NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|28572990|ref|NP_732199|]
View 

nucleostemin 1 [Drosophila melanogaster]

Protein Classification

GN3L_Grn1 and Nucleostemin_like domain-containing protein( domain architecture ID 10554828)

protein containing domains GN3L_Grn1, Nucleostemin_like, and Ras_like_GTPase

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 152-322 7.73e-99

A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the protein.


:

Pssm-ID: 206753 [Multi-domain]  Cd Length: 171  Bit Score: 297.56  E-value: 7.73e-99
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 152 DVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQDQANRLGRRKL 231
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 232 REMKTEKAMQGSVCIGAELLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELD 311
Cdd:cd04178  81 KVKASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHLD 160

                       170
                ....*....|.
gi 28572990 312 SKIKLIDCPGI 322
Cdd:cd04178 161 KHVKLLDSPGV 171
GN3L_Grn1 pfam08701
GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are ...
 17-91 3.02e-21

GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are required for growth and play a role in processing of nucleolar pre-rRNA. This family contains a potential nuclear localization signal.


:

Pssm-ID: 462569 [Multi-domain]  Cd Length: 77  Bit Score: 87.97  E-value: 3.02e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28572990    17 RLKHKIEKKVRDHNKKERRAAKKNPKKGSKKQKLIQIPNICPFKDDILKEVEEAKQRQEAERLARREAFKAEREQ 91
Cdd:pfam08701   2 RKRYKIEKKVAEHHRKERKEAKKNPTWKSKKKKDPGIPNSFPFKEEILAEIEEKKRKKEEEKERRKEAKKAERAE 76
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 271-400 1.52e-08

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 [Multi-domain]  Cd Length: 161  Bit Score: 54.00  E-value: 1.52e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 271 GVVGIPNVGKSSIINSLTRGRSCMVGSTPGVT-----KSMQEVELDSKIKLIDCPGIVFtsggenshavlknaqrvGDVK 345
Cdd:cd00882   1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTrdpdvYVKELDKGKVKLVLVDTPGLDE-----------------FGGL 63

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28572990 346 DPFTIAESVLKRAskEYFCTMYDITNYDTFEEFfakKAARMGKFLKKGVPDVVAA 400
Cdd:cd00882  64 GREELARLLLRGA--DLILLVVDSTDRESEEDA---KLLILRRLRKEGIPIILVG 113
 
Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 152-322 7.73e-99

A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the protein.


Pssm-ID: 206753 [Multi-domain]  Cd Length: 171  Bit Score: 297.56  E-value: 7.73e-99
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 152 DVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQDQANRLGRRKL 231
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 232 REMKTEKAMQGSVCIGAELLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELD 311
Cdd:cd04178  81 KVKASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHLD 160

                       170
                ....*....|.
gi 28572990 312 SKIKLIDCPGI 322
Cdd:cd04178 161 KHVKLLDSPGV 171
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
139-413 2.80e-40

Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 147.56  E-value: 2.80e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 139 QYF-----KEFRKVIENA---DVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIKYFRRSG 210
Cdd:COG1161   4 QWFpghmaKARRQIKEILklvDLVIEVVDARIPLSSRNPMLDELV----GNKPRLLVLNKADLADPSVTKQWLKYFEKQG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 211 pVTAFKASTQDQAnrlgrrklremktekamqgsvciGAELLMSMLGNYCRNKGIKT-SIRVGVVGIPNVGKSSIINSLTR 289
Cdd:COG1161  80 -VDALAISAKKGK-----------------------GIKELIEAIRELAPEKGIKRrPIRVMIVGIPNVGKSTLINRLAG 135

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 290 GRSCMVGSTPGVTKSMQEVELDSKIKLIDCPGIV---FTsggenSHAVLKNAQRVGDVKDPFTIAESV-------LKRAS 359
Cdd:COG1161 136 KKVAKTGNKPGVTKGQQWIKLDDGLELLDTPGILwpkFE-----DPEVGYKLAATGAIKDEVLDLEEValfllgyLARRY 210

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 360 KEYFCTMYDI-----TNYDTFEEFfakkAARMGKFLKKGVPDVVAAARSVLNDWNTGKI 413
Cdd:COG1161 211 PELLKERYKLdelprTKLELLEAI----GRKRGCLLSGGEVDLEKAAEILLTDFRSGKL 265
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 141-413 2.44e-39

ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. [Protein synthesis, Other]


Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 144.96  E-value: 2.44e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   141 FKEFRKVIENADVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIKYFRRSGpVTAFKASTQ 220
Cdd:TIGR03596  12 RREIKENLKLVDVVIEVLDARIPLSSRNPMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKYFEEKG-IKALAVNAK 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   221 DQAnrlGRRKLremktEKAMQGsvcIGAELLMSMlgnycRNKGIK-TSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTP 299
Cdd:TIGR03596  87 KGA---GVKKI-----IKAAKK---LLKEKNEKL-----KAKGLKnRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRP 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   300 GVTKSMQEVELDSKIKLIDCPGIVFtSGGENSHAVLKNAQrVGDVKDPFTIAESV-------LKRASKEYFCTMYDIT-N 371
Cdd:TIGR03596 151 GVTKGQQWIKLSDNLELLDTPGILW-PKFEDQEVGLKLAA-TGAIKDEALDLEDValflleyLLEHYPELLKERYKLDeL 228

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|..
gi 28572990   372 YDTFEEFFAKKAARMGKFLKKGVPDVVAAARSVLNDWNTGKI 413
Cdd:TIGR03596 229 PEDPVELLEAIAKKRGCLLKGGELDLDRAAEILLNDFRKGKL 270
GN3L_Grn1 pfam08701
GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are ...
 17-91 3.02e-21

GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are required for growth and play a role in processing of nucleolar pre-rRNA. This family contains a potential nuclear localization signal.


