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Conserved domains on  [gi|1958783710|ref|XP_038968441|]
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DDB1- and CUL4-associated factor 4 isoform X3 [Rattus norvegicus]

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

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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 ...
 96-256 3.71e-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.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 59.66  E-value: 3.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710  96 LTNVVTGHRqsywtnSDVLAQQFAVKTPLLFNGCRSGEIFAIDLRSPSQakgwKATQIFHDSAVTSVQVFKEEQYLMASD 175
Cdd:cd00200     1 LRRTLKGHT------GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL----LRTLKGHTGPVRDVAASADGTYLASGS 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 176 MAGKIKLWDLRATKCVRQYEGH---VNEYAYLPLHmheeeGILVAVGQDCYTRIWSLHDARLLRTIPSPcptsKANIPSV 252
Cdd:cd00200    71 SDKTIRLWDLETGECVRTLTGHtsyVSSVAFSPDG-----RILSSSSRDKTIKVWDVETGKCLTTLRGH----TDWVNSV 141


                  ....
gi 1958783710 253 AFSP 256
Cdd:cd00200   142 AFSP 145
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 96-256 3.71e-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: 59.66  E-value: 3.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710  96 LTNVVTGHRqsywtnSDVLAQQFAVKTPLLFNGCRSGEIFAIDLRSPSQakgwKATQIFHDSAVTSVQVFKEEQYLMASD 175
Cdd:cd00200     1 LRRTLKGHT------GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL----LRTLKGHTGPVRDVAASADGTYLASGS 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 176 MAGKIKLWDLRATKCVRQYEGH---VNEYAYLPLHmheeeGILVAVGQDCYTRIWSLHDARLLRTIPSPcptsKANIPSV 252
Cdd:cd00200    71 SDKTIRLWDLETGECVRTLTGHtsyVSSVAFSPDG-----RILSSSSRDKTIKVWDVETGKCLTTLRGH----TDWVNSV 141


                  ....
gi 1958783710 253 AFSP 256
Cdd:cd00200   142 AFSP 145
WD40 COG2319
WD40 repeat [General function prediction only];
155-256 1.75e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 58.00  E-value: 1.75e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 155 HDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheeEG-ILVAVGQDCYTRIWSLH 230
Cdd:COG2319   161 HSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHtgaVRSVAFSP------DGkLLASGSADGTVRLWDLA 234

                          90       100
                  ....*....|....*....|....*.
gi 1958783710 231 DARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   235 TGKLLRTLTGH----SGSVRSVAFSP 256
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 96-256 3.71e-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: 59.66  E-value: 3.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710  96 LTNVVTGHRqsywtnSDVLAQQFAVKTPLLFNGCRSGEIFAIDLRSPSQakgwKATQIFHDSAVTSVQVFKEEQYLMASD 175
Cdd:cd00200     1 LRRTLKGHT------GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL----LRTLKGHTGPVRDVAASADGTYLASGS 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 176 MAGKIKLWDLRATKCVRQYEGH---VNEYAYLPLHmheeeGILVAVGQDCYTRIWSLHDARLLRTIPSPcptsKANIPSV 252
Cdd:cd00200    71 SDKTIRLWDLETGECVRTLTGHtsyVSSVAFSPDG-----RILSSSSRDKTIKVWDVETGKCLTTLRGH----TDWVNSV 141


                  ....
gi 1958783710 253 AFSP 256
Cdd:cd00200   142 AFSP 145
WD40 COG2319
WD40 repeat [General function prediction only];
155-256 1.75e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 58.00  E-value: 1.75e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 155 HDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheeEG-ILVAVGQDCYTRIWSLH 230
Cdd:COG2319   161 HSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHtgaVRSVAFSP------DGkLLASGSADGTVRLWDLA 234

                          90       100
                  ....*....|....*....|....*.
gi 1958783710 231 DARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   235 TGKLLRTLTGH----SGSVRSVAFSP 256
WD40 COG2319
WD40 repeat [General function prediction only];
130-256 2.26e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 57.61  E-value: 2.26e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 130 RSGEIFAIDLRSPSQAKGWKATQIFHDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPl 206
Cdd:COG2319    52 AAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHtgaVRSVAFSP- 130

