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Conserved domains on  [gi|1907134294|ref|XP_036013206|]
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DNA damage-binding protein 2 isoform X1 [Mus musculus]

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

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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 ...
 115-293 1.70e-17

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: 80.84  E-value: 1.70e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPtHPSTLAVGSKGGDIMIWNFGIKDKPIFLKGigAGGSITGLKFnHLNTNQFFASSMEGTTRLQDF-KGNILRV 193
Cdd:cd00200    13 TCVAFSP-DGKLLATGSGDGTIKVWDLETGELLRTLKG--HTGPVRDVAA-SADGTYLASGSSDKTIRLWDLeTGECVRT 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 194 YTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNPCcDWLLATASIDQTVKIWDL 272
Cdd:cd00200    89 LTGHTS---YVSSVAFSPDGRILSSSSRDKTIKVWDVEtGKCLTTLRGHTDWVNSVAFSPD-GTFVASSSQDGTIKLWDL 164

                         170       180
                  ....*....|....*....|.
gi 1907134294 273 RQIKGKDSFlysLPHRHPVNA 293
Cdd:cd00200   165 RTGKCVATL---TGHTGEVNS 182
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 115-293 1.70e-17

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: 80.84  E-value: 1.70e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPtHPSTLAVGSKGGDIMIWNFGIKDKPIFLKGigAGGSITGLKFnHLNTNQFFASSMEGTTRLQDF-KGNILRV 193
Cdd:cd00200    13 TCVAFSP-DGKLLATGSGDGTIKVWDLETGELLRTLKG--HTGPVRDVAA-SADGTYLASGSSDKTIRLWDLeTGECVRT 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 194 YTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNPCcDWLLATASIDQTVKIWDL 272
Cdd:cd00200    89 LTGHTS---YVSSVAFSPDGRILSSSSRDKTIKVWDVEtGKCLTTLRGHTDWVNSVAFSPD-GTFVASSSQDGTIKLWDL 164

                         170       180
                  ....*....|....*....|.
gi 1907134294 273 RQIKGKDSFlysLPHRHPVNA 293
Cdd:cd00200   165 RTGKCVATL---TGHTGEVNS 182
WD40 COG2319
WD40 repeat [General function prediction only];
95-273 3.36e-13

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 69.55  E-value: 3.36e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294  95 LHSLASYQVFRKAAPFDRRTTSLAWHPTHpSTLAVGSKGGDIMIWNFGIKDKPIFLKGigAGGSITGLKFnHLNTNQFFA 174
Cdd:COG2319   230 LWDLATGKLLRTLTGHSGSVRSVAFSPDG-RLLASGSADGTVRLWDLATGELLRTLTG--HSGGVNSVAF-SPDGKLLAS 305

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 175 SSMEGTTRLQDFK-GNILRVYTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNP 252
Cdd:COG2319   306 GSDDGTVRLWDLAtGKLLRTLTGHTG---AVRSVAFSPDGKTLASGSDDGTVRLWDLAtGELLRTLTGHTGAVTSVAFSP 382

                         170       180
                  ....*....|....*....|..
gi 1907134294 253 ccDW-LLATASIDQTVKIWDLR 273
Cdd:COG2319   383 --DGrTLASGSADGTVRLWDLA 402
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 231-271 1.82e-04

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: 38.45  E-value: 1.82e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 1907134294  231 DGKELWNLRMHKKKVAHVALNPCCDWLlATASIDQTVKIWD 271
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYL-ASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
232-271 2.93e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.71  E-value: 2.93e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1907134294 232 GKELWNLRMHKKKVAHVALNPCCDWLlATASIDQTVKIWD 271
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLL-ASGSDDGTVKVWD 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 ...
 115-293 1.70e-17

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: 80.84  E-value: 1.70e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPtHPSTLAVGSKGGDIMIWNFGIKDKPIFLKGigAGGSITGLKFnHLNTNQFFASSMEGTTRLQDF-KGNILRV 193
Cdd:cd00200    13 TCVAFSP-DGKLLATGSGDGTIKVWDLETGELLRTLKG--HTGPVRDVAA-SADGTYLASGSSDKTIRLWDLeTGECVRT 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 194 YTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNPCcDWLLATASIDQTVKIWDL 272
Cdd:cd00200    89 LTGHTS---YVSSVAFSPDGRILSSSSRDKTIKVWDVEtGKCLTTLRGHTDWVNSVAFSPD-GTFVASSSQDGTIKLWDL 164

                         170       180
                  ....*....|....*....|.
gi 1907134294 273 RQIKGKDSFlysLPHRHPVNA 293
Cdd:cd00200   165 RTGKCVATL---TGHTGEVNS 182
WD40 COG2319
WD40 repeat [General function prediction only];
95-273 3.36e-13

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 69.55  E-value: 3.36e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294  95 LHSLASYQVFRKAAPFDRRTTSLAWHPTHpSTLAVGSKGGDIMIWNFGIKDKPIFLKGigAGGSITGLKFnHLNTNQFFA 174
Cdd:COG2319   230 LWDLATGKLLRTLTGHSGSVRSVAFSPDG-RLLASGSADGTVRLWDLATGELLRTLTG--HSGGVNSVAF-SPDGKLLAS 305

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 175 SSMEGTTRLQDFK-GNILRVYTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNP 252
Cdd:COG2319   306 GSDDGTVRLWDLAtGKLLRTLTGHTG---AVRSVAFSPDGKTLASGSDDGTVRLWDLAtGELLRTLTGHTGAVTSVAFSP 382

                         170       180
                  ....*....|....*....|..
gi 1907134294 253 ccDW-LLATASIDQTVKIWDLR 273
Cdd:COG2319   383 --DGrTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
115-299 1.47e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 61.47  E-value: 1.47e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPThPSTLAVGSKGGDIMIWNfgIKDKPIFLKGIGAGGSITGLKFNHlNTNQFFASSMEGTTRLQDFK-GNILRV 193
Cdd:COG2319    82 LSVAFSPD-GRLLASASADGTVRLWD--LATGLLLRTLTGHTGAVRSVAFSP-DGKTLASGSADGTVRLWDLAtGKLLRT 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 194 YTSSNScKVWfcSLDVSAKSRVVVTGDNMGHVILLS-TDGKELWNLRMHKKKVAHVALNPccD-WLLATASIDQTVKIWD 271
Cdd:COG2319   158 LTGHSG-AVT--SVAFSPDGKLLASGSDDGTVRLWDlATGKLLRTLTGHTGAVRSVAFSP--DgKLLASGSADGTVRLWD 232

                         170       180
                  ....*....|....*....|....*....
gi 1907134294 272 LRQikGKdsFLYSLP-HRHPVNAgdLAFT 299
Cdd:COG2319   233 LAT--GK--LLRTLTgHSGSVRS--VAFS 255
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 115-298 5.11e-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: 5.11e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPTHPsTLAVGSKGGDIMIWNFGIKDKPIFLKGIGagGSITGLKFNHlnTNQF-FASSMEGTTRLQDFK-GNILR 192
Cdd:cd00200    97 SSVAFSPDGR-ILSSSSRDKTIKVWDVETGKCLTTLRGHT--DWVNSVAFSP--DGTFvASSSQDGTIKLWDLRtGKCVA 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 193 VYTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTD-GKELWNLRMHKKKVAHVALNPCcDWLLATASIDQTVKIWD 271
Cdd:cd00200   172 TLTGHTG---EVNSVAFSPDGEKLLSSSSDGTIKLWDLStGKCLGTLRGHENGVNSVAFSPD-GYLLASGSEDGTIRVWD 247

                         170       180
                  ....*....|....*....|....*...
gi 1907134294 272 LRqikgKDSFLYSLP-HRHPVNAgdLAF 298
Cdd:cd00200   248 LR----TGECVQTLSgHTNSVTS--LAW 269
WD40 COG2319
WD40 repeat [General function prediction only];
107-299 3.82e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 54.15  E-value: 3.82e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 107 AAPFDRRTTSLAWHPTHPSTLAVGSKGGDIMIWNFGIKDKPIFLKGIGAGGSITGLkfnhLNTNQFFASSMEGTTRLQDF 186
Cdd:COG2319    32 LLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFS----PDGRLLASASADGTVRLWDL 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 187 KGNILRVYTSSNSCKVWfcSLDVSAKSRVVVTGDNMGHVILLST-DGKELWNLRMHKKKVAHVALNPccDW-LLATASID 264
Cdd:COG2319   108 ATGLLLRTLTGHTGAVR--SVAFSPDGKTLASGSADGTVRLWDLaTGKLLRTLTGHSGAVTSVAFSP--DGkLLASGSDD 183

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1907134294 265 QTVKIWDLRqiKGKdsFLYSLP-HRHPVNAgdLAFT 299
Cdd:COG2319   184 GTVRLWDLA--TGK--LLRTLTgHTGAVRS--VAFS 213
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 115-271 5.75e-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: 50.03  E-value: 5.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 115 TSLAWHPTHpSTLAVGSKGGDIMIWNFgikdKPIFLKGIGAG--GSITGLKFnHLNTNQFFASSMEGTTRLQDFK-GNIL 191
Cdd:cd00200   139 NSVAFSPDG-TFVASSSQDGTIKLWDL----RTGKCVATLTGhtGEVNSVAF-SPDGEKLLSSSSDGTIKLWDLStGKCL 212

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907134294 192 RVYTSSNSckvWFCSLDVSAKSRVVVTGDNMGHVILLSTDGKELWN-LRMHKKKVAHVALNPCCDWLlATASIDQTVKIW 270
Cdd:cd00200   213 GTLRGHEN---GVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQtLSGHTNSVTSLAWSPDGKRL-ASGSADGTIRIW 288


                  .
gi 1907134294 271 D 271
Cdd:cd00200   289 D 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 231-271 1.82e-04

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: 38.45  E-value: 1.82e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 1907134294  231 DGKELWNLRMHKKKVAHVALNPCCDWLlATASIDQTVKIWD 271
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYL-ASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
232-271 2.93e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.71  E-value: 2.93e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1907134294 232 GKELWNLRMHKKKVAHVALNPCCDWLlATASIDQTVKIWD 271
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLL-ASGSDDGTVKVWD 39
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 238-293 5.69e-03

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: 37.70  E-value: 5.69e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907134294 238 LRMHKKKVAHVALNPCCDWlLATASIDQTVKIWDLRqikgKDSFLYSLP-HRHPVNA 293
Cdd:cd00200     5 LKGHTGGVTCVAFSPDGKL-LATGSGDGTIKVWDLE----TGELLRTLKgHTGPVRD 56
 
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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