Pssm-ID: 462569 [Multi-domain]  Cd Length: 77  Bit Score: 87.97  E-value: 3.02e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28572990    17 RLKHKIEKKVRDHNKKERRAAKKNPKKGSKKQKLIQIPNICPFKDDILKEVEEAKQRQEAERLARREAFKAEREQ 91
Cdd:pfam08701   2 RKRYKIEKKVAEHHRKERKEAKKNPTWKSKKKKDPGIPNSFPFKEEILAEIEEKKRKKEEEKERRKEAKKAERAE 76
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 269-323 2.02e-16

50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.


Pssm-ID: 460387 [Multi-domain]  Cd Length: 113  Bit Score: 75.35  E-value: 2.02e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28572990   269 RVGVVGIPNVGKSSIINSLTrGRSCMVGSTPGVTKSMQEVEL---DSKIKLIDCPGIV 323
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALT-GAKAIVSDYPGTTRDPNEGRLelkGKQIILVDTPGLI 57
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 271-400 1.52e-08

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 [Multi-domain]  Cd Length: 161  Bit Score: 54.00  E-value: 1.52e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 271 GVVGIPNVGKSSIINSLTRGRSCMVGSTPGVT-----KSMQEVELDSKIKLIDCPGIVFtsggenshavlknaqrvGDVK 345
Cdd:cd00882   1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTrdpdvYVKELDKGKVKLVLVDTPGLDE-----------------FGGL 63

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28572990 346 DPFTIAESVLKRAskEYFCTMYDITNYDTFEEFfakKAARMGKFLKKGVPDVVAA 400
Cdd:cd00882  64 GREELARLLLRGA--DLILLVVDSTDRESEEDA---KLLILRRLRKEGIPIILVG 113
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 269-328 5.31e-07

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 52.36  E-value: 5.31e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28572990  269 RVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK--SMQEVELDSK-IKLIDCPGIVFTSGG 328
Cdd:PRK00093   3 VVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRdrIYGEAEWLGReFILIDTGGIEPDDDG 65
 
Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 152-322 7.73e-99

A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the protein.


Pssm-ID: 206753 [Multi-domain]  Cd Length: 171  Bit Score: 297.56  E-value: 7.73e-99
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 152 DVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQDQANRLGRRKL 231
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 232 REMKTEKAMQGSVCIGAELLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELD 311
Cdd:cd04178  81 KVKASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHLD 160

                       170
                ....*....|.
gi 28572990 312 SKIKLIDCPGI 322
Cdd:cd04178 161 KHVKLLDSPGV 171
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 152-322 6.34e-43

Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.


Pssm-ID: 206746 [Multi-domain]  Cd Length: 146  Bit Score: 150.61  E-value: 6.34e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 152 DVVLEVVDARDPLGTRCNEVERAVrgAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQdqaNRLGRRKL 231
Cdd:cd01849   1 DVVVEVVDARDPLSSRNPDIEVLI--NEKNKKLIMVLNKADLVPKEVLRKWVAELSELYGTKTFFISAT---NGQGILKL 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 232 REMKTEKamqgsvcigaellmsmlgnyCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELD 311
Cdd:cd01849  76 KAEITKQ--------------------KLKLKYKKGIRVGVVGLPNVGKSSFINALLNKFKLKVGSIPGTTKLQQDVKLD 135

                       170
                ....*....|.
gi 28572990 312 SKIKLIDCPGI 322
Cdd:cd01849 136 KEIYLYDTPGI 146
NGP_1 cd01858
A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; ...
 143-322 9.17e-43

A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.


Pssm-ID: 206751 [Multi-domain]  Cd Length: 157  Bit Score: 150.53  E-value: 9.17e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 143 EFRKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQDq 222
Cdd:cd01858   1 ELYKVIDSSDVIIQVLDARDPMGTRCKHVEKYLRKEKPHKHLIFVLNKCDLVPTWVTKRWVKVLSKEYPTLAFHASITN- 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 223 anrlgrrklremktekamqgsvCIGAELLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVT 302
Cdd:cd01858  80 ----------------------PFGKGALINLLRQFAKLHSDKKQISVGFIGYPNVGKSSVINTLRSKKVCKVAPIPGET 137

                       170       180
                ....*....|....*....|
gi 28572990 303 KSMQEVELDSKIKLIDCPGI 322
Cdd:cd01858 138 KVWQYITLMKRIYLIDCPGV 157
MJ1464 cd01859
An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents ...
 144-322 2.44e-41

An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.


Pssm-ID: 206752 [Multi-domain]  Cd Length: 157  Bit Score: 146.69  E-value: 2.44e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 144 FRKVIENADVVLEVVDARDPLGTRCNEVERAVRGApgNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQdqa 223
Cdd:cd01859   5 VRRIIKEADVVLEVVDARDPELTRSRKLERMALEL--GKKLIIVLNKADLVPREVLEKWKEVFESEGLPVVYVSARE--- 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 224 nRLGRRKLREMKTEKAMQGSvcigaellmsmlgnycrnkgiktSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGV-- 301
Cdd:cd01859  80 -RLGTRILRRTIKELAIDGK-----------------------PVIVGVVGYPKVGKSSIINALKGRHSASTSPIPGSpg 135

                       170       180
                ....*....|....*....|..
gi 28572990 302 -TKSMQEVELDSKIKLIDCPGI 322
Cdd:cd01859 136 yTKGIQLVRIDSKIYLIDTPGV 157
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
139-413 2.80e-40

Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 147.56  E-value: 2.80e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 139 QYF-----KEFRKVIENA---DVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIKYFRRSG 210
Cdd:COG1161   4 QWFpghmaKARRQIKEILklvDLVIEVVDARIPLSSRNPMLDELV----GNKPRLLVLNKADLADPSVTKQWLKYFEKQG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 211 pVTAFKASTQDQAnrlgrrklremktekamqgsvciGAELLMSMLGNYCRNKGIKT-SIRVGVVGIPNVGKSSIINSLTR 289
Cdd:COG1161  80 -VDALAISAKKGK-----------------------GIKELIEAIRELAPEKGIKRrPIRVMIVGIPNVGKSTLINRLAG 135

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 290 GRSCMVGSTPGVTKSMQEVELDSKIKLIDCPGIV---FTsggenSHAVLKNAQRVGDVKDPFTIAESV-------LKRAS 359
Cdd:COG1161 136 KKVAKTGNKPGVTKGQQWIKLDDGLELLDTPGILwpkFE-----DPEVGYKLAATGAIKDEVLDLEEValfllgyLARRY 210

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 360 KEYFCTMYDI-----TNYDTFEEFfakkAARMGKFLKKGVPDVVAAARSVLNDWNTGKI 413
Cdd:COG1161 211 PELLKERYKLdelprTKLELLEAI----GRKRGCLLSGGEVDLEKAAEILLTDFRSGKL 265
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 141-413 2.44e-39

ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. [Protein synthesis, Other]


Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 144.96  E-value: 2.44e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   141 FKEFRKVIENADVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIKYFRRSGpVTAFKASTQ 220
Cdd:TIGR03596  12 RREIKENLKLVDVVIEVLDARIPLSSRNPMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKYFEEKG-IKALAVNAK 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   221 DQAnrlGRRKLremktEKAMQGsvcIGAELLMSMlgnycRNKGIK-TSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTP 299
Cdd:TIGR03596  87 KGA---GVKKI-----IKAAKK---LLKEKNEKL-----KAKGLKnRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRP 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   300 GVTKSMQEVELDSKIKLIDCPGIVFtSGGENSHAVLKNAQrVGDVKDPFTIAESV-------LKRASKEYFCTMYDIT-N 371
Cdd:TIGR03596 151 GVTKGQQWIKLSDNLELLDTPGILW-PKFEDQEVGLKLAA-TGAIKDEALDLEDValflleyLLEHYPELLKERYKLDeL 228

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|..
gi 28572990   372 YDTFEEFFAKKAARMGKFLKKGVPDVVAAARSVLNDWNTGKI 413
Cdd:TIGR03596 229 PEDPVELLEAIAKKRGCLLKGGELDLDRAAEILLNDFRKGKL 270
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 142-322 4.21e-39

Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga).


Pssm-ID: 206749 [Multi-domain]  Cd Length: 171  Bit Score: 141.13  E-value: 4.21e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 142 KEFRKVIENADVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIKYFRRSG-PVTAFKASTQ 220
Cdd:cd01856  11 RQIKEKLKLVDVVIEVRDARIPLSSRNPDLDKIL----GNKPRLIVLNKADLADPAKTKKWLKYFKSQGePVLFVNAKNG 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 221 DQANRLgRRKLREMKTEKAmqgsvcigaellmsmlgnYCRNKGIKT-SIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTP 299
Cdd:cd01856  87 KGVKKL-LKKAKKLLKENE------------------KLKAKGLLPrPLRAMVVGIPNVGKSTLINRLRGKKVAKVGNKP 147

                       170       180
                ....*....|....*....|...
gi 28572990 300 GVTKSMQEVELDSKIKLIDCPGI 322
Cdd:cd01856 148 GVTRGQQWIRIGPNIELLDTPGI 170
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 142-324 1.54e-35

A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N-terminus.


Pssm-ID: 206750 [Multi-domain]  Cd Length: 140  Bit Score: 130.04  E-value: 1.54e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 142 KEFRKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKYFRRSGPVTAFKASTQD 221
Cdd:cd01857   3 RQLWRVIERSDVVVQIVDARNPLFFRCPDLEKYVKEVDPSKENVLLLNKADLVTEEQRKAWARYFKKEGIVVLFFSALNE 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 222 QAnrlgrrklremktekamqgsvcigaellmsmlgnycrnkgiktsirVGVVGIPNVGKSSIINSLtRGRSCM-VGSTPG 300
Cdd:cd01857  83 AT----------------------------------------------IGLVGYPNVGKSSLINAL-VGSKKVsVSSTPG 115

                       170       180
                ....*....|....*....|....
gi 28572990 301 VTKSMQEVELDSKIKLIDCPGIVF 324
Cdd:cd01857 116 KTKHFQTIFLEPGITLCDCPGLVF 139
GN3L_Grn1 pfam08701
GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are ...
 17-91 3.02e-21

GNL3L/Grn1 putative GTPase; Grn1 (yeast) and GNL3L (human) are putative GTPases which are required for growth and play a role in processing of nucleolar pre-rRNA. This family contains a potential nuclear localization signal.


Pssm-ID: 462569 [Multi-domain]  Cd Length: 77  Bit Score: 87.97  E-value: 3.02e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28572990    17 RLKHKIEKKVRDHNKKERRAAKKNPKKGSKKQKLIQIPNICPFKDDILKEVEEAKQRQEAERLARREAFKAEREQ 91
Cdd:pfam08701   2 RKRYKIEKKVAEHHRKERKEAKKNPTWKSKKKKDPGIPNSFPFKEEILAEIEEKKRKKEEEKERRKEAKKAERAE 76
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 269-323 2.02e-16

50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.


