Bud1p is a member of the Rap subfamily of the Ras family that ...
12-172 3.41e-28

RSR1/Bud1p family GTPase; RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 133377  Cd Length: 168  Bit Score: 106.41  E-value: 3.41e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04177   2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQV-EIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSwLADA--KSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLT-FLECSAKTGSNVEDAFLET 168
Cdd:cd04177  81 SVTSEASLNELGE-LREQvlRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVpFYETSARKRTNVDEVFIDL 159

                ....
gi 17568765 169 AKQI 172
Cdd:cd04177 160 VRQI 163
Rab28 cd04109
Rab GTPase family 28 (Rab28); Rab28 subfamily. First identified in maize, Rab28 has been shown ...
12-172 3.86e-28

Rab GTPase family 28 (Rab28); Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206694  Cd Length: 213  Bit Score: 107.19  E-value: 3.86e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04109   1 IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGsLNVTLQVWDIGGQQIGGKMLDKYIYGAQAVCLV 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSWL-----ADAKSLTNPntAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd04109  81 YDITNSQSFENLEDWLsvvkkVNEESETKP--KMVLVGNKTDLEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCF 158

                ....*..
gi 17568765 166 LETAKQI 172
Cdd:cd04109 159 QRIAAEL 165
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
16-165 6.10e-28

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648  Cd Length: 161  Bit Score: 105.62  E-value: 6.10e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  16 IIGDMGVGKSCLLHQFTEKKFM---ADCPHTIGVEFGTriIEVSGQKIKLQIWDTAGQERF-----RAVTRSYYRGAAGA 87
Cdd:cd00882   2 VVGRGGVGKSSLLNALLGGEVGevsDVPGTTRDPDVYV--KELDKGKVKLVLVDTPGLDEFgglgrEELARLLLRGADLI 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDIT-RRSTYNHLSSWLADAKSLTNPntaIFLIGNKADLEDQRDVPYEE-AKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd00882  80 LLVVDSTdRESEEDAKLLILRRLRKEGIP---IILVGNKIDLLEEREVEELLrLEELAKILGVPVFEVSAKTGEGVDELF 156
Rap_like cd04136
Rap-like family consists of Rap1, Rap2 and RSR1; The Rap subfamily consists of the Rap1, Rap2, ...
12-172 2.80e-27

Rap-like family consists of Rap1, Rap2 and RSR1; The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206708  Cd Length: 164  Bit Score: 103.79  E-value: 2.80e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04136   2 YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTEQFTAMRDLYIKNGQGFALVY 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTN-PNTAIFLIGNKADLEDQRDVPYEEAKAFAEENG-LTFLECSAKTGSNVEDAFLETA 169
Cdd:cd04136  81 SITAQQSFNDLQDLREQILRVKDtEDVPMILVGNKCDLEDERVVSKEEGQNLARQWGnCPFLETSAKSKINVDEIFYDLV 160

                ...
gi 17568765 170 KQI 172
Cdd:cd04136 161 RQI 163
Ran cd00877
Ras-related nuclear proteins (Ran)/TC4 family of small GTPases; Ran GTPase is involved in ...
12-176 4.51e-27

Ras-related nuclear proteins (Ran)/TC4 family of small GTPases; Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus.


Pssm-ID: 206643  Cd Length: 166  Bit Score: 103.15  E-value: 4.51e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd00877   1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMF 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNpNTAIFLIGNKADLEDQRdvpyEEAKA--FAEENGLTFLECSAKTGSNVEDAFLETA 169
Cdd:cd00877  81 DVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRK----VKPKQitFHRKKNLQYYEISAKSNYNFEKPFLWLA 155

                ....*..
gi 17568765 170 KQIYQNI 176
Cdd:cd00877 156 RKLLGNP 162
RabL4 cd04101
Rab GTPase-like family 4 (Rab-like4); RabL4 (Rab-like4) subfamily. RabL4s are novel proteins ...
13-171 2.62e-26

Rab GTPase-like family 4 (Rab-like4); RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.


Pssm-ID: 206688  Cd Length: 167  Bit Score: 101.45  E-value: 2.62e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEK--KFMADCPHTIGVEFGTRIIEV--SGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL 88
Cdd:cd04101   2 QCAVVGDPAVGKSALVQMFHSDgaTFQKNYTMTTGCDLVVKTVPVpdTSDSVELFIFDSAGQELFSDMVENVWEQPAVVC 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  89 MVYDITRRSTYNHLSSWLADAKSLTNPNTAI-FLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd04101  82 VVYDVTNEVSFNNCSRWINRVRTHSHGLHTPgVLVGNKCDLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLS 161

                ....
gi 17568765 168 TAKQ 171
Cdd:cd04101 162 LARA 165
PTZ00132 PTZ00132
GTP-binding nuclear protein Ran; Provisional
12-172 3.71e-26

GTP-binding nuclear protein Ran; Provisional


Pssm-ID: 240284  Cd Length: 215  Bit Score: 102.08  E-value: 3.71e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   12 FKYIIIGDMGVGKSCLL--H---QFtEKKFMAdcphTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 86
Cdd:PTZ00132  10 FKLILVGDGGVGKTTFVkrHltgEF-EKKYIP----TLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQC 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   87 ALMVYDITRRSTYNHLSSWLADAKSLTNpNTAIFLIGNKADLEDqRDVPYEEAKaFAEENGLTFLECSAKTGSNVEDAFL 166
Cdd:PTZ00132  85 AIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVKD-RQVKARQIT-FHRKKNLQYYDISAKSNYNFEKPFL 161

                 ....*.
gi 17568765  167 ETAKQI 172
Cdd:PTZ00132 162 WLARRL 167
RERG_RasL11_like cd04146
Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like ...
13-172 8.33e-26

Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families; RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity.


Pssm-ID: 206713  Cd Length: 166  Bit Score: 100.04  E-value: 8.33e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAV--TRSYYRGAAGALMV 90
Cdd:cd04146   1 KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLY-SRQVTIDGEQVSLEIQDTPGQQQNEDPesLERSLRWADGFVLV 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSW--LADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSN-VEDAFLE 167
Cdd:cd04146  80 YSITDRSSFDVVSQLlqLIREIKKRDGEIPVILVGNKADLLHSRQVSTEEGQKLALELGCLFFEVSAAENYLeVQNVFHE 159

                ....*
gi 17568765 168 TAKQI 172
Cdd:cd04146 160 LCREV 164
RHO smart00174
Rho (Ras homology) subfamily of Ras-like small GTPases; Members of this subfamily of Ras-like ...
15-172 8.46e-26

Rho (Ras homology) subfamily of Ras-like small GTPases; Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.


