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Conserved domains on  [gi|54400692|ref|NP_001006095|]
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THO complex subunit 6 homolog [Danio rerio]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 12822048)

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 COG2319
WD40 repeat [General function prediction only];
15-188 2.26e-19

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 87.66  E-value: 2.26e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  15 SFSPCGRYLAAGNNYGEIAVFSLsaalspdaseRSQKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSWAelik 91
Cdd:COG2319 211 AFSPDGKLLASGSADGTVRLWDL----------ATGKLLRTLTGHSGSVRSVaFSPDGRLLASGsaDGTVRLWDLA---- 276

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  92 kstkaawTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGG 171
Cdd:COG2319 277 -------TGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGS 349

                       170
                ....*....|....*..
gi 54400692 172 EDGAVRIWDSRTNRPVH 188
Cdd:COG2319 350 DDGTVRLWDLATGELLR 366
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 113-274 5.79e-14

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: 70.83  E-value: 5.79e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 113 INAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTD---YIHCLSFKERegeILSGGEDGAVRIWDSRTNRPVHC 189
Cdd:cd00200  12 VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGpvrDVAASADGTY---LASGSSDKTIRLWDLETGECVRT 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 190 IEVFKyeecarpqfgKWISCLA-TDSDWMLCGGGP--SLSLWHLRSmsptsvfplSGCQREAVSYQDLIMSV---GEGPY 263
Cdd:cd00200  89 LTGHT----------SYVSSVAfSPDGRILSSSSRdkTIKVWDVET---------GKCLTTLRGHTDWVNSVafsPDGTF 149

                       170
                ....*....|.
gi 54400692 264 VSHCLHGGTVK 274
Cdd:cd00200 150 VASSSQDGTIK 160
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
15-188 2.26e-19

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 87.66  E-value: 2.26e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  15 SFSPCGRYLAAGNNYGEIAVFSLsaalspdaseRSQKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSWAelik 91
Cdd:COG2319 211 AFSPDGKLLASGSADGTVRLWDL----------ATGKLLRTLTGHSGSVRSVaFSPDGRLLASGsaDGTVRLWDLA---- 276

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  92 kstkaawTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGG 171
Cdd:COG2319 277 -------TGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGS 349

                       170
                ....*....|....*..
gi 54400692 172 EDGAVRIWDSRTNRPVH 188
Cdd:COG2319 350 DDGTVRLWDLATGELLR 366
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 11-215 5.33e-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: 79.69  E-value: 5.33e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  11 VFSQSFSPCGRYLAAGNNYGEIAVFSLSAAlspdasersqKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSwa 87
Cdd:cd00200  96 VSSVAFSPDGRILSSSSRDKTIKVWDVETG----------KCLTTLRGHTDWVNSVaFSPDGTFVASSsqDGTIKLWD-- 163

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  88 elikkstkaAWTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEI 167
Cdd:cd00200 164 ---------LRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLL 234

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 54400692 168 LSGGEDGAVRIWDSRTNRPVHCIevfkyeecarPQFGKWISCLATDSD 215
Cdd:cd00200 235 ASGSEDGTIRVWDLRTGECVQTL----------SGHTNSVTSLAWSPD 272
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 113-274 5.79e-14

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: 70.83  E-value: 5.79e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 113 INAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTD---YIHCLSFKERegeILSGGEDGAVRIWDSRTNRPVHC 189
Cdd:cd00200  12 VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGpvrDVAASADGTY---LASGSSDKTIRLWDLETGECVRT 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 190 IEVFKyeecarpqfgKWISCLA-TDSDWMLCGGGP--SLSLWHLRSmsptsvfplSGCQREAVSYQDLIMSV---GEGPY 263
Cdd:cd00200  89 LTGHT----------SYVSSVAfSPDGRILSSSSRdkTIKVWDVET---------GKCLTTLRGHTDWVNSVafsPDGTF 149