Pssm-ID: 460387 [Multi-domain]  Cd Length: 113  Bit Score: 75.35  E-value: 2.02e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28572990   269 RVGVVGIPNVGKSSIINSLTrGRSCMVGSTPGVTKSMQEVEL---DSKIKLIDCPGIV 323
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALT-GAKAIVSDYPGTTRDPNEGRLelkGKQIILVDTPGLI 57
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 125-322 7.34e-13

Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.


Pssm-ID: 206748 [Multi-domain]  Cd Length: 191  Bit Score: 67.29  E-value: 7.34e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 125 KKYKNAVTKEQSLKQYFKEFRKVIENADVVLEVVDARDPLGTRCNEVERAVrgapGNKRLVLVLNKADLVPRENLNNWIK 204
Cdd:cd01855   8 KHYNKLLDVEIPDEDFLEILSTLLNDNALVVHVVDIFDFPGSLIPGLAELI----GAKPVILVGNKIDLLPKDVKPNRLK 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 205 YFRRSgpvTAFKASTQDQANRLGRRKLREmktekamqgsvciGAELLMSMLGNYCRNKGiktsiRVGVVGIPNVGKSSII 284
Cdd:cd01855  84 QWVKK---RLKIGGLKIKDVILVSAKKGW-------------GVEELIEEIKKLAKYRG-----DVYVVGATNVGKSTLI 142

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 28572990 285 NSLTRGRSCMVGST-----------PGVTKSMQEVELDSKIKLIDCPGI 322
Cdd:cd01855 143 NALLKSNGGKVQAQalvqrltvspiPGTTLGLIKIPLGEGKKLYDTPGI 191
YihA_EngB cd01876
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ...
 270-321 6.23e-10

YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.


Pssm-ID: 206665 [Multi-domain]  Cd Length: 170  Bit Score: 58.29  E-value: 6.23e-10
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 28572990 270 VGVVGIPNVGKSSIINSLTRGRS-CMVGSTPGVTKSMQEVELDSKIKLIDCPG 321
Cdd:cd01876   2 VAFAGRSNVGKSSLINALTNRKKlARTSKTPGRTQLINFFNVGDKFRLVDLPG 54
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 271-327 4.74e-09

E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.


Pssm-ID: 206646 [Multi-domain]  Cd Length: 161  Bit Score: 55.71  E-value: 4.74e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990 271 GVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQ--EVELDSK--IKLIDCPGIVFTSG 327
Cdd:cd00880   1 AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVrkEWELLPLgpVVLIDTPGLDEEGG 61
FeoB_N pfam02421
Ferrous iron transport protein B; Escherichia coli has an iron(II) transport system (feo) ...
 268-322 4.77e-09

Ferrous iron transport protein B; Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.


Pssm-ID: 460552 [Multi-domain]  Cd Length: 156  Bit Score: 55.53  E-value: 4.77e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28572990   268 IRVGVVGIPNVGKSSIINSLTRGRScMVGSTPGVTKSMQEVEL---DSKIKLIDCPGI 322
Cdd:pfam02421   1 ITIALVGNPNVGKTTLFNALTGANQ-HVGNWPGVTVEKKEGKFkykGYEIEIVDLPGI 57
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 273-328 8.10e-09

EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.


Pssm-ID: 206681 [Multi-domain]  Cd Length: 157  Bit Score: 54.75  E-value: 8.10e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 273 VGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQE--VELDSK-IKLIDCPGIVFTSGG 328
Cdd:cd01894   3 VGRPNVGKSTLFNRLTGRRDAIVSDTPGVTRDRKYgeAEWGGReFILIDTGGIEPDDEG 61
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 271-400 1.52e-08

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 [Multi-domain]  Cd Length: 161  Bit Score: 54.00  E-value: 1.52e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 271 GVVGIPNVGKSSIINSLTRGRSCMVGSTPGVT-----KSMQEVELDSKIKLIDCPGIVFtsggenshavlknaqrvGDVK 345
Cdd:cd00882   1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTrdpdvYVKELDKGKVKLVLVDTPGLDE-----------------FGGL 63

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28572990 346 DPFTIAESVLKRAskEYFCTMYDITNYDTFEEFfakKAARMGKFLKKGVPDVVAA 400
Cdd:cd00882  64 GREELARLLLRGA--DLILLVVDSTDRESEEDA---KLLILRRLRKEGIPIILVG 113
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
148-322 2.51e-08

Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 56.57  E-value: 2.51e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 148 IENADVVLEVVDARDPLGTRCNEVERAVRGApgNKRLVLVLNKADLVPRENLnnwIKYFRRSG-----PVTAfkastqdq 222
Cdd:COG1160  80 IEEADVILFVVDGRAGLTPLDEEIAKLLRRS--GKPVILVVNKVDGPKREAD---AAEFYSLGlgepiPISA-------- 146

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 223 ANRLGRRKLREMktekamqgsvcigaelLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTrG--RScMVGSTPG 300
Cdd:COG1160 147 EHGRGVGDLLDA----------------VLELLPEEEEEEEEDDPIKIAIVGRPNVGKSSLINALL-GeeRV-IVSDIAG 208

                       170       180       190
                ....*....|....*....|....*....|..
gi 28572990 301 VTKsmqevelDS----------KIKLIDCPGI 322
Cdd:COG1160 209 TTR-------DSidtpferdgkKYTLIDTAGI 233
FeoB COG0370
Fe2+ transporter FeoB [Inorganic ion transport and metabolism];
265-322 7.86e-08

Fe2+ transporter FeoB [Inorganic ion transport and metabolism];


Pssm-ID: 440139 [Multi-domain]  Cd Length: 662  Bit Score: 55.13  E-value: 7.86e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28572990 265 KTSIRVGVVGIPNVGKSSIINSLTrGRSCMVGSTPGVTksmqeVEL--------DSKIKLIDCPGI 322
Cdd:COG0370   1 MKMITIALVGNPNVGKTTLFNALT-GSRQKVGNWPGVT-----VEKkegkfklkGKEIELVDLPGT 60
FeoB cd01879
Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) ...
 272-322 2.67e-07

Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.