Pssm-ID: 197554  Cd Length: 174  Bit Score: 100.00  E-value: 8.46e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     15 IIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTrIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:smart00174   2 VVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSA-DVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVD 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     95 RRSTYNHLSS-WLADAKSlTNPNTAIFLIGNKADL----------EDQRDVP--YEEAKAFAEENG-LTFLECSAKTGSN 160
Cdd:smart00174  81 SPASFENVKEkWYPEVKH-FCPNVPIILVGTKLDLrndkstleelSKKKQEPvtYEQGQALAKRIGaVKYLECSALTQEG 159
                          170
                   ....*....|..
gi 17568765    161 VEDAFLETAKQI 172
Cdd:smart00174 160 VREVFEEAIRAA 171
PTZ00369 PTZ00369
Ras-like protein; Provisional
12-172 7.13e-25

Ras-like protein; Provisional


Pssm-ID: 240385  Cd Length: 189  Bit Score: 98.01  E-value: 7.13e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:PTZ00369   6 YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVY 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   92 DITRRSTYNHLSSWLADAKSLTNPNTA-IFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:PTZ00369  85 SITSRSSFEEIASFREQILRVKDKDRVpMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVR 164

                 ..
gi 17568765  171 QI 172
Cdd:PTZ00369 165 EI 166
RabL2 cd04124
Rab GTPase-like family 2 (Rab-like2); RabL2 (Rab-like2) subfamily. RabL2s are novel Rab ...
13-170 4.44e-24

Rab GTPase-like family 2 (Rab-like2); RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.


Pssm-ID: 133324  Cd Length: 161  Bit Score: 95.31  E-value: 4.44e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04124   2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFD 81
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17568765  93 ITRRSTYNHLSSWLADAKSLtNPNTAIFLIGNKADLeDQRDVpyEEAKAFAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:cd04124  82 VTRKITYKNLSKWYEELREY-RPEIPCIVVANKIDL-DPSVT--QKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIK 155
PLN03071 PLN03071
GTP-binding nuclear protein Ran; Provisional
12-172 7.33e-24

GTP-binding nuclear protein Ran; Provisional


Pssm-ID: 178620  Cd Length: 219  Bit Score: 95.97  E-value: 7.33e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:PLN03071  14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMF 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   92 DITRRSTYNHLSSWLADAKSLTNpNTAIFLIGNKADLEDQRDVPyeEAKAFAEENGLTFLECSAKTGSNVEDAFLETAKQ 171
Cdd:PLN03071  94 DVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKNRQVKA--KQVTFHRKKNLQYYEISAKSNYNFEKPFLYLARK 170

                 .
gi 17568765  172 I 172
Cdd:PLN03071 171 L 171
RAN smart00176
Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases; Ran is involved in the ...
17-207 3.59e-23

Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases; Ran is involved in the active transport of proteins through nuclear pores.


Pssm-ID: 128473  Cd Length: 200  Bit Score: 93.54  E-value: 3.59e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     17 IGDMGVGKSCLLHQFT----EKKFMAdcphTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:smart00176   1 VGDGGTGKTTFVKRHLtgefEKKYVA----TLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFD 76
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     93 ITRRSTYNHLSSWLADAKSLTNpNTAIFLIGNKADLEDQRdvpyEEAKA--FAEENGLTFLECSAKTGSNVEDAFLETAK 170
Cdd:smart00176  77 VTARVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKDRK----VKAKSitFHRKKNLQYYDISAKSNYNFEKPFLWLAR 151
                          170       180       190
                   ....*....|....*....|....*....|....*..
gi 17568765    171 QIyqnIQDGSLDLNAADTGVQPKQNLPRAAENNGKKD 207
Cdd:smart00176 152 KL---IGDPNLEFVAMPALAPPEVVMDPALAAQYEHD 185
Rho4_like cd04132
Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like; Rho4 is a ...
12-175 7.65e-23

Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like; Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.


Pssm-ID: 206704  Cd Length: 197  Bit Score: 92.79  E-value: 7.65e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEV-SGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04132   4 VKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV-FENYVTTLQVpNGKIIELALWDTAGQEDYDRLRPLSYPDVDVILIC 82
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTY-NHLSSWLADAKSLTnPNTAIFLIGNKADL------------EDQRDVPYEEAKAFAEE-NGLTFLECSAK 156
Cdd:cd04132  83 YSVDNPTSLdNVEDKWYPEVNHFC-PGTPIVLVGLKTDLrkdknsvsklraQGLEPVTPEQGESVAKSiGAVAYIECSAK 161
                       170
                ....*....|....*....
gi 17568765 157 TGSNVEDAFLETAKQIYQN 175
Cdd:cd04132 162 LMENVDEVFDAAINVALSK 180
Rit_Rin_Ric cd04141
Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related ...
11-172 2.47e-22

Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric); Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity.


Pssm-ID: 206712  Cd Length: 172  Bit Score: 90.68  E-value: 2.47e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  11 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04141   2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQAR-IDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSW--LADAKSLTNpNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLET 168
Cdd:cd04141  81 YSVTDRHSFQEASEFkeLITRVRLTE-DIPLVLVGNKVDLEQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGL 159

                ....
gi 17568765 169 AKQI 172
Cdd:cd04141 160 VREI 163
Rab20 cd04126
Rab GTPase family 20 (Rab20); Rab20 is one of several Rab proteins that appear to be ...
13-165 2.98e-22

Rab GTPase family 20 (Rab20); Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133326  Cd Length: 220  Bit Score: 91.51  E-value: 2.98e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFmADCPHTIGVEFGTRiievSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04126   2 KVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAFYLK----QWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYD 76
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADL-------------------EDQRDVPYEEAKAFAEE----NGLT 149
Cdd:cd04126  77 VSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLteegalagqekdagdrvspEDQRQVTLEDAKAFYKRinkyKMLD 156
                       170       180
                ....*....|....*....|....*.
gi 17568765 150 ----------FLECSAKTGSNVEDAF 165
Cdd:cd04126 157 edlspaaekmCFETSAKTGYNVDELF 182
RocCOR cd09914
Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family; RocCOR (or Roco) protein ...
13-162 2.65e-20

Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family; RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease.


