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Conserved domains on  [gi|13111851|gb|AAH03092|]
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Retinoblastoma binding protein 4 [Homo sapiens]

Protein Classification

WD repeat RBAP46/RBAP48/MSI1 family protein( domain architecture ID 13780222)

WD repeat RBAP46/RBAP48/MSI1 family protein binds histones; contains an N-terminal alpha helical domain and WD40 repeats that fold into a beta-propeller structure and functions as a scaffold, providing a platform for the interaction and assembly of several proteins into a signalosome

CATH:  2.130.10.10
Gene Ontology:  GO:0005515|GO:0042393
PubMed:  10322433|8090199|30069656|29026209
SCOP:  4005630|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 ...
 122-403 3.37e-36

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: 134.38  E-value: 3.37e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 122 NHEGEVNRARYMPQNPCIIATktpSSD--VLVFDYTKhpskpdpsGECnpdLR-LRGHQKEGYGLSWNPNlsGHLL-SAS 197
Cdd:cd00200  49 GHTGPVRDVAASADGTYLASG---SSDktIRLWDLET--------GEC---VRtLTGHTSYVSSVAFSPD--GRILsSSS 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 198 DDHTICLWDIsavpKEGKvvdAKTIFTGHTAVVEDVSWHllHESLFGSVA-DDQKLMIWDTRsnnTSKPSHSVDAHTAEV 276
Cdd:cd00200 113 RDKTIKVWDV----ETGK---CLTTLRGHTDWVNSVAFS--PDGTFVASSsQDGTIKLWDLR---TGKCVATLTGHTGEV 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 277 NCLSFNPySEFILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPHNEtILASSGTDRRLNVWDLSKigeeqsp 356
Cdd:cd00200 181 NSVAFSP-DGEKLLSSSSDGTIKLWDLSTGKC-LGTLRGHENGVNSVAFSPDGY-LLASGSEDGTIRVWDLRT------- 250

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*..
gi 13111851 357 edaedgpPELLFIHGGHTAKISDFSWNPNEPWViCSVSEDNIMQVWQ 403
Cdd:cd00200 251 -------GECVQTLSGHTNSVTSLAWSPDGKRL-ASGSADGTIRIWD 289
CAF1C_H4-bd pfam12265
Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved ...
 19-88 2.63e-33

Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved heterotrimeric protein complex that promotes histone H3 and H4 deposition onto newly synthesized DNA during replication or DNA repair; specifically it facilitates replication-dependent nucleosome assembly with the major histone H3 (H3.1). This domain is an alpha helix which sits just upstream of the WD40 seven-bladed beta-propeller in the human RbAp46 protein. RbAp46 folds into the beta-propeller and binds histone H4 in a groove formed between this N-terminal helix and an extended loop inserted into blade six.


:

Pssm-ID: 463513  Cd Length: 69  Bit Score: 119.61  E-value: 2.63e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 13111851    19 EEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDvtRPEGKDFSIHRLVLGTHTSD-EQNHLVIASVQLPN 88
Cdd:pfam12265   1 EEYLIWKKNAPFLYDMLHTHALEWPSLSFDWFPD--TSEGKNYTVQRLLLGTQTSGaEQNYLYVAKVSLPS 69
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 122-403 3.37e-36

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: 134.38  E-value: 3.37e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 122 NHEGEVNRARYMPQNPCIIATktpSSD--VLVFDYTKhpskpdpsGECnpdLR-LRGHQKEGYGLSWNPNlsGHLL-SAS 197
Cdd:cd00200  49 GHTGPVRDVAASADGTYLASG---SSDktIRLWDLET--------GEC---VRtLTGHTSYVSSVAFSPD--GRILsSSS 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 198 DDHTICLWDIsavpKEGKvvdAKTIFTGHTAVVEDVSWHllHESLFGSVA-DDQKLMIWDTRsnnTSKPSHSVDAHTAEV 276
Cdd:cd00200 113 RDKTIKVWDV----ETGK---CLTTLRGHTDWVNSVAFS--PDGTFVASSsQDGTIKLWDLR---TGKCVATLTGHTGEV 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 277 NCLSFNPySEFILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPHNEtILASSGTDRRLNVWDLSKigeeqsp 356
Cdd:cd00200 181 NSVAFSP-DGEKLLSSSSDGTIKLWDLSTGKC-LGTLRGHENGVNSVAFSPDGY-LLASGSEDGTIRVWDLRT------- 250