                       170
                ....*....|.
gi 54400692 264 VSHCLHGGTVK 274
Cdd:cd00200 150 VASSSQDGTIK 160
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 141-180 6.38e-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: 45.38  E-value: 6.38e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 54400692    141 TGTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWD 180
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
142-180 8.41e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 41.95  E-value: 8.41e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 54400692   142 GTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWD 180
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
PTZ00421 PTZ00421
coronin; Provisional
 116-206 4.91e-03

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 38.34  E-value: 4.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  116 MIINPKDNNLIVGGG-DNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWDSRTNRPVHCIEVfk 194
Cdd:PTZ00421 131 VSFHPSAMNVLASAGaDMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTSKDKKLNIIDPRDGTIVSSVEA-- 208

                         90
                 ....*....|..
gi 54400692  195 yEECARPQFGKW 206
Cdd:PTZ00421 209 -HASAKSQRCLW 219
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
15-188 2.26e-19

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 87.66  E-value: 2.26e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  15 SFSPCGRYLAAGNNYGEIAVFSLsaalspdaseRSQKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSWAelik 91
Cdd:COG2319 211 AFSPDGKLLASGSADGTVRLWDL----------ATGKLLRTLTGHSGSVRSVaFSPDGRLLASGsaDGTVRLWDLA---- 276

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  92 kstkaawTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGG 171
Cdd:COG2319 277 -------TGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGS 349

                       170
                ....*....|....*..
gi 54400692 172 EDGAVRIWDSRTNRPVH 188
Cdd:COG2319 350 DDGTVRLWDLATGELLR 366
WD40 COG2319
WD40 repeat [General function prediction only];
10-243 5.09e-19

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 86.89  E-value: 5.09e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  10 SVFSQSFSPCGRYLAAGNNYGEIAVFSLsaalspdaseRSQKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSW 86
Cdd:COG2319 122 AVRSVAFSPDGKTLASGSADGTVRLWDL----------ATGKLLRTLTGHSGAVTSVaFSPDGKLLASGsdDGTVRLWDL 191

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  87 AelikkstkaawTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFkEREGE 166
Cdd:COG2319 192 A-----------TGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAF-SPDGR 259

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 167 IL-SGGEDGAVRIWDSRTNRPVHCIEvfkyeecarpQFGKWISCLAT--DSDWMLCGGG-PSLSLWHLRsmSPTSVFPLS 242
Cdd:COG2319 260 LLaSGSADGTVRLWDLATGELLRTLT----------GHSGGVNSVAFspDGKLLASGSDdGTVRLWDLA--TGKLLRTLT 327


                .
gi 54400692 243 G 243
Cdd:COG2319 328 G 328
WD40 COG2319
WD40 repeat [General function prediction only];
10-183 1.00e-18

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 86.12  E-value: 1.00e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  10 SVFSQSFSPCGRYLAAGNNYGEIAVFSLSaalspdaserSQKPILNFTAHDGPVFSL-LSTES-HLLSAGN-GEISAWSW 86
Cdd:COG2319 248 SVRSVAFSPDGRLLASGSADGTVRLWDLA----------TGELLRTLTGHSGGVNSVaFSPDGkLLASGSDdGTVRLWDL 317

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  87 AelikkstkaawTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGE 166
Cdd:COG2319 318 A-----------TGKLLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRT 386

                       170
                ....*....|....*..
gi 54400692 167 ILSGGEDGAVRIWDSRT 183
Cdd:COG2319 387 LASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 11-215 5.33e-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: 79.69  E-value: 5.33e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  11 VFSQSFSPCGRYLAAGNNYGEIAVFSLSAAlspdasersqKPILNFTAHDGPVFSL-LSTESHLLSAG--NGEISAWSwa 87
Cdd:cd00200  96 VSSVAFSPDGRILSSSSRDKTIKVWDVETG----------KCLTTLRGHTDWVNSVaFSPDGTFVASSsqDGTIKLWD-- 163

