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Conserved domains on  [gi|1060099324|ref|NP_001317413|]
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guanine nucleotide-exchange factor SEC12 isoform 2 [Homo sapiens]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 11455410)

WD40 repeat domain-containing protein similar to proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly

CATH:  2.130.10.10
PubMed:  10322433|8090199
SCOP:  4002744

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
88-281 8.47e-15

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 74.56  E-value: 8.47e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVW--QKDQLVTQLHWQEN 164
Cdd:COG2319   210 VAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRlLASGSADGTVRLWdlATGELLRTLTGHSG 289
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 165 GPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWDGSNFLPLRTKSCGHEVVSCLD 235
Cdd:COG2319   290 GVNsvaFS--------------PD---GKLLAsgsddgTVRL---------------WDLATGKLLRTLTGHTGAVRSVA 337
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1060099324 236 VSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   338 FSPDGKTLASGSDDGTVRLWDLATGELL-RTLTGHTGAVTSVAFSP 382
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
88-281 8.47e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 74.56  E-value: 8.47e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVW--QKDQLVTQLHWQEN 164
Cdd:COG2319   210 VAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRlLASGSADGTVRLWdlATGELLRTLTGHSG 289
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 165 GPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWDGSNFLPLRTKSCGHEVVSCLD 235
Cdd:COG2319   290 GVNsvaFS--------------PD---GKLLAsgsddgTVRL---------------WDLATGKLLRTLTGHTGAVRSVA 337
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1060099324 236 VSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   338 FSPDGKTLASGSDDGTVRLWDLATGELL-RTLTGHTGAVTSVAFSP 382
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
87-303 2.63e-11

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: 63.51  E-value: 2.63e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  87 VVCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVWQKD------------ 153
Cdd:cd00200    14 CVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTyLASGSSDKTIRLWDLEtgecvrtltght 93
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 154 QLVTQLHWQENGPTFSSTpYRYQACRFGQVPDqpaGLRLFTVQiPHKR----LRQPPP----------CYLTAWDGSNFL 219
Cdd:cd00200    94 SYVSSVAFSPDGRILSSS-SRDKTIKVWDVET---GKCLTTLR-GHTDwvnsVAFSPDgtfvasssqdGTIKLWDLRTGK 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 220 PLRTKScGHE-VVSCLDVSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP----------------- 281
Cdd:cd00200   169 CVATLT-GHTgEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCL-GTLRGHENGVNSVAFSPdgyllasgsedgtirvw 246
                         250       260
                  ....*....|....*....|....
gi 1060099324 282 --EKGRGPELLGSHETALFSVAVD 303
Cdd:cd00200   247 dlRTGECVQTLSGHTNSVTSLAWS 270
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
88-110 1.83e-04

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: 38.45  E-value: 1.83e-04
                           10        20
                   ....*....|....*....|...
gi 1060099324   88 VCFNHDNTLLATGGTDGYVRVWK 110
Cdd:smart00320  18 VAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
88-109 1.68e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.78  E-value: 1.68e-03
                          10        20
                  ....*....|....*....|..
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVW 109
Cdd:pfam00400  17 LAFSPDGKLLASGSDDGTVKVW 38
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
88-281 8.47e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 74.56  E-value: 8.47e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVW--QKDQLVTQLHWQEN 164
Cdd:COG2319   210 VAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRlLASGSADGTVRLWdlATGELLRTLTGHSG 289
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 165 GPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWDGSNFLPLRTKSCGHEVVSCLD 235
Cdd:COG2319   290 GVNsvaFS--------------PD---GKLLAsgsddgTVRL---------------WDLATGKLLRTLTGHTGAVRSVA 337
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1060099324 236 VSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   338 FSPDGKTLASGSDDGTVRLWDLATGELL-RTLTGHTGAVTSVAFSP 382
WD40 COG2319
WD40 repeat [General function prediction only];
88-281 4.32e-13

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 69.55  E-value: 4.32e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVW--QKDQLVTQLHWQEN 164
Cdd:COG2319   168 VAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKlLASGSADGTVRLWdlATGKLLRTLTGHSG 247
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 165 GPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWDGSNFLPLRTKSCGHEVVSCLD 235
Cdd:COG2319   248 SVRsvaFS--------------PD---GRLLAsgsadgTVRL---------------WDLATGELLRTLTGHSGGVNSVA 295
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1060099324 236 VSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   296 FSPDGKLLASGSDDGTVRLWDLATGKLL-RTLTGHTGAVRSVAFSP 340
WD40 COG2319
WD40 repeat [General function prediction only];
88-281 3.66e-12