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*..
gi 13111851 357 edaedgpPELLFIHGGHTAKISDFSWNPNEPWViCSVSEDNIMQVWQ 403
Cdd:cd00200 251 -------GECVQTLSGHTNSVTSLAWSPDGKRL-ASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
172-405 4.02e-35

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 134.27  E-value: 4.02e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 172 RLRGHQKEGYGLSWNPNlsGHLL-SASDDHTICLWDIsavpKEGKVVdakTIFTGHTAVVEDVSWHLlHESLFGSVADDQ 250
Cdd:COG2319 157 TLTGHSGAVTSVAFSPD--GKLLaSGSDDGTVRLWDL----ATGKLL---RTLTGHTGAVRSVAFSP-DGKLLASGSADG 226

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 251 KLMIWDTRsnnTSKPSHSVDAHTAEVNCLSFNPYSEfILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPhNE 330
Cdd:COG2319 227 TVRLWDLA---TGKLLRTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGEL-LRTLTGHSGGVNSVAFSP-DG 300

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 13111851 331 TILASSGTDRRLNVWDLSKigeeqspedaedgpPELLFIHGGHTAKISDFSWNPNEPWVIcSVSEDNIMQVWQMA 405
Cdd:COG2319 301 KLLASGSDDGTVRLWDLAT--------------GKLLRTLTGHTGAVRSVAFSPDGKTLA-SGSDDGTVRLWDLA 360
CAF1C_H4-bd pfam12265
Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved ...
 19-88 2.63e-33

Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved heterotrimeric protein complex that promotes histone H3 and H4 deposition onto newly synthesized DNA during replication or DNA repair; specifically it facilitates replication-dependent nucleosome assembly with the major histone H3 (H3.1). This domain is an alpha helix which sits just upstream of the WD40 seven-bladed beta-propeller in the human RbAp46 protein. RbAp46 folds into the beta-propeller and binds histone H4 in a groove formed between this N-terminal helix and an extended loop inserted into blade six.


Pssm-ID: 463513  Cd Length: 69  Bit Score: 119.61  E-value: 2.63e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 13111851    19 EEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDvtRPEGKDFSIHRLVLGTHTSD-EQNHLVIASVQLPN 88
Cdd:pfam12265   1 EEYLIWKKNAPFLYDMLHTHALEWPSLSFDWFPD--TSEGKNYTVQRLLLGTQTSGaEQNYLYVAKVSLPS 69
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 169-348 9.63e-11

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 63.95  E-value: 9.63e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  169 PDLRLRGHQKEGyGLSWNPNLSGHLLSASDDHTICLWDISavpKEGKVVDAKTiftgHTAVVEDVSWHLLHESLFGSVAD 248
Cdd:PLN00181 525 PVVELASRSKLS-GICWNSYIKSQVASSNFEGVVQVWDVA---RSQLVTEMKE----HEKRVWSIDYSSADPTLLASGSD 596

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  249 DQKLMIWDTR---SNNTSKPShsvdahtAEVNCLSFNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQW 325
Cdd:PLN00181 597 DGSVKLWSINqgvSIGTIKTK-------ANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRF 669

                        170       180
                 ....*....|....*....|...
gi 13111851  326 SphNETILASSGTDRRLNVWDLS 348
Cdd:PLN00181 670 V--DSSTLVSSSTDNTLKLWDLS 690
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 262-302 3.48e-07

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: 46.54  E-value: 3.48e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 13111851    262 TSKPSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWD 302
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKY-LASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
263-302 2.37e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.87  E-value: 2.37e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 13111851   263 SKPSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWD 302
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKL-LASGSDDGTVKVWD 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 ...
 122-403 3.37e-36