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  88 elikkstkaAWTRKPNYETSLEIPEINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEI 167
Cdd:cd00200 164 ---------LRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLL 234

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 54400692 168 LSGGEDGAVRIWDSRTNRPVHCIevfkyeecarPQFGKWISCLATDSD 215
Cdd:cd00200 235 ASGSEDGTIRVWDLRTGECVQTL----------SGHTNSVTSLAWSPD 272
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 15-240 1.07e-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: 78.92  E-value: 1.07e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  15 SFSPCGRYLAAGNNYGEIAVFSLSaalspdaserSQKPILNFTAHDGPVFSL-LSTESHLLSAGNGEISAWSWaELIKKS 93
Cdd:cd00200  58 AASADGTYLASGSSDKTIRLWDLE----------TGECVRTLTGHTSYVSSVaFSPDGRILSSSSRDKTIKVW-DVETGK 126

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  94 TKAAWTRKPNYetsleipeINAMIINPkDNNLIVGGG-DNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGGE 172
Cdd:cd00200 127 CLTTLRGHTDW--------VNSVAFSP-DGTFVASSSqDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSS 197

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 54400692 173 DGAVRIWDSRTNRPVHCIEVFKyeecarpqfgKWISCLATDSD-WMLCGGGP--SLSLWHLRSMSPTSVFP 240
Cdd:cd00200 198 DGTIKLWDLSTGKCLGTLRGHE----------NGVNSVAFSPDgYLLASGSEdgTIRVWDLRTGECVQTLS 258
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 10-180 4.17e-15

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: 74.29  E-value: 4.17e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  10 SVFSQSFSPCGRYLAAGNNYGEIAVFSLsaalspdaseRSQKPILNFTAHDGPVFSLL---STESHLLSAGNGEISAWsw 86
Cdd:cd00200 137 WVNSVAFSPDGTFVASSSQDGTIKLWDL----------RTGKCVATLTGHTGEVNSVAfspDGEKLLSSSSDGTIKLW-- 204

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  87 aELIKKSTKAAWTRKPNYetsleipeINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGE 166
Cdd:cd00200 205 -DLSTGKCLGTLRGHENG--------VNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKR 275

                       170
                ....*....|....
gi 54400692 167 ILSGGEDGAVRIWD 180
Cdd:cd00200 276 LASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 113-274 5.79e-14

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: 70.83  E-value: 5.79e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 113 INAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTD---YIHCLSFKERegeILSGGEDGAVRIWDSRTNRPVHC 189
Cdd:cd00200  12 VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGpvrDVAASADGTY---LASGSSDKTIRLWDLETGECVRT 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 190 IEVFKyeecarpqfgKWISCLA-TDSDWMLCGGGP--SLSLWHLRSmsptsvfplSGCQREAVSYQDLIMSV---GEGPY 263
Cdd:cd00200  89 LTGHT----------SYVSSVAfSPDGRILSSSSRdkTIKVWDVET---------GKCLTTLRGHTDWVNSVafsPDGTF 149

                       170
                ....*....|.
gi 54400692 264 VSHCLHGGTVK 274
Cdd:cd00200 150 VASSSQDGTIK 160
WD40 COG2319
WD40 repeat [General function prediction only];
30-188 2.11e-11

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 64.16  E-value: 2.11e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  30 GEIAVFSLSAALSPDASERSQKPILNFTAHDGPVFSL--LSTESHLLSAGN-GEISAWSWAelikkSTKAAWTRKPNYET 106
Cdd:COG2319  48 GARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVafSPDGRLLASASAdGTVRLWDLA-----TGLLLRTLTGHTGA 122

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 107 sleipeINAMIINPKDNNLIVGGGDNNIHIMDMETGTFKSVLKGHTDYIHCLSFkEREGEIL-SGGEDGAVRIWDSRTNR 185
Cdd:COG2319 123 ------VRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAF-SPDGKLLaSGSDDGTVRLWDLATGK 195