Pssm-ID: 206741  Cd Length: 161  Bit Score: 85.08  E-value: 2.65e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGT-RIIEVSGQKIKLQIWDTAGQERFRAV------TRSYYrgaa 85
Cdd:cd09914   3 KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDwKIPAPERKKIRLNVWDFGGQEIYHAThqffltSRSLY---- 78
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17568765  86 gaLMVYDITRRSTYNHLSSWLADAKSLtNPNTAIFLIGNKADLEDQRDVPYEEA--KAFAEENGltFLECSAKTGSNVE 162
Cdd:cd09914  79 --LLVFDLRTGDEVSRVPYWLRQIKAF-GGVSPVILVGTHIDESCDEDILKKALnkKFPAIIND--IHFVSCKNGKGIA 152
Wrch_1 cd04130
Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42; Wrch-1 (Wnt-1 ...
13-165 2.66e-20

Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42; Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133330  Cd Length: 173  Bit Score: 85.15  E-value: 2.66e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04130   2 KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVV-LVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFS 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSS-WLADAKSlTNPNTAIFLIGNKADLEDQ------------RDVPYEEAKAFAEENG-LTFLECSAKTG 158
Cdd:cd04130  81 VVNPSSFQNISEkWIPEIRK-HNPKAPIILVGTQADLRTDvnvliqlarygeKPVSQSRAKALAEKIGaCEYIECSALTQ 159

                ....*..
gi 17568765 159 SNVEDAF 165
Cdd:cd04130 160 KNLKEVF 166
Spg1 cd04128
Septum-promoting GTPase (Spg1); Spg1p. Spg1p (septum-promoting GTPase) was first identified in ...
13-165 3.35e-20

Septum-promoting GTPase (Spg1); Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.


Pssm-ID: 206701  Cd Length: 182  Bit Score: 85.14  E-value: 3.35e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04128   2 KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCKDAVAILFMFD 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTnpNTAI-FLIGNKADL------EDQRDVPyEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd04128  82 LTRKSTLNSIKEWYRQARGFN--KTAIpILVGTKYDLfadlppEEQEEIT-KQARKYAKAMKAPLIFCSTSHSINVQKIF 158
RGK cd04148
Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases; RGK subfamily. The RGK (Rem, Rem2, Rad, ...
12-172 8.12e-20

Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases; RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD.


Pssm-ID: 206715  Cd Length: 219  Bit Score: 84.76  E-value: 8.12e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMaDCPH-TIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04148   1 YRVVLLGDSGVGKSSLANIFTAGVYE-DSAYeASGDDTYERTVSVDGEEATLVVYDHWEQEDGMWLEDSCMQVGDAYVIV 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTY---NHLSSWLADAKSLtnPNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd04148  80 YSVTDRSSFekaSELRIQLRRARQA--EDIPIILVGNKSDLVRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEG 157

                ....*
gi 17568765 168 TAKQI 172
Cdd:cd04148 158 IVRQV 162
ARHI_like cd04140
A Ras homolog member I (ARHI); ARHI (A Ras homolog member I) is a member of the Ras family ...
12-167 1.40e-19

A Ras homolog member I (ARHI); ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206711  Cd Length: 165  Bit Score: 82.95  E-value: 1.40e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFgTRIIEVSGQKIKLQIWDTAGQERFRAVTR-SYYRGAAgALMV 90
Cdd:cd04140   2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKSICTLQITDTTGSHQFPAMQRlSISKGHA-FILV 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSSWLADAKSLTN---PNTAIFLIGNKADLEDQRDVPYEEAKAFAEENGLTFLECSAKTGSNVEDAFLE 167
Cdd:cd04140  80 YSITSKQSLEELKPIYELICEIKGnnlEKIPIMLVGNKCDESPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQE 159
RhoA_like cd01870
Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC; The RhoA subfamily consists of ...
13-169 1.52e-19

Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC; The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206662  Cd Length: 175  Bit Score: 83.25  E-value: 1.52e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgveFGTRI--IEVSGQKIKLQIWDTAGQE---RFRAVTrsyYRGAAGA 87
Cdd:cd01870   3 KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV---FENYVadIEVDGKQVELALWDTAGQEdydRLRPLS---YPDTDVI 76
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  88 LMVYDI-TRRSTYNHLSSWLADAKSLTnPNTAIFLIGNKADLED------------QRDVPYEEAKAFAEE-NGLTFLEC 153
Cdd:cd01870  77 LMCFSIdSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNdehtirelakmkQEPVKPEEGRAMAEKiGAFGYLEC 155
                       170
                ....*....|....*.
gi 17568765 154 SAKTGSNVEDAFlETA 169
Cdd:cd01870 156 SAKTKEGVREVF-EMA 170
Rop_like cd04133
Rho-related protein from plants (Rop)-like; The Rop (Rho-related protein from plants) ...
13-165 5.44e-19

Rho-related protein from plants (Rop)-like; The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206705  Cd Length: 173  Bit Score: 81.43  E-value: 5.44e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04133   3 KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFS 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTY-NHLSSWLADAKSLTnPNTAIFLIGNKADLEDQR----DVPYEEAKAFAEENGLTF-------LECSAKTGSN 160
Cdd:cd04133  82 LISKASYeNVLKKWIPELRHYA-PGVPIVLVGTKLDLRDDKqffaDHPGAVPITTAQGEELRKqigaaayIECSSKTQQN 160

                ....*
gi 17568765 161 VEDAF 165
Cdd:cd04133 161 VKAVF 165
Rho2 cd04129
Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases); Rho2 is a fungal ...
13-182 6.45e-19

Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases); Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).


