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Conserved domains on  [gi|1958780777|ref|XP_038967332|]
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DDB1- and CUL4-associated factor 12 isoform X2 [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

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
95-277 1.13e-09

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.92  E-value: 1.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  95 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 174
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 175 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 253
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780777 254 FNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
95-277 1.13e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.92  E-value: 1.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  95 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 174
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 175 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 253
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780777 254 FNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 79-273 1.78e-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: 55.42  E-value: 1.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  79 HLGTLNKVfaSQWLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNPSRTFLATGGDNpNS 158
Cdd:cd00200    50 HTGPVRDV--AASADGTYLASGSSDKTIRLWDLETGECV-------RTLTGHTS---YVSSVAFSPDGRILSSSSRD-KT 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 159 LAIYRLPTldPVCVGD-DGHKDWIFSIAWI-NDTMAVSGSRDGSMGLWEVTddvltksdarhnvSPVPVYAHITHkalkd 236
Cdd:cd00200   117 IKVWDVET--GKCLTTlRGHTDWVNSVAFSpDGTFVASSSQDGTIKLWDLR-------------TGKCVATLTGH----- 176

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780777 237 ipkedtnpdNCKVRALAFNNKNKELGAVSLDGYFHLW 273
Cdd:cd00200   177 ---------TGEVNSVAFSPDGEKLLSSSSDGTIKLW 204
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 175-205 6.22e-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: 34.60  E-value: 6.22e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1958780777  175 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWE 205
Cdd:smart00320   9 KGHTGPVTSVAFSPDgKYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
95-277 1.13e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.92  E-value: 1.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  95 RQVVCGTKCNTLFVVDVQTGQITKIpilkdrepggVTQQGCGIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVcVGD 174
Cdd:COG2319   259 RLLASGSADGTVRLWDLATGELLRT----------LTGHSGGVNSVAFSPDGKLLASGSDD-GTVRLWDLATGKLL-RTL 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 175 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHnvspvpvyahithkalkdipkedTNPdnckVRALA 253
Cdd:COG2319   327 TGHTGAVRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH-----------------------TGA----VTSVA 379

                         170       180
                  ....*....|....*....|....
gi 1958780777 254 FNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   380 FSPDGRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 79-273 1.78e-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: 55.42  E-value: 1.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  79 HLGTLNKVfaSQWLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNPSRTFLATGGDNpNS 158
Cdd:cd00200    50 HTGPVRDV--AASADGTYLASGSSDKTIRLWDLETGECV-------RTLTGHTS---YVSSVAFSPDGRILSSSSRD-KT 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 159 LAIYRLPTldPVCVGD-DGHKDWIFSIAWI-NDTMAVSGSRDGSMGLWEVTddvltksdarhnvSPVPVYAHITHkalkd 236
Cdd:cd00200   117 IKVWDVET--GKCLTTlRGHTDWVNSVAFSpDGTFVASSSQDGTIKLWDLR-------------TGKCVATLTGH----- 176

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780777 237 ipkedtnpdNCKVRALAFNNKNKELGAVSLDGYFHLW 273
Cdd:cd00200   177 ---------TGEVNSVAFSPDGEKLLSSSSDGTIKLW 204
WD40 COG2319
WD40 repeat [General function prediction only];
95-277 7.09e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 54.15  E-value: 7.09e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  95 RQVVCGTKCNTLFVVDVQTGQITKIpiLKDREPGgvtqqgcgIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVCVGD 174
Cdd:COG2319   217 KLLASGSADGTVRLWDLATGKLLRT--LTGHSGS--------VRSVAFSPDGRLLASGSAD-GTVRLWDLATGELLRTLT 285

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 175 dGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdipkedtnpdnckVRALA 253
Cdd:COG2319   286 -GHSGGVNSVAFSPDgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA---------------------------VRSVA 337

