NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|254553450|ref|NP_001156980|]
View 

DDB1- and CUL4-associated factor 4 isoform 4 [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 ...
 363-463 7.85e-12

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: 65.82  E-value: 7.85e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEyaylpLHVHEEEGILVAVGQDCYTRIWSLHD 439
Cdd:cd00200   92 HTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHtdwVNS-----VAFSPDGTFVASSSQDGTIKLWDLRT 166

                         90       100
                 ....*....|....*....|....
gi 254553450 440 ARLLRTIpspyPASKADIPSVAFS 463
Cdd:cd00200  167 GKCVATL----TGHTGEVNSVAFS 186
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 363-463 7.85e-12

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: 65.82  E-value: 7.85e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEyaylpLHVHEEEGILVAVGQDCYTRIWSLHD 439
Cdd:cd00200   92 HTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHtdwVNS-----VAFSPDGTFVASSSQDGTIKLWDLRT 166

                         90       100
                 ....*....|....*....|....
gi 254553450 440 ARLLRTIpspyPASKADIPSVAFS 463
Cdd:cd00200  167 GKCVATL----TGHTGEVNSVAFS 186
WD40 COG2319
WD40 repeat [General function prediction only];
363-463 1.13e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 63.39  E-value: 1.13e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheeEG-ILVAVGQDCYTRIWSLH 438
Cdd:COG2319  245 HSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHsggVNSVAFSP------DGkLLASGSDDGTVRLWDLA 318

                         90       100
                 ....*....|....*....|....*
gi 254553450 439 DARLLRTIpspyPASKADIPSVAFS 463
Cdd:COG2319  319 TGKLLRTL----TGHTGAVRSVAFS 339
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 363-392 4.72e-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: 34.98  E-value: 4.72e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 254553450   363 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 392
Cdd:smart00320  11 HTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
363-392 6.07e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 34.63  E-value: 6.07e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 254553450  363 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 392
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 ...
 363-463 7.85e-12

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: 65.82  E-value: 7.85e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEyaylpLHVHEEEGILVAVGQDCYTRIWSLHD 439
Cdd:cd00200   92 HTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHtdwVNS-----VAFSPDGTFVASSSQDGTIKLWDLRT 166

                         90       100
                 ....*....|....*....|....
gi 254553450 440 ARLLRTIpspyPASKADIPSVAFS 463
Cdd:cd00200  167 GKCVATL----TGHTGEVNSVAFS 186
WD40 COG2319
WD40 repeat [General function prediction only];
363-463 1.13e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 63.39  E-value: 1.13e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheeEG-ILVAVGQDCYTRIWSLH 438
Cdd:COG2319  245 HSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHsggVNSVAFSP------DGkLLASGSDDGTVRLWDLA 318

                         90       100
                 ....*....|....*....|....*
gi 254553450 439 DARLLRTIpspyPASKADIPSVAFS 463
Cdd:COG2319  319 TGKLLRTL----TGHTGAVRSVAFS 339
WD40 COG2319
WD40 repeat [General function prediction only];
363-463 1.66e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 62.62  E-value: 1.66e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGHVNeyAYLPLHVHEEEGILVAVGQDCYTRIWSLHDARL 442
Cdd:COG2319  287 HSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTG--AVRSVAFSPDGKTLASGSDDGTVRLWDLATGEL 364

                         90       100
                 ....*....|....*....|.
gi 254553450 443 LRTIpspyPASKADIPSVAFS 463
Cdd:COG2319  365 LRTL----TGHTGAVTSVAFS 381
WD40 COG2319
WD40 repeat [General function prediction only];
352-463 2.45e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 62.24  E-value: 2.45e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 352 QGKGWKATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheeEG-ILVAVG 427
Cdd:COG2319  108 ATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHsgaVTSVAFSP------DGkLLASGS 181