Pssm-ID: 206702  Cd Length: 190  Bit Score: 81.80  E-value: 6.45e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04129   3 KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTDC-RVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFA 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 I-TRRSTYNHLSSWLADAKSLTnPNTAIFLIGNKADLED----------QRDVPYEEAKAFAEENGL-TFLECSAKTGSN 160
Cdd:cd04129  82 IdTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQeavakgnyatDEFVPIQQAKLVARAIGAkKYMECSALTGEG 160
                       170       180
                ....*....|....*....|..
gi 17568765 161 VEDAFlETAKQIYQNIQDGSLD 182
Cdd:cd04129 161 VDDVF-EAATRAALLVRKSGKE 181
Rnd3_RhoE_Rho8 cd04172
Rnd3/RhoE/Rho8 GTPases; Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho ...
13-165 1.66e-18

Rnd3/RhoE/Rho8 GTPases; Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206735  Cd Length: 182  Bit Score: 80.48  E-value: 1.66e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04172   7 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFD 85
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTY-NHLSSWLADAKSLTnPNTAIFLIGNKADLE----------DQRDVP--YEEAKAFAEE-NGLTFLECSAKTG 158
Cdd:cd04172  86 ISRPETLdSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRtdvstlvelsNHRQTPvsYDQGANMAKQiGAATYIECSALQS 164

                ....*...
gi 17568765 159 SN-VEDAF 165
Cdd:cd04172 165 ENsVRDIF 172
Rnd cd04131
Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8; The Rnd ...
13-165 5.98e-18

Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8; The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206703  Cd Length: 176  Bit Score: 78.63  E-value: 5.98e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04131   3 KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFD 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTY-NHLSSWLADAKSLTnPNTAIFLIGNKADLED------------QRDVPYEEAKAFAEENG-LTFLECSAKTG 158
Cdd:cd04131  82 ISRPETLdSVLKKWKGEVREFC-PNTPVLLVGCKSDLRTdlstltelsnkrQIPVSHEQGRNLAKQIGaAAYVECSAKTS 160

                ....*...
gi 17568765 159 SN-VEDAF 165
Cdd:cd04131 161 ENsVRDVF 168
Rho3 cd04134
Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases); Rho3 is a member of ...
13-170 3.70e-17

Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases); Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.


Pssm-ID: 206706  Cd Length: 185  Bit Score: 76.44  E-value: 3.70e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04134   2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTV-FENYIHDIFVDGLAVELSLWDTAGQEEFDRLRSLSYADTHVIMLCFS 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 I-TRRSTYNHLSSWLADAKSLTnPNTAIFLIGNKADLEDQRDV--------PYEEAKAFAEE-NGLTFLECSAKTGSNVE 162
Cdd:cd04134  81 VdNPDSLENVESKWLAEIRHHC-PGVKLVLVALKCDLREPRNErdrgthtiSYEEGLAVAKRiNACRYLECSAKLNRGVN 159

                ....*...
gi 17568765 163 DAFLETAK 170
Cdd:cd04134 160 EAFTEAAR 167
Rnd2_Rho7 cd04173
Rnd2/Rho7 GTPases; Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1 ...
13-165 1.26e-16

Rnd2/Rho7 GTPases; Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.


Pssm-ID: 206736  Cd Length: 221  Bit Score: 75.45  E-value: 1.26e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIgVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04173   3 KIVVVGDTQCGKTALLHVFAKDNYPESYVPTV-FENYTASFEIDKHRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFD 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTYNH-LSSWLADAKSLTnPNTAIFLIGNKAD----------LEDQRDVP--YEEAKAFAEENG-LTFLECSAKTG 158
Cdd:cd04173  82 ISRPETLDSvLKKWQGETQEFC-PNAKLVLVGCKLDmrtdlstlreLSKQRLIPvtHEQGSLLARQLGaVAYVECSSRMS 160

                ....*...
gi 17568765 159 SN-VEDAF 165
Cdd:cd04173 161 ENsVRDVF 168
Rac1_like cd01871
Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like ...
13-167 1.40e-16

Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3; The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206663  Cd Length: 174  Bit Score: 74.85  E-value: 1.40e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQE---RFRAVTrsyYRGAAGALM 89
Cdd:cd01871   3 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEdydRLRPLS---YPQTDVFLI 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  90 VYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRD------------VPYEEAKAFAEE-NGLTFLECSAK 156
Cdd:cd01871  79 CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDtieklkekkltpITYPQGLAMAKEiGAVKYLECSAL 158
                       170
                ....*....|.
gi 17568765 157 TGSNVEDAFLE 167
Cdd:cd01871 159 TQRGLKTVFDE 169
Ras_dva cd04147
Ras - dorsal-ventral anterior localization (Ras-dva) family; Ras-dva subfamily. Ras-dva (Ras - ...
13-171 1.43e-15

Ras - dorsal-ventral anterior localization (Ras-dva) family; Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 206714  Cd Length: 197  Bit Score: 72.18  E-value: 1.43e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTR-SYYRGAAGALmVY 91
Cdd:cd04147   1 RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYSFPAMRKlSIQNGDAFAL-VY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTY---NHLSSWLADAKSLTnpNTAIFLIGNKADLEDQRDVPYEEAKAFAE---ENGltFLECSAKTGSNVEDAF 165
Cdd:cd04147  79 SVDDPESFeevKRLREEILEVKEDK--FVPIVVVGNKIDSLAERQVEAADALSTVEldwNNG--FVEASAKDNENVTEVF 154

                ....*.
gi 17568765 166 LETAKQ 171
Cdd:cd04147 155 KELLQQ 160
Rnd1_Rho6 cd04174
Rnd1/Rho6 GTPases; Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2 ...
13-175 7.70e-15

Rnd1/Rho6 GTPases; Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206737  Cd Length: 232  Bit Score: 70.47  E-value: 7.70e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEkkfmaDC-PHT---IGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL 88
Cdd:cd04174  15 KLVLVGDVQCGKTAMLQVLAK-----DCyPETyvpTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVL 89
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  89 MVYDITRRSTYNH-LSSWLADAKSLTnPNTAIFLIGNKADL------------EDQRDVPYEEAKAFAEENGL-TFLECS 154
Cdd:cd04174  90 LCFDISRPEIFDSaLKKWRAEILDYC-PSTRILLIGCKTDLrtdlstlmelsnQKQAPISYEQGCAMAKQLGAeAYLECS 168
                       170       180
                ....*....|....*....|.
gi 17568765 155 AKTGSNVEDAFLETAKQIYQN 175
Cdd:cd04174 169 AFTSEKSIHSIFRTASLLCIN 189
RhoG cd01875
Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases); RhoG is a ...
13-172 1.75e-14

Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases); RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.


Pssm-ID: 133277  Cd Length: 191  Bit Score: 68.88  E-value: 1.75e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERF-RAVTRSYYRGAAgALMVY 91
Cdd:cd01875   5 KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTA-VDGRTVSLNLWDTAGQEEYdRLRTLSYPQTNV-FIICF 82
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDV----------PY--EEAKAFAEENG-LTFLECSAKTG 158
Cdd:cd01875  83 SIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTlkklkeqgqaPItpQQGGALAKQIHaVKYLECSALNQ 162
                       170
                ....*....|....
gi 17568765 159 SNVEDAFLETAKQI 172
Cdd:cd01875 163 DGVKEVFAEAVRAV 176
Miro1 cd01893
Mitochondrial Rho family 1 (Miro1), N-terminal; Miro1 subfamily. Miro (mitochondrial Rho) ...
15-165 3.82e-14

Mitochondrial Rho family 1 (Miro1), N-terminal; Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.


