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Conserved domains on  [gi|568956981|ref|XP_006531149|]
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NACHT domain- and WD repeat-containing protein 1 isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
864-1211 8.02e-29

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.79  E-value: 8.02e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  864 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 943
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  944 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 1023
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1024 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 1100
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1101 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 1178
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956981 1179 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1211
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
1061-1428 2.46e-26

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 2.46e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1061 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1136
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1137 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1214
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1215 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1293
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1294 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1371
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956981 1372 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1428
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
ExeA super family cl30749
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


The actual alignment was detected with superfamily member COG3267:

Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956981  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
864-1211 8.02e-29

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.79  E-value: 8.02e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  864 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 943
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  944 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 1023
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1024 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 1100
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1101 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 1178
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956981 1179 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1211
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 870-1166 1.73e-27

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 113.97  E-value: 1.73e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  870 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 949
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  950 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 1028
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1029 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 1105
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568956981 1106 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWS 1166
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
1061-1428 2.46e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 2.46e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1061 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1136
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1137 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1214
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1215 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1293
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1294 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1371
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956981 1372 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1428
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1148-1471 3.25e-17

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 83.92  E-value: 3.25e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1148 PENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVS--LLVRGGTLVVSASrksssfkvwdlkstkklqsptpfLDRT 1225
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDL-ETGELLRTLKGHTGPVRdvAASADGTYLASGS-----------------------SDKT 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1226 glaavshhgsfvyfpkvgdknkVTIWDLAEGEeqdCLDT----SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVL 1301
Cdd:cd00200    75 ----------------------IRLWDLETGE---CVRTltghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLT 129

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1302 CIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDG 1379
Cdd:cd00200   130 TLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCVATLTGHT--------GEVNSVAFSPDgEKLLSSSSDG 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1380 SLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKH 1457
Cdd:cd00200   200 TIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKR 275

                         330
                  ....*....|....
gi 568956981 1458 VFAGMEDRSVTAWS 1471
Cdd:cd00200   276 LASGSADGTIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 911-948 1.31e-06

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 46.54  E-value: 1.31e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956981    911 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 948
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
911-948 1.41e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.49  E-value: 1.41e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 568956981   911 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 948
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956981  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 315-361 7.15e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 7.15e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568956981  315 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 361
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 313-351 7.58e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.14  E-value: 7.58e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568956981  313 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 351
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 337-504 2.28e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.37  E-value: 2.28e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981   337 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 412
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981   413 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 492
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 568956981   493 KALSGSQGQEFI 504
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1389-1426 2.34e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 37.29  E-value: 2.34e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956981   1389 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1426
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1394-1426 2.88e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.88e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 568956981  1394 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1426
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 313-351 6.42e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 6.42e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 568956981   313 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 351
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
864-1211 8.02e-29

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.79  E-value: 8.02e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  864 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 943
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  944 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 1023
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1024 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 1100
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1101 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 1178
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956981 1179 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1211
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 870-1166 1.73e-27

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 113.97  E-value: 1.73e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  870 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 949
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  950 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 1028
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1029 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 1105
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568956981 1106 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWS 1166
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
867-1254 2.37e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 2.37e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  867 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 946
Cdd:COG2319    67 AGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRL 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  947 WSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 1026
Cdd:COG2319   147 WDLATGKL-LRTLTG-------------HSGAVTSVAFSPDGKLL-------------ASG------------------- 180

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1027 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 1103
Cdd:COG2319   181 --SDDGTVRLWDLATGKLL--RTLTGHTGAVRSVAFSPDGK-LLASGSADGTVRLWDLATGKLLRTLTghsGSVRSVAFS 255

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1104 EDDSLLV-AGFGRFVRIFLADSQGFHRFMASdleHEDMVETAVLGPENNLIITGSRDALIQVWSLSEqGTLLNVLEGVGA 1182
Cdd:COG2319   256 PDGRLLAsGSADGTVRLWDLATGELLRTLTG---HSGGVNSVAFSPDGKLLASGSDDGTVRLWDLAT-GKLLRTLTGHTG 331

