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Conserved domains on  [gi|189491883|ref|NP_001121663|]
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nucleoporin Nup43 isoform 2 [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

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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 ...
 112-267 2.65e-16

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: 78.15  E-value: 2.65e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 112 VCDNPEIVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFLRTPEIVTVNSI-GQLKIWDFRqqgSEPCQIlSLTGD 190
Cdd:cd00200   60 SADGTYLASGSSDKTIRLWDLETGECVRTL-TGHTSYVSSVAFSPDGRILSSSSRdKTIKVWDVE---TGKCLT-TLRGH 134

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 189491883 191 RVPLHCVDRHPDQQhVVATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDAST 267
Cdd:cd00200  135 TDWVNSVAFSPDGT-FVASSSQDGTIKLWDLRTGK-CVATLTGHTGEVNSVAFSPDG-EKLLSSSSDGTIKLWDLST 208
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 112-267 2.65e-16

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: 78.15  E-value: 2.65e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 112 VCDNPEIVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFLRTPEIVTVNSI-GQLKIWDFRqqgSEPCQIlSLTGD 190
Cdd:cd00200   60 SADGTYLASGSSDKTIRLWDLETGECVRTL-TGHTSYVSSVAFSPDGRILSSSSRdKTIKVWDVE---TGKCLT-TLRGH 134

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 189491883 191 RVPLHCVDRHPDQQhVVATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDAST 267
Cdd:cd00200  135 TDWVNSVAFSPDGT-FVASSSQDGTIKLWDLRTGK-CVATLTGHTGEVNSVAFSPDG-EKLLSSSSDGTIKLWDLST 208
WD40 COG2319
WD40 repeat [General function prediction only];
118-280 5.33e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 75.33  E-value: 5.33e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 118 IVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFlrTPE---IVTVNSIGQLKIWDFRQQGsepcQILSLTGDRVPL 194
Cdd:COG2319  135 LASGSADGTVRLWDLATGKLLRTL-TGHSGAVTSVAF--SPDgklLASGSDDGTVRLWDLATGK----LLRTLTGHTGAV 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 195 HCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDASTNAPEKSS 274
Cdd:COG2319  208 RSVAFSPDGKLL-ASGSADGTVRLWDLATGK-LLRTLTGHSGSVRSVAFSPDG-RLLASGSADGTVRLWDLATGELLRTL 284


                 ....*.
gi 189491883 275 LFHQGG 280
Cdd:COG2319  285 TGHSGG 290
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 207-263 7.83e-05

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 44.69  E-value: 7.83e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 189491883 207 VATGGQDGMLSIWDVRQGTMpVSLLKAHEAEMWEVHFHPSNPDHLFTCSEDGSLWHW 263
Cdd:PLN00181 548 VASSNFEGVVQVWDVARSQL-VTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLW 603
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 227-264 4.70e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 34.60  E-value: 4.70e-03
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 189491883   227 PVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWD 264
Cdd:smart00320   4 LLKTLKGHTGPVTSVAFSPDG-KYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 112-267 2.65e-16

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: 78.15  E-value: 2.65e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 112 VCDNPEIVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFLRTPEIVTVNSI-GQLKIWDFRqqgSEPCQIlSLTGD 190
Cdd:cd00200   60 SADGTYLASGSSDKTIRLWDLETGECVRTL-TGHTSYVSSVAFSPDGRILSSSSRdKTIKVWDVE---TGKCLT-TLRGH 134

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 189491883 191 RVPLHCVDRHPDQQhVVATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDAST 267
Cdd:cd00200  135 TDWVNSVAFSPDGT-FVASSSQDGTIKLWDLRTGK-CVATLTGHTGEVNSVAFSPDG-EKLLSSSSDGTIKLWDLST 208
WD40 COG2319
WD40 repeat [General function prediction only];
118-280 5.33e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 75.33  E-value: 5.33e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 118 IVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFlrTPE---IVTVNSIGQLKIWDFRQQGsepcQILSLTGDRVPL 194
Cdd:COG2319  135 LASGSADGTVRLWDLATGKLLRTL-TGHSGAVTSVAF--SPDgklLASGSDDGTVRLWDLATGK----LLRTLTGHTGAV 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 195 HCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDASTNAPEKSS 274
Cdd:COG2319  208 RSVAFSPDGKLL-ASGSADGTVRLWDLATGK-LLRTLTGHSGSVRSVAFSPDG-RLLASGSADGTVRLWDLATGELLRTL 284