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1958783710 207 hmheeEG-ILVAVGQDCYTRIWSLHDARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   131 -----DGkTLASGSADGTVRLWDLATGKLLRTLTGH----SGAVTSVAFSP 172
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 101-228 4.79e-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: 56.19  E-value: 4.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 101 TGHrqsywtNSDVLAQQFAVKTPLLFNGCRSGEIFAIDLRSPSqakgWKATQIFHDSAVTSVQVFKEEQYLMASDMAGKI 180
Cdd:cd00200   174 TGH------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1958783710 181 KLWDLRATKCVRQYEGHVNE-YAylpLHMHEEEGILVAVGQDCYTRIWS 228
Cdd:cd00200   244 RVWDLRTGECVQTLSGHTNSvTS---LAWSPDGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 72-256 1.34e-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: 1.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710  72 WSCAWSLNvqANNCFSTGLSRRVLLTNVVTGHRQSYWT--NSDVLAQQFAVKTPLLFNGCRSGEIFAIDLRSPSQakgwK 149
Cdd:cd00200    55 RDVAASAD--GTYLASGSSDKTIRLWDLETGECVRTLTghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKC----L 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 150 ATQIFHDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGHVNEYAYLPLhmHEEEGILVAVGQDCYTRIWSL 229
Cdd:cd00200   129 TTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAF--SPDGEKLLSSSSDGTIKLWDL 206

                         170       180
                  ....*....|....*....|....*..
gi 1958783710 230 HDARLLRTIPSpcptSKANIPSVAFSP 256
Cdd:cd00200   207 STGKCLGTLRG----HENGVNSVAFSP 229
WD40 COG2319
WD40 repeat [General function prediction only];
155-256 1.36e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 55.30  E-value: 1.36e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 155 HDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheeEG-ILVAVGQDCYTRIWSLH 230
Cdd:COG2319   203 HTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHsgsVRSVAFSP------DGrLLASGSADGTVRLWDLA 276

                          90       100
                  ....*....|....*....|....*.
gi 1958783710 231 DARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   277 TGELLRTLTGH----SGGVNSVAFSP 298
WD40 COG2319
WD40 repeat [General function prediction only];
155-256 1.43e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 55.30  E-value: 1.43e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 155 HDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheEEGILVAVGQDCYTRIWSLHD 231
Cdd:COG2319   287 HSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHtgaVRSVAFSP-----DGKTLASGSDDGTVRLWDLAT 361

                          90       100
                  ....*....|....*....|....*
gi 1958783710 232 ARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   362 GELLRTLTGH----TGAVTSVAFSP 382
WD40 COG2319
WD40 repeat [General function prediction only];
155-256 2.44e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 54.53  E-value: 2.44e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 155 HDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheeEG-ILVAVGQDCYTRIWSLH 230
Cdd:COG2319   245 HSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHsggVNSVAFSP------DGkLLASGSDDGTVRLWDLA 318

                          90       100
                  ....*....|....*....|....*.
gi 1958783710 231 DARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   319 TGKLLRTLTGH----TGAVRSVAFSP 340
WD40 COG2319
WD40 repeat [General function prediction only];
69-231 2.56e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 45.29  E-value: 2.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710  69 PGAWSCAWSLNVQAnnCFSTGLSRRVLLTNVVTGHRQSYWTNSDVLAQQFAVkTP---LLFNGCRSGEIFAIDLRSPSQA 145
Cdd:COG2319   247 GSVRSVAFSPDGRL--LASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAF-SPdgkLLASGSDDGTVRLWDLATGKLL 323

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 146 KGWKAtqifHDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPlhmheEEGILVAVGQDC 222
Cdd:COG2319   324 RTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHtgaVTSVAFSP-----DGRTLASGSADG 394


                  ....*....
gi 1958783710 223 YTRIWSLHD 231
Cdd:COG2319   395 TVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
150-256 8.57e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 37.58  E-value: 8.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783710 150 ATQIFHDSAVTSVQVFKEEQYLMASDMAGKIKLWDLRATKCVRQYEGH---VNEYAYLPLhmheeEGILVAVGQDCYTRI 226
Cdd:COG2319    30 LLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHtaaVLSVAFSPD-----GRLLASASADGTVRL 104

                          90       100       110
                  ....*....|....*....|....*....|
gi 1958783710 227 WSLHDARLLRTIPSPcptsKANIPSVAFSP 256
Cdd:COG2319   105 WDLATGLLLRTLTGH----TGAVRSVAFSP 130
 
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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