                ...
gi 54400692 186 PVH 188
Cdd:COG2319 196 LLR 198
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 145-239 1.90e-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: 51.57  E-value: 1.90e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 145 KSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWDSRTNRPVHCIevfkyeeCARPQFGKWISCLAtDSDWMLCGGGPS 224
Cdd:cd00200   2 RRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTL-------KGHTGPVRDVAASA-DGTYLASGSSDK 73

                        90
                ....*....|....*.
gi 54400692 225 -LSLWHLRSMSPTSVF 239
Cdd:cd00200  74 tIRLWDLETGECVRTL 89
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 141-180 6.38e-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: 45.38  E-value: 6.38e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 54400692    141 TGTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWD 180
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
142-180 8.41e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 41.95  E-value: 8.41e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 54400692   142 GTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWD 180
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
COG3292 COG3292
Periplasmic ligand-binding sensor domain [Signal transduction mechanisms];
107-215 1.08e-04

Periplasmic ligand-binding sensor domain [Signal transduction mechanisms];


Pssm-ID: 442521 [Multi-domain]  Cd Length: 924  Bit Score: 43.82  E-value: 1.08e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 107 SLEIPEINAMIINpKDNNLIVGGGDNNIHIMDMETGTFKSVLKGH---TDYIHCLsFKEREGEILSGGEDGAVRiWDSRT 183
Cdd:COG3292 310 GLPSNSVYSILED-SDGNLWIGTSGGGLYRYDPKTGKFTKFSEDNglsNNFIRSI-LEDSDGNLWVGTNGGLYR-LDPKT 386

                        90       100       110
                ....*....|....*....|....*....|..
gi 54400692 184 NRpvhcIEVFKYEECARPQFGKWISCLATDSD 215
Cdd:COG3292 387 GK----FTNFTHDPDKNGLSSNYINSIFEDSD 414
PTZ00421 PTZ00421
coronin; Provisional
 116-206 4.91e-03

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 38.34  E-value: 4.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  116 MIINPKDNNLIVGGG-DNNIHIMDMETGTFKSVLKGHTDYIHCLSFKEREGEILSGGEDGAVRIWDSRTNRPVHCIEVfk 194
Cdd:PTZ00421 131 VSFHPSAMNVLASAGaDMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTSKDKKLNIIDPRDGTIVSSVEA-- 208

                         90
                 ....*....|..
gi 54400692  195 yEECARPQFGKW 206
Cdd:PTZ00421 209 -HASAKSQRCLW 219
Nsa1_WDR74-like cd22850
Ribosome biogenesis protein Nsa1 and similar proteins; Ribosome biogenesis protein Nsa1 ...
 23-194 7.74e-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: 37.61  E-value: 7.74e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692  23 LAAGNNYGEIAVFSLSAAlSPDASERSQKPILNFTAHDGPV-FSLLSTESHLLSA-GNGEISAWSWAELIKKSTKaawTR 100
Cdd:cd22850  52 VARRNGNGEVYVLSPVDG-ELFELLSSIEGLTRSKEEDKFVgLHLLRSLGLLTCAtKSGLLHIIDLEDSKKDSLE---VK 127

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54400692 101 KPnyetSLEIPEINAMIINPKDNNLIVGGG-DNNIHIMDMETGTF--------KSVLKGHTD-----YIHCLSF----KE 162
Cdd:cd22850 128 AP----LTLPGFLSAFRVNPTDEGVFAYGGkENDLKLWDLEKDFLklkqiwkaKNVKNDRLDlrvpvWITAITFlppdDH 203

                       170       180       190
                ....*....|....*....|....*....|...
gi 54400692 163 REGEILSGGEDGAVRIWDSRTNR-PVHCIEVFK 194
Cdd:cd22850 204 RKFKFVTGTRYGQVRLYDTSAGRrPVFSEKPIK 236
 
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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