                 ....*.
gi 189491883 275 LFHQGG 280
Cdd:COG2319  285 TGHSGG 290
WD40 COG2319
WD40 repeat [General function prediction only];
118-280 2.58e-14

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 73.41  E-value: 2.58e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 118 IVTVGEDGRINLFRVDHKEAVRTIDnADSSTLHAVTFlrTPE---IVTVNSIGQLKIWDFrqQGSEPcqILSLTGDRVPL 194
Cdd:COG2319  219 LASGSADGTVRLWDLATGKLLRTLT-GHSGSVRSVAF--SPDgrlLASGSADGTVRLWDL--ATGEL--LRTLTGHSGGV 291

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 195 HCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPsNPDHLFTCSEDGSLWHWDASTNAPEKSS 274
Cdd:COG2319  292 NSVAFSPDGKLL-ASGSDDGTVRLWDLATGK-LLRTLTGHTGAVRSVAFSP-DGKTLASGSDDGTVRLWDLATGELLRTL 368


                 ....*.
gi 189491883 275 LFHQGG 280
Cdd:COG2319  369 TGHTGA 374
WD40 COG2319
WD40 repeat [General function prediction only];
118-267 3.02e-14

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 73.02  E-value: 3.02e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 118 IVTVGEDGRINLFRVDHKEAVRTIDnADSSTLHAVTFlrTPE---IVTVNSIGQLKIWDFrqqgSEPCQILSLTGDRVPL 194
Cdd:COG2319  261 LASGSADGTVRLWDLATGELLRTLT-GHSGGVNSVAF--SPDgklLASGSDDGTVRLWDL----ATGKLLRTLTGHTGAV 333

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 189491883 195 HCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDAST 267
Cdd:COG2319  334 RSVAFSPDGKTL-ASGSDDGTVRLWDLATGE-LLRTLTGHTGAVTSVAFSPDG-RTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 114-279 2.80e-12

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 66.20  E-value: 2.80e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 114 DNPEIVTVGEDGRINLFRVDHKEAVRTIDNADSSTLHAVTFLRTPEIVTVNSIGQLKIWDFRQqgsePCQILSLTGDRVP 193
Cdd:cd00200   20 DGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLET----GECVRTLTGHTSY 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 194 LHCVDRHPDqQHVVATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDASTNAPEKS 273
Cdd:cd00200   96 VSSVAFSPD-GRILSSSSRDKTIKVWDVETGK-CLTTLRGHTDWVNSVAFSPDG-TFVASSSQDGTIKLWDLRTGKCVAT 172


                 ....*.
gi 189491883 274 SLFHQG 279
Cdd:cd00200  173 LTGHTG 178
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 118-264 1.24e-09

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 58.50  E-value: 1.24e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 118 IVTVGEDGRINLFRVDHKEAVRTIDnADSSTLHAVTFLRT-PEIVTVNSIGQLKIWDFRQQGsepcQILSLTGDRVPLHC 196
Cdd:cd00200  150 VASSSQDGTIKLWDLRTGKCVATLT-GHTGEVNSVAFSPDgEKLLSSSSDGTIKLWDLSTGK----CLGTLRGHENGVNS 224

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189491883 197 VDRHPDQQHVVAtGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNPDhLFTCSEDGSLWHWD 264
Cdd:cd00200  225 VAFSPDGYLLAS-GSEDGTIRVWDLRTGE-CVQTLSGHTNSVTSLAWSPDGKR-LASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
31-222 1.28e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 52.99  E-value: 1.28e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883  31 TFATGSWDNEencVSLWsigefgnlDSDGGfegdhQLLCDIRHHGD-VMDL------QTLSVSQQWPTAH-YHTGPGSPS 102
Cdd:COG2319  218 LLASGSADGT---VRLW--------DLATG-----KLLRTLTGHSGsVRSVafspdgRLLASGSADGTVRlWDLATGELL 281

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 103 YSSAPCTGIVC------DNPEIVTVGEDGRINLFRVDHKEAVRTIDnADSSTLHAVTFLRTPE-IVTVNSIGQLKIWDFR 175
Cdd:COG2319  282 RTLTGHSGGVNsvafspDGKLLASGSDDGTVRLWDLATGKLLRTLT-GHTGAVRSVAFSPDGKtLASGSDDGTVRLWDLA 360

