NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2217297116|ref|XP_047287212|]
View 

DDB1- and CUL4-associated factor 4 isoform X3 [Homo sapiens]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 1000017)

WD40 repeat domain-containing protein folds into a beta-propeller structure and functions as a scaffold, providing a platform for the interaction and assembly of several proteins into a signalosome; similar to 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

CATH:  2.130.10.10
Gene Ontology:  GO:0005515
PubMed:  10322433|8090199|30069656|29026209
SCOP:  4002744

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 340-459 9.90e-09

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.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 56.57  E-value: 9.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 340 TGHrqsfgtNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNqgkgWKATRLFHDSAVTSVRILQDEQYLMASDMAGKI 419
Cdd:cd00200   174 TGH------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2217297116 420 KLWDLRTTKCVRQYEGHVNE-YAylpLHVHEEEGILVAGSW 459
Cdd:cd00200   244 RVWDLRTGECVQTLSGHTNSvTS---LAWSPDGKRLASGSA 281
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 340-459 9.90e-09

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: 56.57  E-value: 9.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 340 TGHrqsfgtNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNqgkgWKATRLFHDSAVTSVRILQDEQYLMASDMAGKI 419
Cdd:cd00200   174 TGH------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2217297116 420 KLWDLRTTKCVRQYEGHVNE-YAylpLHVHEEEGILVAGSW 459
Cdd:cd00200   244 RVWDLRTGECVQTLSGHTNSvTS---LAWSPDGKRLASGSA 281
WD40 COG2319
WD40 repeat [General function prediction only];
326-459 2.38e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 49.91  E-value: 2.38e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 326 STGLSRRVLLTNVVTGHRQSF--GTNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNQGKGWKAtrlfHDSAVTSVRI 403
Cdd:COG2319   263 SGSADGTVRLWDLATGELLRTltGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTG----HTGAVRSVAF 338

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2217297116 404 LQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheEEGILVAGSW 459
Cdd:COG2319   339 SPDGKTLASGSDDGTVRLWDLATGELLRTLTGHtgaVTSVAFSP-----DGRTLASGSA 392
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 394-423 3.66e-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: 35.37  E-value: 3.66e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 2217297116  394 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 423
Cdd:smart00320  11 HTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
394-423 4.71e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.01  E-value: 4.71e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 2217297116 394 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 423
Cdd:pfam00400  10 HTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 340-459 9.90e-09

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: 56.57  E-value: 9.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 340 TGHrqsfgtNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNqgkgWKATRLFHDSAVTSVRILQDEQYLMASDMAGKI 419
Cdd:cd00200   174 TGH------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2217297116 420 KLWDLRTTKCVRQYEGHVNE-YAylpLHVHEEEGILVAGSW 459
Cdd:cd00200   244 RVWDLRTGECVQTLSGHTNSvTS---LAWSPDGKRLASGSA 281
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 311-458 4.22e-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: 51.57  E-value: 4.22e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 311 WSCAWSLNiqANNCFSTGLSRRVLLTNVVTGHRQS--FGTNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNQgkgwK 388
Cdd:cd00200    55 RDVAASAD--GTYLASGSSDKTIRLWDLETGECVRtlTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKC----L 128

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2217297116 389 ATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGHVNE-YAylpLHVHEEEGILVAGS 458
Cdd:cd00200   129 TTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEvNS---VAFSPDGEKLLSSS 196
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 311-438 1.21e-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: 50.03  E-value: 1.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 311 WSCAWSlniQANNCFSTGLS-RRVLLTNVVTG-HRQSF-GTNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNQgkgw 387
Cdd:cd00200    97 SSVAFS---PDGRILSSSSRdKTIKVWDVETGkCLTTLrGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKC---- 169

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2217297116 388 KATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGHVN 438
Cdd:cd00200   170 VATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHEN 220
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 335-459 2.30e-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: 49.26  E-value: 2.30e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 335 LTNVVTGHRqsfgtnSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNQgkgwKATRLFHDSAVTSVRILQDEQYLMASD 414
Cdd:cd00200     1 LRRTLKGHT------GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL----LRTLKGHTGPVRDVAASADGTYLASGS 70

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2217297116 415 MAGKIKLWDLRTTKCVRQYEGH---VNEyaylpLHVHEEEGILVAGSW 459
Cdd:cd00200    71 SDKTIRLWDLETGECVRTLTGHtsyVSS-----VAFSPDGRILSSSSR 113
WD40 COG2319
WD40 repeat [General function prediction only];
326-459 2.38e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 49.91  E-value: 2.38e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 326 STGLSRRVLLTNVVTGHRQSF--GTNSDVLAQQFALMAPLLFNGCRSGEIFAIDLRCGNQGKGWKAtrlfHDSAVTSVRI 403
Cdd:COG2319   263 SGSADGTVRLWDLATGELLRTltGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTG----HTGAVRSVAF 338

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2217297116 404 LQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheEEGILVAGSW 459
Cdd:COG2319   339 SPDGKTLASGSDDGTVRLWDLATGELLRTLTGHtgaVTSVAFSP-----DGRTLASGSA 392
WD40 COG2319
WD40 repeat [General function prediction only];
310-436 3.00e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 3.00e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217297116 310 AWSCAWSLNIQANNCFSTGLSRRVLLTNVVTGHRQSFGTNSDVLAQQFALMAPLLFNGCRSGEIFAIDLrcgnQGKGWKA 389
Cdd:COG2319    39 VASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDL----ATGLLLR 114

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2217297116 390 TRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH 436
Cdd:COG2319   115 TLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGH 161
WD40 COG2319
WD40 repeat [General function prediction only];
394-436 3.06e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 3.06e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2217297116 394 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH 436
Cdd:COG2319   245 HSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGH 287
WD40 COG2319
WD40 repeat [General function prediction only];
394-436 4.01e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.06  E-value: 4.01e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2217297116 394 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH 436
Cdd:COG2319   161 HSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGH 203
WD40 COG2319
WD40 repeat [General function prediction only];
394-436 7.53e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 44.90  E-value: 7.53e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2217297116 394 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH 436
Cdd:COG2319   203 HTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGH 245
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 394-423 3.66e-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: 35.37  E-value: 3.66e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 2217297116  394 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 423
Cdd:smart00320  11 HTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
394-423 4.71e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.01  E-value: 4.71e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 2217297116 394 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 423
Cdd:pfam00400  10 HTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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