Pssm-ID: 206667 [Multi-domain]  Cd Length: 159  Bit Score: 50.53  E-value: 2.67e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 28572990 272 VVGIPNVGKSSIINSLTRGRScMVGSTPGVT--KSMQEVEL-DSKIKLIDCPGI 322
Cdd:cd01879   2 LVGNPNVGKTTLFNALTGARQ-KVGNWPGVTveKKEGEFKLgGKEIEIVDLPGT 54
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 267-322 3.20e-07

EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.


Pssm-ID: 206682 [Multi-domain]  Cd Length: 174  Bit Score: 50.51  E-value: 3.20e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 267 SIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVEL---DSKIKLIDCPGI 322
Cdd:cd01895   2 PIKIAIIGRPNVGKSSLLNALLGEERVIVSDIAGTTRDSIDVPFeydGQKYTLIDTAGI 60
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 269-328 5.31e-07

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 52.36  E-value: 5.31e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28572990  269 RVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK--SMQEVELDSK-IKLIDCPGIVFTSGG 328
Cdd:PRK00093   3 VVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRdrIYGEAEWLGReFILIDTGGIEPDDDG 65
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 141-234 5.37e-07

E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.


Pssm-ID: 206646 [Multi-domain]  Cd Length: 161  Bit Score: 49.55  E-value: 5.37e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 141 FKEFRKVIENADVVLEVVDARDPLGTRCNEVERAVRGapgNKRLVLVLNKADLVP----RENLNNWIKYFRRSGPVTAFK 216
Cdd:cd00880  67 VEEARQVADRADLVLLVVDSDLTPVEEEAKLGLLRER---GKPVLLVLNKIDLVPeseeEELLRERKLELLPDLPVIAVS 143

                        90
                ....*....|....*...
gi 28572990 217 ASTQDQANRLgRRKLREM 234
Cdd:cd00880 144 ALPGEGIDEL-RKKIAEL 160
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
145-211 9.59e-07

GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 50.76  E-value: 9.59e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28572990 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGApgNKRLVLVLNKADLVPRENLNNWIKYFRRSGP 211
Cdd:COG1159  77 WSALEDVDVILFVVDATEKIGEGDEFILELLKKL--KTPVILVINKIDLVKKEELLPLLAEYSELLD 141
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 148-322 9.97e-07

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 51.20  E-value: 9.97e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990  148 IENADVVLEVVDARDPLGTRCNEVERAVRGApgNKRLVLVLNKADLVPRENLnnwIKYFRRSG-----PVTAfkastqdq 222
Cdd:PRK00093  78 IEEADVILFVVDGRAGLTPADEEIAKILRKS--NKPVILVVNKVDGPDEEAD---AYEFYSLGlgepyPISA-------- 144

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990  223 ANRLGRRKLREMktekamqgsvcigaelLMSMLGNYCRNKGIKTSIRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVT 302
Cdd:PRK00093 145 EHGRGIGDLLDA----------------ILEELPEEEEEDEEDEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTT 208

                        170       180       190
                 ....*....|....*....|....*....|
gi 28572990  303 KsmqevelDS----------KIKLIDCPGI 322
Cdd:PRK00093 209 R-------DSidtpferdgqKYTLIDTAGI 231
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 145-201 1.41e-06

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 [Multi-domain]  Cd Length: 159  Bit Score: 48.26  E-value: 1.41e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 28572990 145 RKVIENADVVLEVVDARDPLgtrcNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN 201
Cdd:cd04164  77 REAIEEADLVLLVVDASEGL----DEEDLEILELPAKKPVIVVLNKSDLLSDAEGIS 129
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
270-340 1.82e-06

Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 50.41  E-value: 1.82e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28572990 270 VGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK--SMQEVELDSK-IKLIDCPGIVFTSGGENSHAVLKNAQR 340
Cdd:COG1160   5 VAIVGRPNVGKSTLFNRLTGRRDAIVDDTPGVTRdrIYGEAEWGGReFTLIDTGGIEPDDDDGLEAEIREQAEL 78
feoB TIGR00437
ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane ...
 274-322 3.46e-06

ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273077 [Multi-domain]  Cd Length: 591  Bit Score: 49.74  E-value: 3.46e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 28572990   274 GIPNVGKSSIINSLTrGRSCMVGSTPGVTKSMQEVEL---DSKIKLIDCPGI 322
Cdd:TIGR00437   1 GNPNVGKSTLFNALT-GANQTVGNWPGVTVEKKEGKLgfqGEDIEIVDLPGI 51
EngB COG0218
GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, ...
 277-321 4.54e-06

GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 439988 [Multi-domain]  Cd Length: 194  Bit Score: 47.37  E-value: 4.54e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 28572990 277 NVGKSSIINSLT-RGRSCMVGSTPGVTKSMQEVELDSKIKLIDCPG 321
Cdd:COG0218  33 NVGKSSLINALTnRKKLARTSKTPGKTQLINFFLINDKFYLVDLPG 78
GTPase_YsxC TIGR03598
ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase ...
 277-321 6.68e-06

ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes. [Protein synthesis, Other]


Pssm-ID: 274670 [Multi-domain]  Cd Length: 179  Bit Score: 46.70  E-value: 6.68e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 28572990   277 NVGKSSIINSLT-RGRSCMVGSTPGVTKSMQEVELDSKIKLIDCPG 321
Cdd:TIGR03598  28 NVGKSSLINALTnRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPG 73
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 150-287 6.75e-06

Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; YjeQ (YloQ in Bacillus subtilis) is a ribosomal small subunit-dependent GTPase; hence also known as RsgA. YjeQ is a late-stage ribosomal biogenesis factor involved in the 30S subunit maturation, and it represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain.