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568956981 1183 PVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLA 1254
Cdd:COG2319   332 AVRSVAfsPDGKTLASGSD-DGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLAS--GSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
1061-1428 2.46e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 2.46e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1061 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1136
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1137 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1214
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1215 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1293
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1294 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1371
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956981 1372 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1428
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
1061-1472 3.56e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.08  E-value: 3.56e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1061 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPEAVGFLVVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDM 1140
Cdd:COG2319     3 SADGAALAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALL--ATLLGHTAA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1141 VETAVLGPENNLIITGSRDALIQVWSLSeQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSP 1218
Cdd:COG2319    81 VLSVAFSPDGRLLASASADGTVRLWDLA-TGLLLRTLTGHTGAVRSVAfsPDGKTLASGSA-DGTVRLWDLATGKLLRTL 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1219 TPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSR 1297
Cdd:COG2319   159 TGHSGAVTSVAFSPDGKLLAS--GSDDGTVRLWDLATGKLLRTLTgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1298 QDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYG 1375
Cdd:COG2319   237 KLLRTLTGHSGS--VRSVAFSPDGRLLASGsADGTVRLWDLATGELLRTLTGHS--------GGVNSVAFSPDgKLLASG 306

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1376 MSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRD 1454
Cdd:COG2319   307 SDDGTVRLWDLATGKlLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHTG---AVTSVAFSPD 383

                         410
                  ....*....|....*...
gi 568956981 1455 DKHVFAGMEDRSVTAWST 1472
Cdd:COG2319   384 GRTLASGSADGTVRLWDL 401
WD40 COG2319
WD40 repeat [General function prediction only];
867-1283 1.14e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 111.54  E-value: 1.14e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  867 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 946
Cdd:COG2319    25 LGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRL 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  947 WSLLSGQEKVTILDggsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 1026
Cdd:COG2319   105 WDLATGLLLRTLTG--------------HTGAVRSVAFSPDGKTL-------------ASG------------------- 138

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1027 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 1103
Cdd:COG2319   139 --SADGTVRLWDLATGKLL--RTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLLRTLTghtGAVRSVAFS 213

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1104 EDDSLLV-AGFGRFVRIFLADSQGFHRFMASdleHEDMVETAVLGPENNLIITGSRDALIQVWSLSEqGTLLNVLEGVGA 1182
Cdd:COG2319   214 PDGKLLAsGSADGTVRLWDLATGKLLRTLTG---HSGSVRSVAFSPDGRLLASGSADGTVRLWDLAT-GELLRTLTGHSG 289

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1183 PVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQD 1260
Cdd:COG2319   290 GVNSVAfsPDGKLLASGSD-DGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLAS--GSDDGTVRLWDLATGELLR 366

                         410       420
                  ....*....|....*....|....
gi 568956981 1261 CLDT-SNEVRCLEVAEQAKLLFTG 1283
Cdd:COG2319   367 TLTGhTGAVTSVAFSPDGRTLASG 390
WD40 COG2319
WD40 repeat [General function prediction only];
1101-1484 3.10e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 104.22  E-value: 3.10e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1101 VVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDMVETAVLGPENNLIITGSRDALIQVWSLSEQGTLLNVLEGV 1180
Cdd:COG2319     1 ALSADGAALAAASADLALALLAAALGALL--LLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1181 GAPVSLLVRGGTLVVSASRKSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQD 1260
Cdd:COG2319    79 AAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLAS--GSADGTVRLWDLATGKLLR 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1261 CLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDIS 1338
Cdd:COG2319   157 TLTGhSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA--VRSVAFSPDGKLLASGsADGTVRLWDLA 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1339 PGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSG 1416
Cdd:COG2319   235 TGKLLRTLTGHS--------GSVRSVAFSPDgRLLASGSADGTVRLWDLATGElLRTLTGHSGGVNSVAFSPDGKLLASG 306

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568956981 1417 AEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1484
Cdd:COG2319   307 SDDGTVRLWDLATGKLLRTLTGHTG---AVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGH 371
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 868-1007 1.23e-17

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 85.08  E-value: 1.23e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  868 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLW 947
Cdd:cd00200   125 GKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLW 204

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568956981  948 SLLSGQEKVTIldGGSQNPtepqSWDLHVDERNNVVYSTSGAR-INMWNLETSKLVFCITG 1007
Cdd:cd00200   205 DLSTGKCLGTL--RGHENG----VNSVAFSPDGYLLASGSEDGtIRVWDLRTGECVQTLSG 259
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1148-1471 3.25e-17

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 83.92  E-value: 3.25e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1148 PENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVS--LLVRGGTLVVSASrksssfkvwdlkstkklqsptpfLDRT 1225
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDL-ETGELLRTLKGHTGPVRdvAASADGTYLASGS-----------------------SDKT 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1226 glaavshhgsfvyfpkvgdknkVTIWDLAEGEeqdCLDT----SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVL 1301
Cdd:cd00200    75 ----------------------IRLWDLETGE---CVRTltghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLT 129