Pssm-ID: 206680  Cd Length: 168  Bit Score: 67.36  E-value: 3.82e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPHTigVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:cd01893   6 VLIGDEGVGKSSLIMSLVSEEFPENVPRV--LPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVD 83
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17568765  95 RRSTYNHLSS-WLADAKSLTNpNTAIFLIGNKADL-EDQRDVPYEEA-----KAFAE-EnglTFLECSAKTGSNVEDAF 165
Cdd:cd01893  84 RPSTLERIRTkWLPLIRRLGV-KVPIILVGNKSDLrDGSSQAGLEEEmlpimNEFREiE---TCVECSAKTLINVSEVF 158
Rhes_like cd04143
Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1); ...
12-165 1.11e-13

Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1); This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 133343  Cd Length: 247  Bit Score: 67.08  E-value: 1.11e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGvEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTR-SYYRGAAgALMV 90
Cdd:cd04143   1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRlSILTGDV-FILV 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNHLSS---------WLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAF-AEENGLTFLECSAKTGSN 160
Cdd:cd04143  79 FSLDNRESFEEVCRlreqiletkSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLvGGDENCAYFEVSAKKNSN 158

                ....*
gi 17568765 161 VEDAF 165
Cdd:cd04143 159 LDEMF 163
Arf_Arl cd00878
ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases; Arf (ADP-ribosylation factor)/Arl ...
15-165 2.48e-13

ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases; Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions.


Pssm-ID: 206644  Cd Length: 158  Bit Score: 64.91  E-value: 2.48e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGveFGTRIIEVsgQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:cd00878   3 LMLGLDGAGKTTILYKLKLGEVVTTIP-TIG--FNVETVEY--KNVKFTVWDVGGQDKIRPLWKHYYENTDGLIFVVDSS 77
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  95 RRS----TYNHLSSWLADakslTNPNTAIFLI-GNKADLEDQRDVpyEEAKAFAEENGLT-----FLECSAKTGSNVEDA 164
Cdd:cd00878  78 DRErieeAKNELHKLLNE----EELKGAPLLIlANKQDLPGALTE--SELIELLGLESIKgrrwhIQPCSAVTGDGLDEG 151

                .
gi 17568765 165 F 165
Cdd:cd00878 152 L 152
Arfrp1 cd04160
Arf-related protein 1 (Arfrp1); Arfrp1 (Arf-related protein 1), formerly known as ARP, is a ...
15-164 4.85e-13

Arf-related protein 1 (Arfrp1); Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.


Pssm-ID: 206725  Cd Length: 168  Bit Score: 64.29  E-value: 4.85e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQfTEKKFMADC----PHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV 90
Cdd:cd04160   3 LILGLDNAGKTTFLEQ-TKTKFSKNYkglnPSKITPTVGLNIGTIEVGKARLMFWDLGGQEELRSLWDKYYAESHGVIYV 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  91 YDITRRSTYNhlSSWLADAKSLTNP---NTAIFLIGNKADLEDQRDVPY--EEAKAFAEENG---LTFLECSAKTGSNVE 162
Cdd:cd04160  82 IDSTDRERFN--ESKSAFEKVINNEaleGVPLLVLANKQDLPDALSVAEikEVFDDCIALIGrrdCLVQPVSALEGEGVE 159

                ..
gi 17568765 163 DA 164
Cdd:cd04160 160 EG 161
Tc10 cd04135
Rho GTPase TC10 (Tc10); TC10 is a Rho family protein that has been shown to induce microspike ...
12-167 5.59e-12

Rho GTPase TC10 (Tc10); TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206707  Cd Length: 174  Bit Score: 61.19  E-value: 5.59e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRiIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04135   1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVS-VTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF 79
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHL-SSWLADAKSLTnPNTAIFLIGNKADLED------------QRDVPYEEAKAFAEENGLT-FLECSAKT 157
Cdd:cd04135  80 SVVNPASFQNVkEEWVPELKEYA-PNVPYLLIGTQIDLRDdpktlarlndmkEKPITVEQGQKLAKEIGACcYVECSALT 158
                       170
                ....*....|
gi 17568765 158 GSNVEDAFLE 167
Cdd:cd04135 159 QKGLKTVFDE 168
PLN00023 PLN00023
GTP-binding protein; Provisional
15-128 3.25e-11

GTP-binding protein; Provisional


Pssm-ID: 177661  Cd Length: 334  Bit Score: 61.03  E-value: 3.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   15 IIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-----SGQKIK--------LQIWDTAGQERFRAVTRSYY 81
Cdd:PLN00023  25 LVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYgspgsSSNSIKgdserdffVELWDVSGHERYKDCRSLFY 104
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17568765   82 RGAAGALMVYDITRRSTYNHLSSW---LADAKSLTNPNTA---------IFLIGNKADL 128
Cdd:PLN00023 105 SQINGVIFVHDLSQRRTKTSLQKWaseVAATGTFSAPLGSggpgglpvpYIVIGNKADI 163
Cdc42 cd01874
cell division cycle 42 (Cdc42) is a small GTPase of the Rho family; Cdc42 is an essential ...
13-167 5.44e-11

cell division cycle 42 (Cdc42) is a small GTPase of the Rho family; Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206664  Cd Length: 175  Bit Score: 58.73  E-value: 5.44e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIeVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd01874   3 KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFS 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  93 ITRRSTY-NHLSSWLADAKSLTnPNTAIFLIGNKADLED------------QRDVPYEEAKAFAEENG-LTFLECSAKTG 158
Cdd:cd01874  82 VVSPSSFeNVKEKWVPEITHHC-PKTPFLLVGTQIDLRDdpstieklaknkQKPITPETGEKLARDLKaVKYVECSALTQ 160

                ....*....
gi 17568765 159 SNVEDAFLE 167
Cdd:cd01874 161 KGLKNVFDE 169
Arl5_Arl8 cd04153
Arf-like 5 (Arl5) and 8 (Arl8) GTPases; Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like ...
12-130 9.78e-11

Arf-like 5 (Arl5) and 8 (Arl8) GTPases; Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.