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: 134.38  E-value: 3.37e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 122 NHEGEVNRARYMPQNPCIIATktpSSD--VLVFDYTKhpskpdpsGECnpdLR-LRGHQKEGYGLSWNPNlsGHLL-SAS 197
Cdd:cd00200  49 GHTGPVRDVAASADGTYLASG---SSDktIRLWDLET--------GEC---VRtLTGHTSYVSSVAFSPD--GRILsSSS 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 198 DDHTICLWDIsavpKEGKvvdAKTIFTGHTAVVEDVSWHllHESLFGSVA-DDQKLMIWDTRsnnTSKPSHSVDAHTAEV 276
Cdd:cd00200 113 RDKTIKVWDV----ETGK---CLTTLRGHTDWVNSVAFS--PDGTFVASSsQDGTIKLWDLR---TGKCVATLTGHTGEV 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 277 NCLSFNPySEFILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPHNEtILASSGTDRRLNVWDLSKigeeqsp 356
Cdd:cd00200 181 NSVAFSP-DGEKLLSSSSDGTIKLWDLSTGKC-LGTLRGHENGVNSVAFSPDGY-LLASGSEDGTIRVWDLRT------- 250

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*..
gi 13111851 357 edaedgpPELLFIHGGHTAKISDFSWNPNEPWViCSVSEDNIMQVWQ 403
Cdd:cd00200 251 -------GECVQTLSGHTNSVTSLAWSPDGKRL-ASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
172-405 4.02e-35

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 134.27  E-value: 4.02e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 172 RLRGHQKEGYGLSWNPNlsGHLL-SASDDHTICLWDIsavpKEGKVVdakTIFTGHTAVVEDVSWHLlHESLFGSVADDQ 250
Cdd:COG2319 157 TLTGHSGAVTSVAFSPD--GKLLaSGSDDGTVRLWDL----ATGKLL---RTLTGHTGAVRSVAFSP-DGKLLASGSADG 226

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 251 KLMIWDTRsnnTSKPSHSVDAHTAEVNCLSFNPYSEfILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPhNE 330
Cdd:COG2319 227 TVRLWDLA---TGKLLRTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGEL-LRTLTGHSGGVNSVAFSP-DG 300

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 13111851 331 TILASSGTDRRLNVWDLSKigeeqspedaedgpPELLFIHGGHTAKISDFSWNPNEPWVIcSVSEDNIMQVWQMA 405
Cdd:COG2319 301 KLLASGSDDGTVRLWDLAT--------------GKLLRTLTGHTGAVRSVAFSPDGKTLA-SGSDDGTVRLWDLA 360
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 123-404 8.22e-35

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: 130.53  E-value: 8.22e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 123 HEGEVNRARYMPQNPcIIATKTPSSDVLVFDYTkhpskpdpsgECNPDLRLRGHQKEGYGLSWNPNlSGHLLSASDDHTI 202
Cdd:cd00200   8 HTGGVTCVAFSPDGK-LLATGSGDGTIKVWDLE----------TGELLRTLKGHTGPVRDVAASAD-GTYLASGSSDKTI 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 203 CLWDISAvpkeGKVVdakTIFTGHTAVVEDVSWHLLHESLFGSvADDQKLMIWDTRsnnTSKPSHSVDAHTAEVNCLSFN 282
Cdd:cd00200  76 RLWDLET----GECV---RTLTGHTSYVSSVAFSPDGRILSSS-SRDKTIKVWDVE---TGKCLTTLRGHTDWVNSVAFS 144

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 283 PYSEFIlATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPHNETILASSGtDRRLNVWDLSKigeeqspedaedg 362
Cdd:cd00200 145 PDGTFV-ASSSQDGTIKLWDLRTGKC-VATLTGHTGEVNSVAFSPDGEKLLSSSS-DGTIKLWDLST------------- 208

                       250       260       270       280
                ....*....|....*....|....*....|....*....|..
gi 13111851 363 pPELLFIHGGHTAKISDFSWNPNEPWvICSVSEDNIMQVWQM 404
Cdd:cd00200 209 -GKCLGTLRGHENGVNSVAFSPDGYL-LASGSEDGTIRVWDL 248
WD40 COG2319
WD40 repeat [General function prediction only];
172-405 1.24e-33

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 130.03  E-value: 1.24e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 172 RLRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWDIsavpKEGKVVdakTIFTGHTAVVEDVSWHLLHESLFgSVADDQK 251
Cdd:COG2319 115 TLTGHTGAVRSVAFSPD-GKTLASGSADGTVRLWDL----ATGKLL---RTLTGHSGAVTSVAFSPDGKLLA-SGSDDGT 185

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 252 LMIWDTRsnnTSKPSHSVDAHTAEVNCLSFNPYSEfILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPhNET 331
Cdd:COG2319 186 VRLWDLA---TGKLLRTLTGHTGAVRSVAFSPDGK-LLASGSADGTVRLWDLATGKL-LRTLTGHSGSVRSVAFSP-DGR 259