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 66.86  E-value: 3.66e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVW--QKDQLVTQLHWQEN 164
Cdd:COG2319   126 VAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKlLASGSDDGTVRLWdlATGKLLRTLTGHTG 205
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 165 GPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWDGSNFLPLRTKSCGHEVVSCLD 235
Cdd:COG2319   206 AVRsvaFS--------------PD---GKLLAsgsadgTVRL---------------WDLATGKLLRTLTGHSGSVRSVA 253
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1060099324 236 VSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   254 FSPDGRLLASGSADGTVRLWDLATGELL-RTLTGHSGGVNSVAFSP 298
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
87-303 2.63e-11

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: 63.51  E-value: 2.63e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  87 VVCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVWQKD------------ 153
Cdd:cd00200    14 CVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTyLASGSSDKTIRLWDLEtgecvrtltght 93
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 154 QLVTQLHWQENGPTFSSTpYRYQACRFGQVPDqpaGLRLFTVQiPHKR----LRQPPP----------CYLTAWDGSNFL 219
Cdd:cd00200    94 SYVSSVAFSPDGRILSSS-SRDKTIKVWDVET---GKCLTTLR-GHTDwvnsVAFSPDgtfvasssqdGTIKLWDLRTGK 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 220 PLRTKScGHE-VVSCLDVSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP----------------- 281
Cdd:cd00200   169 CVATLT-GHTgEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCL-GTLRGHENGVNSVAFSPdgyllasgsedgtirvw 246
                         250       260
                  ....*....|....*....|....
gi 1060099324 282 --EKGRGPELLGSHETALFSVAVD 303
Cdd:cd00200   247 dlRTGECVQTLSGHTNSVTSLAWS 270
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
86-251 3.25e-11

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: 63.12  E-value: 3.25e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  86 KVVCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDG-KLVTVGRDLKASVW--QKDQLVTQLHWQ 162
Cdd:cd00200   139 NSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGeKLLSSSSDGTIKLWdlSTGKCLGTLRGH 218
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 163 ENGPTfsstpyryqACRFGqvPDQpaglRLFTVQIPHKRLRQpppcyltaWDGSNFLPLRTKScGHEV-VSCLDVSESGT 241
Cdd:cd00200   219 ENGVN---------SVAFS--PDG----YLLASGSEDGTIRV--------WDLRTGECVQTLS-GHTNsVTSLAWSPDGK 274
                         170
                  ....*....|
gi 1060099324 242 FLglgtVTGS 251
Cdd:cd00200   275 RL----ASGS 280
WD40 COG2319
WD40 repeat [General function prediction only];
88-151 7.70e-11

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 62.62  E-value: 7.70e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVWQ 151
Cdd:COG2319   336 VAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRtLASGSADGTVRLWD 400
WD40 COG2319
WD40 repeat [General function prediction only];
67-281 2.01e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 58.38  E-value: 2.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324  67 LRVENLQAVQTDFSSDPLQKVVCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDL 145
Cdd:COG2319    63 LDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKtLASGSADG 142
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099324 146 KASVW--QKDQLVTQLHWQENGPT---FSstpyryqacrfgqvPDqpaGLRLF------TVQIphkrlrqpppcyltaWD 214
Cdd:COG2319   143 TVRLWdlATGKLLRTLTGHSGAVTsvaFS--------------PD---GKLLAsgsddgTVRL---------------WD 190
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1060099324 215 GSNFLPLRTKSCGHEVVSCLDVSESGTFLGLGTVTGSVAIYIAFSLQCLyYVREAHGIVVTDVAFLP 281
Cdd:COG2319   191 LATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLL-RTLTGHSGSVRSVAFSP 256
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
88-151 6.19e-08

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: 53.11  E-value: 6.19e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVWKVPSLEKVLEFKAHEGEIEDLALGPDGK-LVTVGRDLKASVWQ 151
Cdd:cd00200   225 VAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKrLASGSADGTIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
88-110 1.83e-04

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: 38.45  E-value: 1.83e-04
                           10        20
                   ....*....|....*....|...
gi 1060099324   88 VCFNHDNTLLATGGTDGYVRVWK 110
Cdd:smart00320  18 VAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
88-109 1.68e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.78  E-value: 1.68e-03
                          10        20
                  ....*....|....*....|..
gi 1060099324  88 VCFNHDNTLLATGGTDGYVRVW 109
Cdd:pfam00400  17 LAFSPDGKLLASGSDDGTVKVW 38
 
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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