Pssm-ID: 133353  Cd Length: 174  Bit Score: 57.74  E-value: 9.78e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPhTIG--VEfgtriiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:cd04153  16 YKVIIVGLDNAGKTTILYQFLLGEVVHTSP-TIGsnVE------EIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVIL 88
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 17568765  90 VYDITRRS----TYNHLSSWLADaKSLTnpNTAIFLIGNKADLED 130
Cdd:cd04153  89 VIDSTDRErlplTKEELYKMLAH-EDLR--KAVLLVLANKQDLKG 130
ARLTS1 cd04156
Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11); ARLTS1 (Arf-like tumor suppressor gene 1), ...
15-170 1.42e-10

Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11); ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer.


Pssm-ID: 133356  Cd Length: 160  Bit Score: 57.04  E-value: 1.42e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGveFGTRIIEVSGqKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDit 94
Cdd:cd04156   3 LLLGLDSAGKSTLLYKLKHAELVTTIP-TVG--FNVEMLQLEK-HLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD-- 76
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  95 rRSTYNHL-SSWLADAKSLTNP---NTAIFLIGNKADLEDQrdVPYEE------AKAFAEENGLTFLECSAKTGSNVEDA 164
Cdd:cd04156  77 -SSDEARLdESQKELKHILKNEhikGVPVVLLANKQDLPGA--LTAEEitrrfkLKKYCSDRDWYVQPCSAVTGEGLAEA 153

                ....*.
gi 17568765 165 FLETAK 170
Cdd:cd04156 154 FRKLAS 159
RabL3 cd04102
Rab GTPase-like family 3 (Rab-like3); RabL3 (Rab-like3) subfamily. RabL3s are novel proteins ...
13-136 4.13e-10

Rab GTPase-like family 3 (Rab-like3); RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.


Pssm-ID: 206689  Cd Length: 204  Bit Score: 56.83  E-value: 4.13e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-----SGQKIKLQIWDTAGQ----ERFRAVTRSYYRG 83
Cdd:cd04102   2 KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYgegtpEEKTFYVELWDVGGSvgsaESVKSTRAVFYNQ 81
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 17568765  84 AAGALMVYDITRRSTYNHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRD--VPY 136
Cdd:cd04102  82 INGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVTNGDYDSEQFAGnpVPL 136
RRP22 cd04142
Ras-related protein on chromosome 22 (RRP22) family; RRP22 (Ras-related protein on chromosome ...
16-156 5.10e-10

Ras-related protein on chromosome 22 (RRP22) family; RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.


Pssm-ID: 133342  Cd Length: 198  Bit Score: 56.41  E-value: 5.10e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  16 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD---------TAGQERFRAVTRSyYRGAAG 86
Cdd:cd04142   5 VLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDvpnmqrypgTAGQEWMDPRFRG-LRNSRA 83
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17568765  87 ALMVYDITRRSTYNH---LSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKAFAEEN-GLTFLECSAK 156
Cdd:cd04142  84 FILVYDICSPDSFHYvklLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSwKCGYLECSAK 157
Srp102 COG2229
Signal recognition particle receptor subunit beta, a GTPase [Intracellular trafficking, ...
13-164 4.46e-09

Signal recognition particle receptor subunit beta, a GTPase [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 225138  Cd Length: 187  Bit Score: 53.62  E-value: 4.46e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFM---ADCPH---------TIGVEFGTRIIevsGQKIKLQIWDTAGQERFRAVTRSY 80
Cdd:COG2229  12 KIVVIGPVGAGKTTFVRALSDKPLViteADASSvsgkgkrptTVAMDFGSIEL---DEDTGVHLFGTPGQERFKFMWEIL 88
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  81 YRGAAGALMVYDITRRSTynhlSSWLADAKSLTNPNTAIFLIG-NKADLEDQRDvPYEEAKAFAEEN-GLTFLECSAKTG 158
Cdd:COG2229  89 SRGAVGAIVLVDSSRPIT----FHAEEIIDFLTSRNPIPVVVAiNKQDLFDALP-PEKIREALKLELlSVPVIEIDATEG 163

                ....*.
gi 17568765 159 SNVEDA 164
Cdd:COG2229 164 EGARDQ 169
ARF smart00177
ARF-like small GTPases; ARF, ADP-ribosylation factor; Ras homologues involved in vesicular ...
13-130 8.74e-09

ARF-like small GTPases; ARF, ADP-ribosylation factor; Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).


Pssm-ID: 128474  Cd Length: 175  Bit Score: 52.62  E-value: 8.74e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765     13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:smart00177  15 RILMVGLDAAGKTTILYKLKLGESVTTIP-TIGFNVET----VTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVD 89
                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 17568765     93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLI-GNKADLED 130
Cdd:smart00177  90 SNDRDRIDEAREELHRMLNEDELRDAVILVfANKQDLPD 128
Arf pfam00025
ADP-ribosylation factor family; Pfam combines a number of different Prosite families together
12-165 1.71e-08

ADP-ribosylation factor family; Pfam combines a number of different Prosite families together


Pssm-ID: 306524  Cd Length: 174  Bit Score: 51.85  E-value: 1.71e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPhTIG--VEfgtriiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM 89
Cdd:pfam00025  15 MRILILGLDNAGKTTILYKLKLGEIVTTIP-TIGfnVE------TVTYKNVKFTVWDVGGQESLRPLWRNYFPNTDGVIF 87
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    90 VYDITRRStynHLSSWLADAKSLTNPNT---AIFLI-GNKADLEDqrDVPYEEAKAFAEENGLT-----FLECSAKTGSN 160
Cdd:pfam00025  88 VVDSADRD---RIEEAKEELHALLNEEEladAPLLIlANKQDLPG--AMSEAEIRELLGLHELKdrpweIQGCSAVTGEG 162

                  ....*
gi 17568765   161 VEDAF 165
Cdd:pfam00025 163 LDEGL 167
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
12-180 2.72e-08

tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal structure and biogenesis];


Pssm-ID: 223561  Cd Length: 454  Bit Score: 52.95  E-value: 2.72e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFT--EKKFMADCPHTigvefgTR-IIEVS----GqkIKLQIWDTAGQ-------ERF---R 74
Cdd:COG0486 218 LKVVIIGRPNVGKSSLLNALLgrDRAIVTDIAGT------TRdVIEEDinlnG--IPVRLVDTAGIretddvvERIgieR 289
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  75 AVTRSyyRGAAGALMVYDITRrstynHLSSWLADAKSLTNPNTAIFLIGNKADLEDQRDVPYEEAKafaeeNGLTFLECS 154
Cdd:COG0486 290 AKKAI--EEADLVLFVLDASQ-----PLDKEDLALIELLPKKKPIIVVLNKADLVSKIELESEKLA-----NGDAIISIS 357
                       170       180
                ....*....|....*....|....*.
gi 17568765 155 AKTGSNVeDAFLETAKQIYQNIQDGS 180
Cdd:COG0486 358 AKTGEGL-DALREAIKQLFGKGLGNQ 382
Arl4_Arl7 cd04152
Arf-like 4 (Arl4) and 7 (Arl7) GTPases; Arl4 (Arf-like 4) is highly expressed in testicular ...
15-128 1.36e-07

Arf-like 4 (Arl4) and 7 (Arl7) GTPases; Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.