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 13111851 332 ILASSGTDRRLNVWDLSkigeeqspedaedgPPELLFIHGGHTAKISDFSWNPNEPWVIcSVSEDNIMQVWQMA 405
Cdd:COG2319 260 LLASGSADGTVRLWDLA--------------TGELLRTLTGHSGGVNSVAFSPDGKLLA-SGSDDGTVRLWDLA 318
CAF1C_H4-bd pfam12265
Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved ...
 19-88 2.63e-33

Histone-binding protein RBBP4 or subunit C of CAF1 complex; The CAF-1 complex is a conserved heterotrimeric protein complex that promotes histone H3 and H4 deposition onto newly synthesized DNA during replication or DNA repair; specifically it facilitates replication-dependent nucleosome assembly with the major histone H3 (H3.1). This domain is an alpha helix which sits just upstream of the WD40 seven-bladed beta-propeller in the human RbAp46 protein. RbAp46 folds into the beta-propeller and binds histone H4 in a groove formed between this N-terminal helix and an extended loop inserted into blade six.


Pssm-ID: 463513  Cd Length: 69  Bit Score: 119.61  E-value: 2.63e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 13111851    19 EEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDvtRPEGKDFSIHRLVLGTHTSD-EQNHLVIASVQLPN 88
Cdd:pfam12265   1 EEYLIWKKNAPFLYDMLHTHALEWPSLSFDWFPD--TSEGKNYTVQRLLLGTQTSGaEQNYLYVAKVSLPS 69
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 173-406 2.30e-32

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: 123.98  E-value: 2.30e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 173 LRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWDIsavpkegKVVDAKTIFTGHTAVVEDVSWHLLHESLFgSVADDQKL 252
Cdd:cd00200   5 LKGHTGGVTCVAFSPD-GKLLATGSGDGTIKVWDL-------ETGELLRTLKGHTGPVRDVAASADGTYLA-SGSSDKTI 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 253 MIWDTrsnNTSKPSHSVDAHTAEVNCLSFNPySEFILATGSADKTVALWDLRNLKLKlHSFESHKDEIFQVQWSPHNeTI 332
Cdd:cd00200  76 RLWDL---ETGECVRTLTGHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGKCL-TTLRGHTDWVNSVAFSPDG-TF 149

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 13111851 333 LASSGTDRRLNVWDLSKIGEEQSpedaedgppellfiHGGHTAKISDFSWNPNEPWVICSvSEDNIMQVWQMAE 406
Cdd:cd00200 150 VASSSQDGTIKLWDLRTGKCVAT--------------LTGHTGEVNSVAFSPDGEKLLSS-SSDGTIKLWDLST 208
WD40 COG2319
WD40 repeat [General function prediction only];
172-348 3.15e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 115.01  E-value: 3.15e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 172 RLRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWDISavpkEGKVVdakTIFTGHTAVVEDVSWHLLHESLFgSVADDQK 251
Cdd:COG2319 241 TLTGHSGSVRSVAFSPD-GRLLASGSADGTVRLWDLA----TGELL---RTLTGHSGGVNSVAFSPDGKLLA-SGSDDGT 311

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 252 LMIWDTrsnNTSKPSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPhNET 331
Cdd:COG2319 312 VRLWDL---ATGKLLRTLTGHTGAVRSVAFSPDGKT-LASGSDDGTVRLWDLATGEL-LRTLTGHTGAVTSVAFSP-DGR 385

                       170
                ....*....|....*..
gi 13111851 332 ILASSGTDRRLNVWDLS 348
Cdd:COG2319 386 TLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
171-405 1.16e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 99.22  E-value: 1.16e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 171 LRLRGHQKEGYGLSWNPnLSGHLLSASDDHTICLWDISAVPkegkvvdAKTIFTGHTAVVEDVSWHLLHESLfGSVADDQ 250
Cdd:COG2319  30 LLLLGLAAAVASLAASP-DGARLAAGAGDLTLLLLDAAAGA-------LLATLLGHTAAVLSVAFSPDGRLL-ASASADG 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 251 KLMIWDTrsnNTSKPSHSVDAHTAEVNCLSFNPySEFILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPhNE 330
Cdd:COG2319 101 TVRLWDL---ATGLLLRTLTGHTGAVRSVAFSP-DGKTLASGSADGTVRLWDLATGKL-LRTLTGHSGAVTSVAFSP-DG 174