Pssm-ID: 206747 [Multi-domain]  Cd Length: 211  Bit Score: 47.39  E-value: 6.75e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 150 NADVVLEVVDARDPLgTRCNEVER---AVRGApgNKRLVLVLNKADLVPRENLNNWIKYFRRSGpVTAFKASTQDQanrl 226
Cdd:cd01854   2 NVDQVLIVFSLKEPF-FNLRLLDRylvAAEAS--GIEPVIVLNKADLVDDEELEELLEIYEKLG-YPVLAVSAKTG---- 73

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990 227 grrklremktekamqgsvcIGAELLMSMLGNycrnkgiKTSIRVGVVGipnVGKSSIINSL 287
Cdd:cd01854  74 -------------------EGLDELRELLKG-------KTSVLVGQSG---VGKSTLLNAL 105
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
145-205 9.19e-06

tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 48.18  E-value: 9.19e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990  145 RKVIENADVVLEVVDARDPLgtrcNEVERAVRGAPGNKRLVLVLNKADLVPRENLNNWIKY 205
Cdd:PRK05291 289 REAIEEADLVLLVLDASEPL----TEEDDEILEELKDKPVIVVLNKADLTGEIDLEEENGK 345
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 107-198 1.21e-05

E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.


Pssm-ID: 206726 [Multi-domain]  Cd Length: 168  Bit Score: 45.92  E-value: 1.21e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 107 RSTVHGIMHENDAQdqdekkyknAV--------TKEQSLKQYF-KEFRKVIENADVVLEVVDARDPLGTRCNEVERAVRG 177
Cdd:cd04163  39 RNRIRGIYTDDDAQ---------IIfvdtpgihKPKKKLGERMvKAAWSALKDVDLVLFVVDASEWIGEGDEFILELLKK 109

                        90       100
                ....*....|....*....|.
gi 28572990 178 ApgNKRLVLVLNKADLVPREN 198
Cdd:cd04163 110 S--KTPVILVLNKIDLVKDKE 128
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 268-323 2.98e-05

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 [Multi-domain]  Cd Length: 162  Bit Score: 44.67  E-value: 2.98e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990   268 IRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKS--MQEVELDS---KIKLIDCPGIV 323
Cdd:TIGR00231   2 IKIVIVGHPNVGKSTLLNSLLGNKGSITEYYPGTTRNyvTTVIEEDGktyKFNLLDTAGQE 62
era PRK00089
GTPase Era; Reviewed
 107-211 3.10e-05

GTPase Era; Reviewed


Pssm-ID: 234624 [Multi-domain]  Cd Length: 292  Bit Score: 46.19  E-value: 3.10e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990  107 RSTVHGIMHENDAQdqdekkyknAV--------TKEQSLKQYF-KEFRKVIENADVVLEVVDARDPLGTRCNEVERAVRG 177
Cdd:PRK00089  41 RHRIRGIVTEDDAQ---------IIfvdtpgihKPKRALNRAMnKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKK 111

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 28572990  178 ApgNKRLVLVLNKADLV-PRENLNNWIKYFRRSGP 211
Cdd:PRK00089 112 V--KTPVILVLNKIDLVkDKEELLPLLEELSELMD 144
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 145-200 3.41e-05

tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal structure and biogenesis]; tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440253 [Multi-domain]  Cd Length: 448  Bit Score: 46.59  E-value: 3.41e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 28572990 145 RKVIENADVVLEVVDARDPLgtrcNEVERAVRGAPGNKRLVLVLNKADLVPRENLN 200
Cdd:COG0486 287 REAIEEADLVLLLLDASEPL----TEEDEEILEKLKDKPVIVVLNKIDLPSEADGE 338
Rbg1 COG1163
Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];
270-357 6.59e-05

Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440777 [Multi-domain]  Cd Length: 368  Bit Score: 45.56  E-value: 6.59e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 270 VGVVGIPNVGKSSIINSLTRGRScMVG----STPGVTKSMQEVElDSKIKLIDCPGIV---FTSGGENSH--AVLKNAQR 340
Cdd:COG1163  66 VVLVGFPSVGKSTLLNKLTNAKS-EVGayefTTLDVVPGMLEYK-GAKIQILDVPGLIegaASGKGRGKEvlSVVRNADL 143

                        90
                ....*....|....*...
gi 28572990 341 VGDVKDPFTIAE-SVLKR 357
Cdd:COG1163 144 ILIVLDVFELEQyDVLKE 161
PRK04213 PRK04213
GTP-binding protein EngB;
265-327 7.09e-05

GTP-binding protein EngB;


Pssm-ID: 179790 [Multi-domain]  Cd Length: 201  Bit Score: 44.14  E-value: 7.09e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28572990  265 KTSIRVGVVGIPNVGKSSIINSLTrGRSCMVGSTPGVTKSMQEVELDSKIkLIDCPGIVFTSG 327
Cdd:PRK04213   7 DRKPEIVFVGRSNVGKSTLVRELT-GKKVRVGKRPGVTRKPNHYDWGDFI-LTDLPGFGFMSG 67
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 145-198 7.11e-05

