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Conserved domains on  [gi|1958780779|ref|XP_038967333|]
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DDB1- and CUL4-associated factor 12 isoform X3 [Rattus norvegicus]

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];
77-259 8.18e-10

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 60.31  E-value: 8.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  77 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 156
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 157 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 235
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780779 236 FNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
77-259 8.18e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 60.31  E-value: 8.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  77 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 156
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 157 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 235
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780779 236 FNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 61-255 2.27e-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: 55.03  E-value: 2.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  61 HLGTLNKVfaSQWLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNPSRTFLATGGDNpNS 140
Cdd:cd00200    50 HTGPVRDV--AASADGTYLASGSSDKTIRLWDLETGECV-------RTLTGHTS---YVSSVAFSPDGRILSSSSRD-KT 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 141 LAIYRLPTldPVCVGD-DGHKDWIFSIAWI-NDTMAVSGSRDGSMGLWEVTddvltksdarhnvSPVPVYAHITHkalkd 218
Cdd:cd00200   117 IKVWDVET--GKCLTTlRGHTDWVNSVAFSpDGTFVASSSQDGTIKLWDLR-------------TGKCVATLTGH----- 176

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780779 219 ipkedtnpdNCKVRALAFNNKNKELGAVSLDGYFHLW 255
Cdd:cd00200   177 ---------TGEVNSVAFSPDGEKLLSSSSDGTIKLW 204
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 157-187 7.12e-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: 34.21  E-value: 7.12e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1958780779  157 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWE 187
Cdd:smart00320   9 KGHTGPVTSVAFSPDgKYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
77-259 8.18e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 60.31  E-value: 8.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  77 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 156
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 157 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 235
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780779 236 FNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 61-255 2.27e-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: 55.03  E-value: 2.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  61 HLGTLNKVfaSQWLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNPSRTFLATGGDNpNS 140
Cdd:cd00200    50 HTGPVRDV--AASADGTYLASGSSDKTIRLWDLETGECV-------RTLTGHTS---YVSSVAFSPDGRILSSSSRD-KT 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 141 LAIYRLPTldPVCVGD-DGHKDWIFSIAWI-NDTMAVSGSRDGSMGLWEVTddvltksdarhnvSPVPVYAHITHkalkd 218
Cdd:cd00200   117 IKVWDVET--GKCLTTlRGHTDWVNSVAFSpDGTFVASSSQDGTIKLWDLR-------------TGKCVATLTGH----- 176

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780779 219 ipkedtnpdNCKVRALAFNNKNKELGAVSLDGYFHLW 255
Cdd:cd00200   177 ---------TGEVNSVAFSPDGEKLLSSSSDGTIKLW 204
WD40 COG2319
WD40 repeat [General function prediction only];
77-259 5.51e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 54.53  E-value: 5.51e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  77 RQVVCGTKCNTLFVVDVQTGQITKIpiLKDREPGgvtqqgcgIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVCVGD 156
Cdd:COG2319   217 KLLASGSADGTVRLWDLATGKLLRT--LTGHSGS--------VRSVAFSPDGRLLASGSAD-GTVRLWDLATGELLRTLT 285

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 157 dGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdipkedtnpdnckVRALA 235
Cdd:COG2319   286 -GHSGGVNSVAFSPDgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA---------------------------VRSVA 337

                         170       180
                  ....*....|....*....|....
gi 1958780779 236 FNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   338 FSPDGKTLASGSDDGTVRLWDLAT 361
WD40 COG2319
WD40 repeat [General function prediction only];
77-259 1.24e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 53.38  E-value: 1.24e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  77 RQVVCGTKCNTLFVVDVQTGQitKIPILKDREPGgvtqqgcgIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVCVGD 156
Cdd:COG2319   175 KLLASGSDDGTVRLWDLATGK--LLRTLTGHTGA--------VRSVAFSPDGKLLASGSAD-GTVRLWDLATGKLLRTLT 243

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 157 dGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdipkedtnpdnckVRALA 235
Cdd:COG2319   244 -GHSGSVRSVAFSPDgRLLASGSADGTVRLWDLATGELLRTLTGHSGG---------------------------VNSVA 295

                         170       180
                  ....*....|....*....|....
gi 1958780779 236 FNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   296 FSPDGKLLASGSDDGTVRLWDLAT 319
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 61-256 1.26e-07

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: 52.72  E-value: 1.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  61 HLGTLNKVFASQwlNHRQVVCGTKCNTLFVVDVQTGQITKIpiLKDREpggvtqqgCGIHAIELNPSRTFLATGGDNpNS 140
Cdd:cd00200   134 HTDWVNSVAFSP--DGTFVASSSQDGTIKLWDLRTGKCVAT--LTGHT--------GEVNSVAFSPDGEKLLSSSSD-GT 200

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 141 LAIYRLPTLDPVCVGDdGHKDWIFSIAWINDT-MAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdi 219
Cdd:cd00200   201 IKLWDLSTGKCLGTLR-GHENGVNSVAFSPDGyLLASGSEDGTIRVWDLRTGECVQTLSGHTNS---------------- 263

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780779 220 pkedtnpdnckVRALAFNNKNKELGAVSLDGYFHLWK 256
Cdd:cd00200   264 -----------VTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
47-259 1.83e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 49.91  E-value: 1.83e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  47 AAQQLPSLLKEREFHLGTLNKVFASqwLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNP 126
Cdd:COG2319    63 LDAAAGALLATLLGHTAAVLSVAFS--PDGRLLASASADGTVRLWDLATGLLL-------RTLTGHTG---AVRSVAFSP 130

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779 127 SRTFLATGGDNpNSLAIYRLPTLDPVCVGDdGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpv 205
Cdd:COG2319   131 DGKTLASGSAD-GTVRLWDLATGKLLRTLT-GHSGAVTSVAFSPDgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA-- 206

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958780779 206 pvyahithkalkdipkedtnpdnckVRALAFNNKNKELGAVSLDGYFHLWKAEN 259
Cdd:COG2319   207 -------------------------VRSVAFSPDGKLLASGSADGTVRLWDLAT 235
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 63-196 1.08e-05

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: 46.94  E-value: 1.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780779  63 GTLNKVFASQWLNHRQVVC-GTKCNTLFVVDVQTGQITKipilkdrepggvTQQGcgiHAIELN-----PSRTFLATGGD 136
Cdd:cd00200     7 GHTGGVTCVAFSPDGKLLAtGSGDGTIKVWDLETGELLR------------TLKG---HTGPVRdvaasADGTYLASGSS 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958780779 137 NpNSLAIYRLPTldPVCVGD-DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKS 196
Cdd:cd00200    72 D-KTIRLWDLET--GECVRTlTGHTSYVSSVAFSPDgRILSSSSRDKTIKVWDVETGKCLTT 130
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 157-187 7.12e-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: 34.21  E-value: 7.12e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1958780779  157 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWE 187
Cdd:smart00320   9 KGHTGPVTSVAFSPDgKYLASGSDDGTIKLWD 40
 
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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