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 13111851 331 TILASSGTDRRLNVWDLSKigeeqspedaedgpPELLFIHGGHTAKISDFSWNPNEPWVIcSVSEDNIMQVWQMA 405
Cdd:COG2319 175 KLLASGSDDGTVRLWDLAT--------------GKLLRTLTGHTGAVRSVAFSPDGKLLA-SGSADGTVRLWDLA 234
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 265-405 3.34e-20

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: 90.09  E-value: 3.34e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 265 PSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWDLRNLKLkLHSFESHKDEIFQVQWSPHNETiLASSGTDRRLNV 344
Cdd:cd00200   1 LRRTLKGHTGGVTCVAFSPDGKL-LATGSGDGTIKVWDLETGEL-LRTLKGHTGPVRDVAASADGTY-LASGSSDKTIRL 77

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 13111851 345 WDLSKigeeqspedaedgpPELLFIHGGHTAKISDFSWNPNEPWVICSvSEDNIMQVWQMA 405
Cdd:cd00200  78 WDLET--------------GECVRTLTGHTSYVSSVAFSPDGRILSSS-SRDKTIKVWDVE 123
WD40 COG2319
WD40 repeat [General function prediction only];
172-305 3.65e-18

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 85.73  E-value: 3.65e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851 172 RLRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWDISavpkEGKVVdakTIFTGHTAVVEDVSWHLLHESLFgSVADDQK 251
Cdd:COG2319 283 TLTGHSGGVNSVAFSPD-GKLLASGSDDGTVRLWDLA----TGKLL---RTLTGHTGAVRSVAFSPDGKTLA-SGSDDGT 353

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 13111851 252 LMIWDTrsnNTSKPSHSVDAHTAEVNCLSFNPYSEfILATGSADKTVALWDLRN 305
Cdd:COG2319 354 VRLWDL---ATGELLRTLTGHTGAVTSVAFSPDGR-TLASGSADGTVRLWDLAT 403
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 169-348 9.63e-11

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 63.95  E-value: 9.63e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  169 PDLRLRGHQKEGyGLSWNPNLSGHLLSASDDHTICLWDISavpKEGKVVDAKTiftgHTAVVEDVSWHLLHESLFGSVAD 248
Cdd:PLN00181 525 PVVELASRSKLS-GICWNSYIKSQVASSNFEGVVQVWDVA---RSQLVTEMKE----HEKRVWSIDYSSADPTLLASGSD 596

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  249 DQKLMIWDTR---SNNTSKPShsvdahtAEVNCLSFNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQW 325
Cdd:PLN00181 597 DGSVKLWSINqgvSIGTIKTK-------ANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRF 669

                        170       180
                 ....*....|....*....|...
gi 13111851  326 SphNETILASSGTDRRLNVWDLS 348
Cdd:PLN00181 670 V--DSSTLVSSSTDNTLKLWDLS 690
PTZ00420 PTZ00420
coronin; Provisional
 265-347 2.97e-10

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 61.89  E-value: 2.97e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  265 PSHSVDAHTAEVNCLSFNP-YSEfILATGSADKTVALWDLRN-------LKLKLHSFESHKDEIFQVQWSPHNETILASS 336
Cdd:PTZ00420  66 PVIKLKGHTSSILDLQFNPcFSE-ILASGSEDLTIRVWEIPHndesvkeIKDPQCILKGHKKKISIIDWNPMNYYIMCSS 144

                         90
                 ....*....|.
gi 13111851  337 GTDRRLNVWDL 347
Cdd:PTZ00420 145 GFDSFVNIWDI 155
PTZ00420 PTZ00420
coronin; Provisional
 161-307 5.16e-08

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 54.96  E-value: 5.16e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  161 PDPSGECNPDLRLRGHQKEGYGLSwnpnlsghllsASDDHTICLWD------ISAVPKEGKVVDAKTI-FTGHTAVVEDV 233
Cdd:PTZ00420  12 PDPSNNLFDDLRICSRVIDSCGIA-----------CSSGFVAVPWEveggglIGAIRLENQMRKPPVIkLKGHTSSILDL 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 13111851  234 SWHLLHESLFGSVADDQKLMIWDTRSNNTS-----KPSHSVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDLRNLK 307
Cdd:PTZ00420  81 QFNPCFSEILASGSEDLTIRVWEIPHNDESvkeikDPQCILKGHKKKISIIDWNPMNYYIMCSSGFDSFVNIWDIENEK 159
PTZ00421 PTZ00421
coronin; Provisional
 168-358 1.44e-07

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 53.36  E-value: 1.44e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  168 NPDLRLrGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDIsavPKEG---KVVDAKTIFTGHTAVVEDVSWHLLHESLFG 244
Cdd:PTZ00421  67 NPPILL-GQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGI---PEEGltqNISDPIVHLQGHTKKVGIVSFHPSAMNVLA 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  245 SVADDQKLMIWDTrsnNTSKPSHSVDAHTAEVNCLSFNPYSEfILATGSADKTVALWDLRNLKLkLHSFESHKDEIFQ-V 323
Cdd:PTZ00421 143 SAGADMVVNVWDV---ERGKAVEVIKCHSDQITSLEWNLDGS-LLCTTSKDKKLNIIDPRDGTI-VSSVEAHASAKSQrC 217

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 13111851  324 QWSPHNETILA---SSGTDRRLNVWDLSKIGEEQSPED 358
Cdd:PTZ00421 218 LWAKRKDLIITlgcSKSQQRQIMLWDTRKMASPYSTVD 255
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 262-302 3.48e-07

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: 46.54  E-value: 3.48e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 13111851    262 TSKPSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWD 302
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKY-LASGSDDGTIKLWD 40
PTZ00420 PTZ00420
coronin; Provisional
 306-407 4.85e-07

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 51.87  E-value: 4.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  306 LKLKlhsfeSHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKigEEQSPEDAEDGppelLFIHGGHTAKISDFSWNPN 385
Cdd:PTZ00420  68 IKLK-----GHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPH--NDESVKEIKDP----QCILKGHKKKISIIDWNPM 136

                         90       100
                 ....*....|....*....|..
gi 13111851  386 EPWVICSVSEDNIMQVWQMaEN 407
Cdd:PTZ00420 137 NYYIMCSSGFDSFVNIWDI-EN 157
PTZ00421 PTZ00421
coronin; Provisional
 214-346 1.40e-06

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 50.28  E-value: 1.40e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13111851  214 GKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTR----SNNTSKPSHSVDAHTAEVNCLSFNPYSEFIL 289
Cdd:PTZ00421  62 GKLASNPPILLGQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPeeglTQNISDPIVHLQGHTKKVGIVSFHPSAMNVL 141

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 13111851  290 ATGSADKTVALWDLRNLKLKlHSFESHKDEIFQVQWSPHNeTILASSGTDRRLNVWD 346
Cdd:PTZ00421 142 ASAGADMVVNVWDVERGKAV-EVIKCHSDQITSLEWNLDG-SLLCTTSKDKKLNIID 196
WD40 pfam00400
WD domain, G-beta repeat;
263-302 2.37e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.87  E-value: 2.37e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 13111851   263 SKPSHSVDAHTAEVNCLSFNPYSEFiLATGSADKTVALWD 302
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKL-LASGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 173-206 5.46e-05

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: 39.99  E-value: 5.46e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 13111851    173 LRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWD 206
Cdd:smart00320   8 LKGHTGPVTSVAFSPD-GKYLASGSDDGTIKLWD 40
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 310-346 6.91e-05

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: 39.99  E-value: 6.91e-05
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 13111851    310 LHSFESHKDEIFQVQWSPHNeTILASSGTDRRLNVWD 346
Cdd:smart00320   5 LKTLKGHTGPVTSVAFSPDG-KYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
310-346 5.47e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.32  E-value: 5.47e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 13111851   310 LHSFESHKDEIFQVQWSPhNETILASSGTDRRLNVWD 346
Cdd:pfam00400   4 LKTLEGHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 39
WD40 pfam00400
WD domain, G-beta repeat;
173-206 1.06e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.55  E-value: 1.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 13111851   173 LRGHQKEGYGLSWNPNlSGHLLSASDDHTICLWD 206
Cdd:pfam00400   7 LEGHTGSVTSLAFSPD-GKLLASGSDDGTVKVWD 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.
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