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: 463649 [Multi-domain]  Cd Length: 326  Bit Score: 45.16  E-value: 7.11e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 28572990   145 RKVIENADVVLEVVDARDPLGTrcnEVERAVRGAPGNKRLVLVLNKADLVPREN 198
Cdd:pfam12631 168 REAIEEADLVLLVLDASRPLDE---EDLEILELLKDKKPIIVVLNKSDLLGEID 218
YeeP COG3596
Predicted GTPase [General function prediction only];
269-322 1.23e-04

Predicted GTPase [General function prediction only];


Pssm-ID: 442815 [Multi-domain]  Cd Length: 318  Bit Score: 44.37  E-value: 1.23e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 28572990 269 RVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELDSK----IKLIDCPGI 322
Cdd:COG3596  41 VIALVGKTGAGKSSLINALFGAEVAEVGVGRPCTREIQRYRLESDglpgLVLLDTPGL 98
DRG cd01896
Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding ...
 268-323 1.60e-04

Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.


Pssm-ID: 206683 [Multi-domain]  Cd Length: 233  Bit Score: 43.30  E-value: 1.60e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 268 IRVGVVGIPNVGKSSIINSLTRGRScMVGSTPGVTK----SMQEVElDSKIKLIDCPGIV 323
Cdd:cd01896   1 ARVALVGFPSVGKSTLLSKLTNTKS-EVAAYEFTTLtcvpGVMEYK-GAKIQLLDLPGII 58
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 271-340 2.48e-04

Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to form one major branch of the Obg family and the Ygr210 and YchF subfamilies form another branch. No GEFs, GAPs, or GDIs for Obg have been identified.


Pssm-ID: 206668 [Multi-domain]  Cd Length: 167  Bit Score: 42.00  E-value: 2.48e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28572990 271 GVVGIPNVGKSSIINSLTRGRScMVGSTPGVTKSMQ--EVELDS--KIKLIDCPGIV-FTSGGENS-HAVLKNAQR 340
Cdd:cd01881   1 GLVGLPNVGKSTLLSALTSAKV-EIASYPFTTLEPNvgVFEFGDgvDIQIIDLPGLLdGASEGRGLgEQILAHLYR 75
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 147-322 3.91e-04

RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are broadly conserved in bacteria and are indispensable for growth. The GTPase domain of RsgA is very similar to several P-loop GTPases, but differs in having a circular permutation of the GTPase structure described by a G4-G1-G3 pattern.


Pssm-ID: 427191 [Multi-domain]  Cd Length: 174  Bit Score: 41.37  E-value: 3.91e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   147 VIENADVVLEVVDARDPlGTRCNEVERAVRGAPGNK-RLVLVLNKADLV-PRENLNNWIKYFRRSGpVTAFKASTQDQAn 224
Cdd:pfam03193  19 IVANVDQAVIVFSLKEP-DFNLNLLDRFLVLAEASGiEPVIVLNKIDLLdEEEELEELLKIYRAIG-YPVLFVSAKTGE- 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990   225 rlgrrklremktekamqgsvciGAELLMSMLGNycrnkgiKTSIRVGVVGipnVGKSSIINSLTRGRSCMVGSTPGV--- 301
Cdd:pfam03193  96 ----------------------GIEALKELLKG-------KTTVLAGQSG---VGKSTLLNALLPELDLRTGEISEKlgr 143

                         170       180
                  ....*....|....*....|....*
gi 28572990   302 ----TKSMQEVELDSKIKLIDCPGI 322
Cdd:pfam03193 144 grhtTTHVELFPLPGGGLLIDTPGF 168
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
144-202 4.31e-04

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 41.51  E-value: 4.31e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990 144 FRKVIENADVVLEVVDARDPLgTRCNEVE--RAVRGAPGNKRLVLVLNKADLVPRENLNNW 202
Cdd:COG1100  73 YARQLTGASLYLFVVDGTREE-TLQSLYEllESLRRLGKKSPIILVLNKIDLYDEEEIEDE 132
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 269-322 4.35e-04

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 43.24  E-value: 4.35e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 28572990  269 RVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQE--VELDSKI-KLIDCPGI 322
Cdd:PRK09518 452 RVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDeiVEIDGEDwLFIDTAGI 508
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
265-322 4.47e-04

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 41.51  E-value: 4.47e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28572990 265 KTSIRVGVVGIPNVGKSSIINSLTRGR--SCMVGSTPGVTKSMQEVELDS---KIKLIDCPGI 322
Cdd:COG1100   1 MGEKKIVVVGTGGVGKTSLVNRLVGDIfsLEKYLSTNGVTIDKKELKLDGldvDLVIWDTPGQ 63
NOG cd01897
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ...
 272-322 4.50e-04

Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.