Pssm-ID: 206719  Cd Length: 183  Bit Score: 49.41  E-value: 1.36e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGveFGTRIIEVS---GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 91
Cdd:cd04152   7 VMLGLDSAGKTTVLYRLKFNEFVNTVP-TKG--FNTEKIKVSlgnAKGVTFHFWDVGGQEKLRPLWKSYTRCTDGIVFVV 83
                        90       100       110
                ....*....|....*....|....*....|....*...
gi 17568765  92 DITRRSTYNHLSSWLAD-AKSLTNPNTAIFLIGNKADL 128
Cdd:cd04152  84 DSVDVERMEEAKTELHKiTKFSENQGVPVLVLANKQDL 121
ARD1 cd04158
(ADP-ribosylation factor domain protein 1 (ARD1); ARD1 (ADP-ribosylation factor domain protein ...
13-138 3.20e-07

(ADP-ribosylation factor domain protein 1 (ARD1); ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization.


Pssm-ID: 206723  Cd Length: 169  Bit Score: 48.10  E-value: 3.20e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:cd04158   1 RVVTLGLDGAGKTTILFKLKQDEFMQPIP-TIGFNVET----VEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVID 75
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 17568765  93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLI-GNKADLEDQrdVPYEE 138
Cdd:cd04158  76 SSHRDRVSEAHSELAKLLTEKELRDALLLIfANKQDVAGA--LSVEE 120
Arl10_like cd04159
Arf-like 9 (Arl9) and 10 (Arl10) GTPases; Arl10-like subfamily. Arl9/Arl10 was identified from ...
16-134 1.72e-06

Arf-like 9 (Arl9) and 10 (Arl10) GTPases; Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.


Pssm-ID: 206724  Cd Length: 159  Bit Score: 46.16  E-value: 1.72e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  16 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGveFGTRiiEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR 95
Cdd:cd04159   4 LVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMR--KVTKGNVTIKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAAD 79
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 17568765  96 RSTY----NHLSSwLADAKSLTN-PntaIFLIGNKADLEDQRDV 134
Cdd:cd04159  80 REKLevakNELHD-LLEKPSLEGiP---LLVLGNKNDLPGALSV 119
Arl1 cd04151
ADP ribosylation factor 1 (Arf1); Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi ...
15-164 8.77e-06

ADP ribosylation factor 1 (Arf1); Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.


Pssm-ID: 206718  Cd Length: 158  Bit Score: 43.94  E-value: 8.77e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV---Y 91
Cdd:cd04151   3 LILGLDGAGKTTILYRLQVGEVVTTIP-TIGFNVET----VTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVvdsT 77
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  92 DITRRSTYNHLSSWLADAKSLTNPNTAIFliGNKADLEDQRDvpyeeAKAFAEENGL--------TFLECSAKTGSNVED 163
Cdd:cd04151  78 DRDRLGISKSELHAMLEEEELKDAVLLVF--ANKQDMPGALS-----EAEVAEKLGLselkdrtwQIFKTSATKGEGLDE 150

                .
gi 17568765 164 A 164
Cdd:cd04151 151 G 151
RhoBTB cd01873
RhoBTB protein is an atypical member of the Rho family of small GTPases; Members of the RhoBTB ...
12-165 1.44e-05

RhoBTB protein is an atypical member of the Rho family of small GTPases; Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.


Pssm-ID: 133275  Cd Length: 195  Bit Score: 44.19  E-value: 1.44e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLL------HQFTEKKFMADCPHTIGV--------EFGTRIIEV-SGQKIKLQIWDTAG-QERFRa 75
Cdd:cd01873   3 IKCVVVGDNAVGKTRLIcaracnKTLTQYQLLATHVPTVWAidqyrvcqEVLERSRDVvDGVSVSLRLWDTFGdHDKDR- 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  76 vtRSYYRGAAGALMVYDITRRSTYNHLSS-WLADAKSLTnPNTAIFLIGNKADL-------------------EDQRDVP 135
Cdd:cd01873  82 --RFAYGRSDVVLLCFSIASPNSLRNVKTmWYPEIRHFC-PRVPVILVGCKLDLryadldevnrarrplarpiKNADILP 158
                       170       180       190
                ....*....|....*....|....*....|
gi 17568765 136 YEEAKAFAEENGLTFLECSAKTGSNVEDAF 165
Cdd:cd01873 159 PETGRAVAKELGIPYYETSVVTQFGVKDVF 188
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
12-163 4.40e-05

trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.


Pssm-ID: 206727  Cd Length: 159  Bit Score: 42.10  E-value: 4.40e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  12 FKYIIIGDMGVGKSCLLHQFTEKKfMA---DCPHTigvefgTR-IIEVS----GqkIKLQIWDTAG---------QErfr 74
Cdd:cd04164   4 IKVVIAGKPNVGKSSLLNALAGRD-RAivsDIAGT------TRdVIEEEidlgG--IPVRLIDTAGlretedeieKI--- 71
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  75 AVTRSYYRgAAGA---LMVYDITRRSTynhlsswLADAKSLTNPNTA-IFLIGNKADLEdqrdvpyEEAKAFAEENGLTF 150
Cdd:cd04164  72 GIERAREA-IEEAdlvLLVVDASEGLD-------EEDLEILELPAKKpVIVVLNKSDLL-------SDAEGISELNGKPI 136
                       170
                ....*....|...
gi 17568765 151 LECSAKTGSNVED 163
Cdd:cd04164 137 IAISAKTGEGIDE 149
PTZ00133 PTZ00133
ADP-ribosylation factor; Provisional
15-128 1.26e-04

ADP-ribosylation factor; Provisional


Pssm-ID: 173423  Cd Length: 182  Bit Score: 40.99  E-value: 1.26e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:PTZ00133  21 LMVGLDAAGKTTILYKLKLGEVVTTIP-TIGFNVET----VEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSN 95
                         90       100       110
                 ....*....|....*....|....*....|....*
gi 17568765   95 RRSTYNHLSSWLADAKSLTNPNTAIFLI-GNKADL 128
Cdd:PTZ00133  96 DRERIGDAREELERMLSEDELRDAVLLVfANKQDL 130
Arf6 cd04149
ADP ribosylation factor 6 (Arf6); Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins ...
23-96 1.34e-04

ADP ribosylation factor 6 (Arf6); Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection.