                         170       180
                  ....*....|....*....|....
gi 1958780777 254 FNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   338 FSPDGKTLASGSDDGTVRLWDLAT 361
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 79-274 1.09e-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: 53.11  E-value: 1.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  79 HLGTLNKVFASQwlNHRQVVCGTKCNTLFVVDVQTGQITKIpiLKDREpggvtqqgCGIHAIELNPSRTFLATGGDNpNS 158
Cdd:cd00200   134 HTDWVNSVAFSP--DGTFVASSSQDGTIKLWDLRTGKCVAT--LTGHT--------GEVNSVAFSPDGEKLLSSSSD-GT 200

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 159 LAIYRLPTLDPVCVGDdGHKDWIFSIAWINDT-MAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdi 237
Cdd:cd00200   201 IKLWDLSTGKCLGTLR-GHENGVNSVAFSPDGyLLASGSEDGTIRVWDLRTGECVQTLSGHTNS---------------- 263

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1958780777 238 pkedtnpdnckVRALAFNNKNKELGAVSLDGYFHLWK 274
Cdd:cd00200   264 -----------VTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
95-277 1.68e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 52.99  E-value: 1.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  95 RQVVCGTKCNTLFVVDVQTGQitKIPILKDREPGgvtqqgcgIHAIELNPSRTFLATGGDNpNSLAIYRLPTLDPVCVGD 174
Cdd:COG2319   175 KLLASGSDDGTVRLWDLATGK--LLRTLTGHTGA--------VRSVAFSPDGKLLASGSAD-GTVRLWDLATGKLLRTLT 243

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 175 dGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpvpvyahithkalkdipkedtnpdnckVRALA 253
Cdd:COG2319   244 -GHSGSVRSVAFSPDgRLLASGSADGTVRLWDLATGELLRTLTGHSGG---------------------------VNSVA 295

                         170       180
                  ....*....|....*....|....
gi 1958780777 254 FNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   296 FSPDGKLLASGSDDGTVRLWDLAT 319
WD40 COG2319
WD40 repeat [General function prediction only];
65-277 2.25e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 49.52  E-value: 2.25e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  65 AAQQLPSLLKEREFHLGTLNKVFASqwLNHRQVVCGTKCNTLFVVDVQTGQITkipilkdREPGGVTQqgcGIHAIELNP 144
Cdd:COG2319    63 LDAAAGALLATLLGHTAAVLSVAFS--PDGRLLASASADGTVRLWDLATGLLL-------RTLTGHTG---AVRSVAFSP 130

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777 145 SRTFLATGGDNpNSLAIYRLPTLDPVCVGDdGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSpv 223
Cdd:COG2319   131 DGKTLASGSAD-GTVRLWDLATGKLLRTLT-GHSGAVTSVAFSPDgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA-- 206

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958780777 224 pvyahithkalkdipkedtnpdnckVRALAFNNKNKELGAVSLDGYFHLWKAEN 277
Cdd:COG2319   207 -------------------------VRSVAFSPDGKLLASGSADGTVRLWDLAT 235
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 81-214 9.22e-06

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: 47.33  E-value: 9.22e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958780777  81 GTLNKVFASQWLNHRQVVC-GTKCNTLFVVDVQTGQITKipilkdrepggvTQQGcgiHAIELN-----PSRTFLATGGD 154
Cdd:cd00200     7 GHTGGVTCVAFSPDGKLLAtGSGDGTIKVWDLETGELLR------------TLKG---HTGPVRdvaasADGTYLASGSS 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958780777 155 NpNSLAIYRLPTldPVCVGD-DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWEVTDDVLTKS 214
Cdd:cd00200    72 D-KTIRLWDLET--GECVRTlTGHTSYVSSVAFSPDgRILSSSSRDKTIKVWDVETGKCLTT 130
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 175-205 6.22e-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: 34.60  E-value: 6.22e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1958780777  175 DGHKDWIFSIAWIND-TMAVSGSRDGSMGLWE 205
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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