Pssm-ID: 206684 [Multi-domain]  Cd Length: 167  Bit Score: 41.01  E-value: 4.50e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 28572990 272 VVGIPNVGKSSIINSLTRGRScMVGSTPGVTKSMQEVELDSK---IKLIDCPGI 322
Cdd:cd01897   5 IAGYPNVGKSSLVNKLTRAKP-EVAPYPFTTKSLFVGHFDYKylrWQVIDTPGI 57
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 269-322 4.94e-04

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 43.03  E-value: 4.94e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 28572990  269 RVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQE--VELDSKI-KLIDCPGI 322
Cdd:PRK03003 213 RVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDslIELGGKTwRFVDTAGL 269
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 138-197 5.12e-04

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 [Multi-domain]  Cd Length: 161  Bit Score: 40.90  E-value: 5.12e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 138 KQYFKEFRKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRE 197
Cdd:cd00882  63 LGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPIILVGNKIDLLEER 122
era TIGR00436
GTP-binding protein Era; Era is an essential GTPase in Escherichia coli and many other ...
 268-322 6.59e-04

GTP-binding protein Era; Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein. [Protein synthesis, Other]


Pssm-ID: 129528 [Multi-domain]  Cd Length: 270  Bit Score: 41.99  E-value: 6.59e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28572990   268 IRVGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK-SMQEVELD--SKIKLIDCPGI 322
Cdd:TIGR00436   1 GFVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRnRISGIHTTgaSQIIFIDTPGF 58
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 270-303 7.48e-04

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 42.26  E-value: 7.48e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 28572990  270 VGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK 303
Cdd:PRK03003  41 VAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTR 74
Nog1 COG1084
GTP-binding protein, GTP1/Obg family [General function prediction only];
272-322 8.31e-04

GTP-binding protein, GTP1/Obg family [General function prediction only];


Pssm-ID: 440701 [Multi-domain]  Cd Length: 330  Bit Score: 41.74  E-value: 8.31e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 28572990 272 VVGIPNVGKSSIINSLTRGRScMVGSTPGVTKSMQ--EVELDS-KIKLIDCPGI 322
Cdd:COG1084 165 VAGYPNVGKSSLVSKVTSAKP-EIASYPFTTKGIIvgHFERGHgRYQVIDTPGL 217
DLP_2 cd09912
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The ...
 145-209 1.10e-03

Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.


Pssm-ID: 206739 [Multi-domain]  Cd Length: 180  Bit Score: 40.22  E-value: 1.10e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 145 RKVIENADVVLEVVDARDPLGtrcnEVERA----VRGAPGnKRLVLVLNKADLVPRENLNNWIKYFRRS 209
Cdd:cd09912  68 ESFLPRADAVIFVLSADQPLT----ESEREflkeILKWSG-KKIFFVLNKIDLLSEEELEEVLEYSREE 131
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 263-322 1.60e-03

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 [Multi-domain]  Cd Length: 159  Bit Score: 39.40  E-value: 1.60e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28572990 263 GIKTSIrvgvVGIPNVGKSSIINSLTRGRSCMVGSTPGVTKSMQEVELD---SKIKLIDCPGI 322
Cdd:cd04164   3 GIKVVI----AGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEEEIDlggIPVRLIDTAGL 61
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 270-303 2.02e-03

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 40.93  E-value: 2.02e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 28572990  270 VGVVGIPNVGKSSIINSLTRGRSCMVGSTPGVTK 303
Cdd:PRK09518 278 VAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTR 311
feoB PRK09554
Fe(2+) transporter permease subunit FeoB;
270-322 2.09e-03

Fe(2+) transporter permease subunit FeoB;


Pssm-ID: 236563 [Multi-domain]  Cd Length: 772  Bit Score: 41.24  E-value: 2.09e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 28572990  270 VGVVGIPNVGKSSIINSLTRGRScMVGSTPGVT---KSMQEVELDSKIKLIDCPGI 322
Cdd:PRK09554   6 IGLIGNPNSGKTTLFNQLTGARQ-RVGNWAGVTverKEGQFSTTDHQVTLVDLPGT 60
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 146-208 2.24e-03

EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.


Pssm-ID: 206682 [Multi-domain]  Cd Length: 174  Bit Score: 39.34  E-value: 2.24e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28572990 146 KVIENADVVLEVVDARDPLgtrcNE-----VERAVRgapGNKRLVLVLNKADLVP--RENLNNWIKYFRR 208
Cdd:cd01895  80 KAIERADVVLLVLDASEGI----TEqdlriAGLILE---EGKALIIVVNKWDLVEkdEKTMKEFEKELRR 142
Obg cd01898
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress ...
 270-291 3.03e-03

Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.


Pssm-ID: 206685 [Multi-domain]  Cd Length: 170  Bit Score: 38.94  E-value: 3.03e-03
                        10        20
                ....*....|....*....|..
gi 28572990 270 VGVVGIPNVGKSSIINSLTRGR 291
Cdd:cd01898   3 VGLVGLPNAGKSTLLSAISNAK 24
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 146-208 3.04e-03

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 40.42  E-value: 3.04e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28572990  146 KVIENADVVLEVVDARDPLGtrcnE--------VERAVRGapgnkrLVLVLNKADLVPRENLNNWIKYFRR 208
Cdd:PRK00093 251 KAIERADVVLLVIDATEGIT----EqdlriaglALEAGRA------LVIVVNKWDLVDEKTMEEFKKELRR 311
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
146-208 4.75e-03

Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 39.62  E-value: 4.75e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28572990 146 KVIENADVVLEVVDARDPLGTR----CNEVERAVRGapgnkrLVLVLNKADLVPREN--LNNWIKYFRR 208
Cdd:COG1160 253 RAIERADVVLLVIDATEGITEQdlkiAGLALEAGKA------LVIVVNKWDLVEKDRktREELEKEIRR 315
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 263-289 6.69e-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: 463649 [Multi-domain]  Cd Length: 326  Bit Score: 39.00  E-value: 6.69e-03
                          10        20
                  ....*....|....*....|....*..
gi 28572990   263 GIKTSIrvgvVGIPNVGKSSIINSLTR 289
Cdd:pfam12631  94 GIKVVI----VGKPNVGKSSLLNALLG 116
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH