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Conserved domains on  [gi|1907068158|ref|XP_036019327|]
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retinoblastoma-binding protein 5 isoform X4 [Mus musculus]

Protein Classification

WD40 and PTZ00441 domain-containing protein( domain architecture ID 11456005)

WD40 and PTZ00441 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 super family cl43672
WD40 repeat [General function prediction only];
17-80 3.29e-05

WD40 repeat [General function prediction only];


The actual alignment was detected with superfamily member COG2319:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 44.52  E-value: 3.29e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907068158  17 CFSGDGEYIVAGSaRQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   295 AFSPDGKLLASGS-DDGTVRLWDLATGKLLRTLTGHTGA-VRSVAFSPDGKTLASGSDdGTVRLW 357
PTZ00441 super family cl25523
sporozoite surface protein 2 (SSP2); Provisional
 99-252 8.10e-03

sporozoite surface protein 2 (SSP2); Provisional


The actual alignment was detected with superfamily member PTZ00441:

Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 37.25  E-value: 8.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158  99 DENVEYEERESEFDIEDE--DKSEPEQTGADA----------AEDEEVDVTSVDPI--AAFCSSDEELEDSKALLYLPIA 164
Cdd:PTZ00441  308 DDEFAVPNFNEGLDVPDNpqDPVPPPNEGKDGnpneenlfppGDDEVPDESNVPPNppNVPGGSNSEFSSDVENPPNPPN 387

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158 165 PEVEDPEENPYGPPPDAVPSSL-------MDEGASSEKKRQSSADGsQPPKKKPKTTNIEL-QGVPNDEVHPllgvkGDG 236
Cdd:PTZ00441  388 PDIPEQEPNIPEDSNKEVPEDVpmepeddRDNNFNEPKKPENKGDG-QNEPVIPKPLDNERdQSNKNKQVNP-----GNR 461

                         170
                  ....*....|....*.
gi 1907068158 237 KSKKKQAGRPKGSKAG 252
Cdd:PTZ00441  462 HNSEDRYTRPHGRNNE 477
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
17-80 3.29e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 44.52  E-value: 3.29e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907068158  17 CFSGDGEYIVAGSaRQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   295 AFSPDGKLLASGS-DDGTVRLWDLATGKLLRTLTGHTGA-VRSVAFSPDGKTLASGSDdGTVRLW 357
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 16-80 1.27e-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: 39.24  E-value: 1.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907068158  16 CCFSGDGEYiVAGSARQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPV-RPIIASISSGVVSIW 80
Cdd:cd00200   141 VAFSPDGTF-VASSSQDGTIKLWDLRTGKCVATLTGHTGE-VNSVAFSPDgEKLLSSSSDGTIKLW 204
PTZ00441 PTZ00441
sporozoite surface protein 2 (SSP2); Provisional
 99-252 8.10e-03

sporozoite surface protein 2 (SSP2); Provisional


Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 37.25  E-value: 8.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158  99 DENVEYEERESEFDIEDE--DKSEPEQTGADA----------AEDEEVDVTSVDPI--AAFCSSDEELEDSKALLYLPIA 164
Cdd:PTZ00441  308 DDEFAVPNFNEGLDVPDNpqDPVPPPNEGKDGnpneenlfppGDDEVPDESNVPPNppNVPGGSNSEFSSDVENPPNPPN 387

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158 165 PEVEDPEENPYGPPPDAVPSSL-------MDEGASSEKKRQSSADGsQPPKKKPKTTNIEL-QGVPNDEVHPllgvkGDG 236
Cdd:PTZ00441  388 PDIPEQEPNIPEDSNKEVPEDVpmepeddRDNNFNEPKKPENKGDG-QNEPVIPKPLDNERdQSNKNKQVNP-----GNR 461

                         170
                  ....*....|....*.
gi 1907068158 237 KSKKKQAGRPKGSKAG 252
Cdd:PTZ00441  462 HNSEDRYTRPHGRNNE 477
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
17-80 3.29e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 44.52  E-value: 3.29e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907068158  17 CFSGDGEYIVAGSaRQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   295 AFSPDGKLLASGS-DDGTVRLWDLATGKLLRTLTGHTGA-VRSVAFSPDGKTLASGSDdGTVRLW 357
WD40 COG2319
WD40 repeat [General function prediction only];
18-80 1.41e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 42.59  E-value: 1.41e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907068158  18 FSGDGEYIVAGSaRQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   254 FSPDGRLLASGS-ADGTVRLWDLATGELLRTLTGHSGG-VNSVAFSPDGKLLASGSDdGTVRLW 315
WD40 COG2319
WD40 repeat [General function prediction only];
18-80 4.02e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 41.05  E-value: 4.02e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907068158  18 FSGDGEYIVAGSaRQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   170 FSPDGKLLASGS-DDGTVRLWDLATGKLLRTLTGHTGA-VRSVAFSPDGKLLASGSAdGTVRLW 231
WD40 COG2319
WD40 repeat [General function prediction only];
18-80 4.60e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 41.05  E-value: 4.60e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907068158  18 FSGDGEYIVAGSArQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:COG2319   128 FSPDGKTLASGSA-DGTVRLWDLATGKLLRTLTGHSGA-VTSVAFSPDGKLLASGSDdGTVRLW 189
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 16-80 1.27e-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: 39.24  E-value: 1.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907068158  16 CCFSGDGEYiVAGSARQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPV-RPIIASISSGVVSIW 80
Cdd:cd00200   141 VAFSPDGTF-VASSSQDGTIKLWDLRTGKCVATLTGHTGE-VNSVAFSPDgEKLLSSSSDGTIKLW 204
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 16-81 1.28e-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: 39.24  E-value: 1.28e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907068158  16 CCFSGDGEYIVAGSARQhALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIWA 81
Cdd:cd00200   225 VAFSPDGYLLASGSEDG-TIRVWDLRTGECVQTLSGHTNS-VTSLAWSPDGKRLASGSAdGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 12-80 1.47e-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: 39.24  E-value: 1.47e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158  12 PWKKCCFSGDGEYIVAGSArQHALYIWEKSIGNLVKILHGTRGElLLDVAWHPVRPIIASISS-GVVSIW 80
Cdd:cd00200    53 PVRDVAASADGTYLASGSS-DKTIRLWDLETGECVRTLTGHTSY-VSSVAFSPDGRILSSSSRdKTIKVW 120
PTZ00441 PTZ00441
sporozoite surface protein 2 (SSP2); Provisional
 99-252 8.10e-03

sporozoite surface protein 2 (SSP2); Provisional


Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 37.25  E-value: 8.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158  99 DENVEYEERESEFDIEDE--DKSEPEQTGADA----------AEDEEVDVTSVDPI--AAFCSSDEELEDSKALLYLPIA 164
Cdd:PTZ00441  308 DDEFAVPNFNEGLDVPDNpqDPVPPPNEGKDGnpneenlfppGDDEVPDESNVPPNppNVPGGSNSEFSSDVENPPNPPN 387

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907068158 165 PEVEDPEENPYGPPPDAVPSSL-------MDEGASSEKKRQSSADGsQPPKKKPKTTNIEL-QGVPNDEVHPllgvkGDG 236
Cdd:PTZ00441  388 PDIPEQEPNIPEDSNKEVPEDVpmepeddRDNNFNEPKKPENKGDG-QNEPVIPKPLDNERdQSNKNKQVNP-----GNR 461

                         170
                  ....*....|....*.
gi 1907068158 237 KSKKKQAGRPKGSKAG 252
Cdd:PTZ00441  462 HNSEDRYTRPHGRNNE 477
 
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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