Pssm-ID: 206716  Cd Length: 168  Bit Score: 40.91  E-value: 1.34e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17568765  23 GKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRR 96
Cdd:cd04149  21 GKTTILYKLKLGQSVTTIP-TVGFNVET----VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADR 89
PLN00223 PLN00223
ADP-ribosylation factor; Provisional
13-128 2.14e-04

ADP-ribosylation factor; Provisional


Pssm-ID: 165788  Cd Length: 181  Bit Score: 40.33  E-value: 2.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   13 KYIIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 92
Cdd:PLN00223  19 RILMVGLDAAGKTTILYKLKLGEIVTTIP-TIGFNVET----VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD 93
                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 17568765   93 ITRRSTYNHLSSWLADAKSLTNPNTAIFLI-GNKADL 128
Cdd:PLN00223  94 SNDRDRVVEARDELHRMLNEDELRDAVLLVfANKQDL 130
Arl3 cd04155
Arf-like 3 (Arl3) GTPase; Arl3 (Arf-like 3) is an Arf family protein that differs from most ...
23-163 1.64e-03

Arf-like 3 (Arl3) GTPase; Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.


Pssm-ID: 206721  Cd Length: 174  Bit Score: 37.76  E-value: 1.64e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  23 GKSCLLHQFTEkkfmADCPHtIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT--RR--ST 98
Cdd:cd04155  27 GKTTILKQLAS----EDISH-ITPTQGFNIKNVQADGFKLNVWDIGGQRKIRPYWRNYFENTDVLIYVIDSAdrKRfeEA 101
                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17568765  99 YNHLSSWLADAKSLTNPntaIFLIGNKADLEDQrdVPYEEakaFAEENGLTFLE--------CSAKTGSNVED 163
Cdd:cd04155 102 GQELVELLEEEKLAGVP---VLVFANKQDLLTA--APAEE---VAEALNLHDIRdrswhiqaCSAKTGEGLQE 166
trmE PRK05291
tRNA modification GTPase TrmE; Reviewed
50-181 1.69e-03

tRNA modification GTPase TrmE; Reviewed


Pssm-ID: 235392  Cd Length: 449  Bit Score: 38.55  E-value: 1.69e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765   50 TR-IIEVS----GqkIKLQIWDTAG---------QErfrAVTRSYYRgAAGA---LMVYDITRRSTYNHLSSWLAdaksl 112
Cdd:PRK05291 250 TRdVIEEHinldG--IPLRLIDTAGiretddeveKI---GIERSREA-IEEAdlvLLVLDASEPLTEEDDEILEE----- 318
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17568765  113 tNPNTAIFLIGNKADLedqrdvpyEEAKAFAEENGLTFLECSAKTGSNVE---DAFLETAKQIYQNIQDGSL 181
Cdd:PRK05291 319 -LKDKPVIVVLNKADL--------TGEIDLEEENGKPVIRISAKTGEGIDelrEAIKELAFGGFGGNQEGVF 381
Sar1 cd00879
Sar1 is an essential component of COPII vesicle coats; Sar1 is an essential component of COPII ...
54-130 4.79e-03

Sar1 is an essential component of COPII vesicle coats; Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.


Pssm-ID: 206645  Cd Length: 191  Bit Score: 36.49  E-value: 4.79e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  54 EVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY----NHLSSWLADAKSltnPNTAIFLIGNKADLE 129
Cdd:cd00879  57 ELTIGNVKFTTFDLGGHEQARRVWKDYFPEVDGIVFLVDAADPERFqeskEELDSLLNDEEL---ANVPILILGNKIDKP 133

                .
gi 17568765 130 D 130
Cdd:cd00879 134 G 134
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
50-169 6.40e-03

MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An N-terminal domain, a helical domain and a GTPase domain which is nested within the helical domain. This family represents the helical domain.


Pssm-ID: 315327  Cd Length: 325  Bit Score: 36.67  E-value: 6.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765    50 TR-IIEVS----GqkIKLQIWDTAG------------QERfravTRSYYRGAAGALMVYDITRrstynHLSSWLADAKSL 112
Cdd:pfam12631 129 TRdVIEETinigG--IPLRLIDTAGiretddevekigVER----AREAIEEADLVLLVLDASR-----PLDEEDEEILEL 197
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 17568765   113 TNPNTAIFLIGNKADLEDQRDVPyeeakafaEENGLTFLECSAKTGSNVEDafLETA 169
Cdd:pfam12631 198 LKDKKPIIVVLNKSDLPGKIDEE--------ELKGKPVIEISAKTGEGIDE--LEEA 244
Arf1_5_like cd04150
ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5); The Arf1-Arf5-like ...
15-128 6.46e-03

ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5); The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs).


Pssm-ID: 206717  Cd Length: 159  Bit Score: 35.85  E-value: 6.46e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17568765  15 IIIGDMGVGKSCLLHQFTEKKFMADCPhTIGVEFGTriieVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT 94
Cdd:cd04150   4 LMVGLDAAGKTTILYKLKLGEIVTTIP-TIGFNVET----VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 78
                        90       100       110
                ....*....|....*....|....*....|....*..
gi 17568765  95 RRSTYNHLSSWLadAKSLTNP---NTAIFLIGNKADL 128
Cdd:cd04150  79 DRERIGEAREEL--QRMLNEDelrDAVLLVFANKQDL 113
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.16
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
  • Marchler-Bauer A et al. (2015), "CDD: NCBI's conserved domain database.", Nucleic Acids Res.43(D)222-6.
  • Marchler-Bauer A et al. (2011), "CDD: a Conserved Domain Database for the functional annotation of proteins.", Nucleic Acids Res.39(D)225-9.
  • Marchler-Bauer A, Bryant SH (2004), "CD-Search: protein domain annotations on the fly.", Nucleic Acids Res.32(W)327-331.
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