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 254553450 428 QDCYTRIWSLHDARLLRTIpspyPASKADIPSVAFS 463
Cdd:COG2319  182 DDGTVRLWDLATGKLLRTL----TGHTGAVRSVAFS 213
WD40 COG2319
WD40 repeat [General function prediction only];
363-463 2.51e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 62.24  E-value: 2.51e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 363 HDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheeEG-ILVAVGQDCYTRIWSLH 438
Cdd:COG2319  161 HSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHtgaVRSVAFSP------DGkLLASGSADGTVRLWDLA 234

                         90       100
                 ....*....|....*....|....*
gi 254553450 439 DARLLRTIPSPypasKADIPSVAFS 463
Cdd:COG2319  235 TGKLLRTLTGH----SGSVRSVAFS 255
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 333-436 4.15e-10

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: 60.81  E-value: 4.15e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 333 LFNGCRSGEIFAIDLRCGNqgkgWKATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGHVNE-YAy 411
Cdd:cd00200  192 LLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSvTS- 266

                         90       100
                 ....*....|....*....|....*
gi 254553450 412 lpLHVHEEEGILVAVGQDCYTRIWS 436
Cdd:cd00200  267 --LAWSPDGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 357-464 4.50e-10

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: 60.43  E-value: 4.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 357 KATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGHVNE-YAylpLHVHEEEGILVAVGQDCYTRIW 435
Cdd:cd00200  128 LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEvNS---VAFSPDGEKLLSSSSDGTIKLW 204

                         90       100
                 ....*....|....*....|....*....
gi 254553450 436 SLHDARLLRTipspYPASKADIPSVAFSS 464
Cdd:cd00200  205 DLSTGKCLGT----LRGHENGVNSVAFSP 229
WD40 COG2319
WD40 repeat [General function prediction only];
352-463 1.21e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.92  E-value: 1.21e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 352 QGKGWKATRLFHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPlhvheeEG-ILVAVG 427
Cdd:COG2319   66 AAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHtgaVRSVAFSP------DGkTLASGS 139

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 254553450 428 QDCYTRIWSLHDARLLRTIPSPypasKADIPSVAFS 463
Cdd:COG2319  140 ADGTVRLWDLATGKLLRTLTGH----SGAVTSVAFS 171
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 311-463 3.18e-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: 58.12  E-value: 3.18e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 311 LTNVVTGHRqsfgtnSDVLA-------PLLFNGCRSGEIFAIDLRCGNQgkgwKATRLFHDSAVTSVRILQDEQYLMASD 383
Cdd:cd00200    1 LRRTLKGHT------GGVTCvafspdgKLLATGSGDGTIKVWDLETGEL----LRTLKGHTGPVRDVAASADGTYLASGS 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 384 MAGKIKLWDLRTTKCVRQYEGH---VNEYAYLPLHvheeeGILVAVGQDCYTRIWSLHDARLLRTIPSPypasKADIPSV 460
Cdd:cd00200   71 SDKTIRLWDLETGECVRTLTGHtsyVSSVAFSPDG-----RILSSSSRDKTIKVWDVETGKCLTTLRGH----TDWVNSV 141


                 ...
gi 254553450 461 AFS 463
Cdd:cd00200  142 AFS 144
WDR74 cd22857
WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and ...
 362-443 3.07e-03

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: 39.52  E-value: 3.07e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254553450 362 FHDSAVTSVRILQDEQYLMASDMAGKIKLWDLRTTKCVRQYEG----HVNEyaylpLHVHEEEGILVAVGQDCYTRIWSL 437
Cdd:cd22857  221 FGETPIKAVAEDPDGHTVYVGDTSGDLASIDLRTGKLLGCFKGkcggSIRS-----IARHPELPLIASCGLDRYLRIWDT 295


                 ....*.
gi 254553450 438 HDARLL 443
Cdd:cd22857  296 ETRQLL 301
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 363-392 4.72e-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: 34.98  E-value: 4.72e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 254553450   363 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 392
Cdd:smart00320  11 HTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
363-392 6.07e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 34.63  E-value: 6.07e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 254553450  363 HDSAVTSVRILQDEQYLMASDMAGKIKLWD 392
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