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1302 CIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDG 1379
Cdd:cd00200   130 TLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCVATLTGHT--------GEVNSVAFSPDgEKLLSSSSDG 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1380 SLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKH 1457
Cdd:cd00200   200 TIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKR 275

                         330
                  ....*....|....
gi 568956981 1458 VFAGMEDRSVTAWS 1471
Cdd:cd00200   276 LASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 865-948 2.88e-14

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 75.06  E-value: 2.88e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  865 PPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTL 944
Cdd:cd00200   206 LSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTI 285


                  ....
gi 568956981  945 RLWS 948
Cdd:cd00200   286 RIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1265-1484 1.96e-13

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 72.75  E-value: 1.96e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1265 SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPppEARKAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPC 1343
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLK--GHTGPVRDVAASADGTYLASGsSDKTIRLWDLETGECV 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1344 PAIEGPTytfytqlpETIVSVAVLADYRVVYG-MSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDAL 1421
Cdd:cd00200    87 RTLTGHT--------SYVSSVAFSPDGRILSSsSRDKTIKVWDVETGKcLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568956981 1422 LCLWDLQA--CRGMFEMSYENsccrgVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1484
Cdd:cd00200   159 IKLWDLRTgkCVATLTGHTGE-----VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH 218
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 911-948 1.31e-06

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 46.54  E-value: 1.31e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956981    911 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 948
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
911-948 1.41e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.49  E-value: 1.41e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 568956981   911 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 948
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956981  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
WDR74 cd22857
WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and ...
 1306-1428 2.09e-04

WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and plants is an essential factor for ribosome assembly. In cooperation with the assembly factor NVL2, WDR74 participates in an early cleavage of the pre-rRNA processing pathway. NVL2 is a type II double ring, AAA-ATPase, that may mediate the release of WDR74 from nucleolar pre-60S particles. WDR74 has been implicated in tumorigenesis. In lung cancer, it regulates cell proliferation, cell cycle progression, chemoresistance and cell aggressiveness, by inducing nuclear beta-catenin accumulation and driving downstream Wnt-responsive genes expression. In melanoma, it promotes apoptosis resistance and aggressive behavior by regulating the RPL5-MDM2-p53 pathway. WDR74 contains an N-terminal seven-bladed beta-propeller WD40 domain that associates with the D1-AAA domain of the AAA-ATPase NVL2, and a flexible lysine-rich C-terminus that extends outward from the WD40 domain, and is required for nucleolar localization.


Pssm-ID: 439303 [Multi-domain]  Cd Length: 325  Bit Score: 45.30  E-value: 2.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981 1306 PEARKAVNCMSLS--KSENRLAIAY-DNIVLVLDISPGDPCPAIEGPTYTFYTQLPETIVSVAVLAdyRVVYGMSD-GSL 1381
Cdd:cd22857    27 PDKSKAVQALSIAdrESEPLLAVARkNGTVEVLDPENGDLLASFSDSEPATKLSEEDHFVGLHLFS--GTLLTCTSkGSL 104

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 568956981 1382 FLY-----DCACSKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1428
Cdd:cd22857   105 RSTklpddSTASSSPTAWVCLGGNLLCMRVDPNENYFAFGGKEVELNVWDLE 156
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 881-926 3.47e-04

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 41.11  E-value: 3.47e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 568956981   881 ITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCV 926
Cdd:pfam12894   41 VTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVHHFSAGSDLITCL 86
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 315-361 7.15e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 7.15e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568956981  315 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 361
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 313-351 7.58e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.14  E-value: 7.58e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568956981  313 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 351
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 337-504 2.28e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.37  E-value: 2.28e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981   337 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 412
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956981   413 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 492
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 568956981   493 KALSGSQGQEFI 504
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1389-1426 2.34e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 37.29  E-value: 2.34e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956981   1389 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1426
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1394-1426 2.88e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.88e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 568956981  1394 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1426
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 pfam00400
WD domain, G-beta repeat;
868-906 3.48e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.55  E-value: 3.48e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 568956981   868 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 906
Cdd:pfam00400    1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 868-906 5.61e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 36.14  E-value: 5.61e-03
                            10        20        30
                    ....*....|....*....|....*....|....*....
gi 568956981    868 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 906
Cdd:smart00320    2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 313-351 6.42e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 6.42e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 568956981   313 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 351
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
316-366 7.65e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 40.34  E-value: 7.65e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568956981  316 HQELLAQLRQQLRQDesRTHTPLVLFGPPGIGKTSLMCKLAQqvpELLGHK 366
Cdd:COG0470     1 QEEAWEQLLAAAESG--RLPHALLLHGPPGIGKTTLALALAR---DLLCEN 46
 
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.
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