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 189491883 176 QQGsepcQILSLTGDRVPLHCVDRHPDQQHVvATGGQDGMLSIWDVR 222
Cdd:COG2319  361 TGE----LLRTLTGHTGAVTSVAFSPDGRTL-ASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 187-305 1.60e-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: 51.95  E-value: 1.60e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 187 LTGDRVPLHCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDAS 266
Cdd:cd00200    5 LKGHTGGVTCVAFSPDGKLL-ATGSGDGTIKVWDLETGE-LLRTLKGHTGPVRDVAASADG-TYLASGSSDKTIRLWDLE 81

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 189491883 267 TNAPeksslfhqggRSTFLSHSSNQASVHLSLVSSWLST 305
Cdd:cd00200   82 TGEC----------VRTLTGHTSYVSSVAFSPDGRILSS 110
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 207-263 7.83e-05

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 44.69  E-value: 7.83e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 189491883 207 VATGGQDGMLSIWDVRQGTMpVSLLKAHEAEMWEVHFHPSNPDHLFTCSEDGSLWHW 263
Cdd:PLN00181 548 VASSNFEGVVQVWDVARSQL-VTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLW 603
WD40 COG2319
WD40 repeat [General function prediction only];
114-280 2.61e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 42.59  E-value: 2.61e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 114 DNPEIVTVGEDGRINLFRVDHKEAVRTIDNADSSTLHAVTFLRTPEIVTVNSIGQLKIWDFRQQGsepcQILSLTGDRVP 193
Cdd:COG2319    5 DGAALAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGA----LLATLLGHTAA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 194 LHCVDRHPDQQHVvATGGQDGMLSIWDVRQGTmPVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWDASTNAPEKS 273
Cdd:COG2319   81 VLSVAFSPDGRLL-ASASADGTVRLWDLATGL-LLRTLTGHTGAVRSVAFSPDG-KTLASGSADGTVRLWDLATGKLLRT 157


                 ....*..
gi 189491883 274 SLFHQGG 280
Cdd:COG2319  158 LTGHSGA 164
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 114-220 7.07e-04

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: 40.78  E-value: 7.07e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189491883 114 DNPEIVTVGEDGRINLFRVDHKEAVRTIdNADSSTLHAVTFLRTPEIVTVNSI-GQLKIWDFRQQgsEPCQILSLTGDRV 192
Cdd:cd00200  188 DGEKLLSSSSDGTIKLWDLSTGKCLGTL-RGHENGVNSVAFSPDGYLLASGSEdGTIRVWDLRTG--ECVQTLSGHTNSV 264

                         90       100
                 ....*....|....*....|....*...
gi 189491883 193 plHCVDRHPDQQhVVATGGQDGMLSIWD 220
Cdd:cd00200  265 --TSLAWSPDGK-RLASGSADGTIRIWD 289
Nsa1_WDR74-like cd22850
Ribosome biogenesis protein Nsa1 and similar proteins; Ribosome biogenesis protein Nsa1 ...
 160-220 1.47e-03

Ribosome biogenesis protein Nsa1 and similar proteins; Ribosome biogenesis protein Nsa1 (Nop7-associated 1) from fungi and WDR74 (WD repeat-containing protein 74) from mammals and plants, are homologous essential factors for ribosome assembly. In cooperation with the assembly factor Rix7/NVL2, Nsa1/WDR74 participates in an early cleavage of the pre-rRNA processing pathway. Rix7/NVL2 is a type II double ring, AAA-ATPase, that may mediate the release of Nsa1/WDR74 from nucleolar pre-60S particles. Nsa1/WDR74 contains an N-terminal seven-bladed beta-propeller WD40 domain that associates with the D1-AAA domain of the AAA-ATPase Rix7/NVL2, and a flexible lysine-rich C-terminus that extends outward from the WD40 domain, and is required for nucleolar localization.


Pssm-ID: 439302 [Multi-domain]  Cd Length: 333  Bit Score: 39.92  E-value: 1.47e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 189491883 160 IVTVNSIGQLKIWDFRQQGSEPCQILSLTGDRVPLHCVDRHPDQQHVVATGGQDGMLSIWD 220
Cdd:cd22850  102 LTCATKSGLLHIIDLEDSKKDSLEVKAPLTLPGFLSAFRVNPTDEGVFAYGGKENDLKLWD 162
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 227-264 4.70e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 34.60  E-value: 4.70e-03
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 189491883   227 PVSLLKAHEAEMWEVHFHPSNpDHLFTCSEDGSLWHWD 264
Cdd:smart00320   4 LLKTLKGHTGPVTSVAFSPDG-KYLASGSDDGTIKLWD 40
 
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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