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Conserved domains on  [gi|2024452863|ref|XP_040537110|]
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U3 small nucleolar RNA-associated protein 4 homolog isoform X2 [Gallus gallus]

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
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];
7-307 1.96e-30

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 124.25  E-value: 1.96e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863   7 HRVRFFGLVPAGVRCMAYQHNGRRLALARTDGAVEVYNfAANYYMEKAIPGHqTRSVEALCWAA-GERLFGAGLSGDITE 85
Cdd:COG2319   111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWD-LATGKLLRTLTGH-SGAVTSVAFSPdGKLLASGSDDGTVRL 188
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  86 YDLERLRPARAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGS 165
Cdd:COG2319   189 WDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG---KLLRTLTGHSGSVRSVAFSPDGRLLASGS 265
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 166 IDF-IRVLDVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWERGTLQDSHTVSSSAALSL 243
Cdd:COG2319   266 ADGtVRLWDLATGELLRTL---------TGHSGGVNSVAFSPDGkLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSV 336
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2024452863 244 AVSEKEDSIVVGTSAGATYQFQLlpvkAGGQEKRwvrtkPFQHHTHDVRAVVHTP--TALISGGLD 307
Cdd:COG2319   337 AFSPDGKTLASGSDDGTVRLWDL----ATGELLR-----TLTGHTGAVTSVAFSPdgRTLASGSAD 393
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
394-613 7.68e-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.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 41.94  E-value: 7.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 394 IYCSCVSPCGSWIAysTASRFHLYRV--QHEGDSISVKKVPgvpklLLPAYQLQCASDSGRLFIASdrgSVHVVQLLEPG 471
Cdd:cd00200    12 VTCVAFSPDGKLLA--TGSGDGTIKVwdLETGELLRTLKGH-----TGPVRDVAASADGTYLASGS---SDKTIRLWDLE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 472 GCKHLHTLRppaGTREAVYLLASSADGNWLAAVSGDWEVHVYSLKHFKHHCTVPTYSCAVTALAIHPTTNNLFISYSDQQ 551
Cdd:cd00200    82 TGECVRTLT---GHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2024452863 552 LFEFSIPEkqytawSRAVQNSGLHKlwlerdSPITHIAFNPKNTSqvllhdvYMLCVLDKSL 613
Cdd:cd00200   159 IKLWDLRT------GKCVATLTGHT------GEVNSVAFSPDGEK-------LLSSSSDGTI 201
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
7-307 1.96e-30

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 124.25  E-value: 1.96e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863   7 HRVRFFGLVPAGVRCMAYQHNGRRLALARTDGAVEVYNfAANYYMEKAIPGHqTRSVEALCWAA-GERLFGAGLSGDITE 85
Cdd:COG2319   111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWD-LATGKLLRTLTGH-SGAVTSVAFSPdGKLLASGSDDGTVRL 188
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  86 YDLERLRPARAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGS 165
Cdd:COG2319   189 WDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG---KLLRTLTGHSGSVRSVAFSPDGRLLASGS 265
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 166 IDF-IRVLDVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWERGTLQDSHTVSSSAALSL 243
Cdd:COG2319   266 ADGtVRLWDLATGELLRTL---------TGHSGGVNSVAFSPDGkLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSV 336
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2024452863 244 AVSEKEDSIVVGTSAGATYQFQLlpvkAGGQEKRwvrtkPFQHHTHDVRAVVHTP--TALISGGLD 307
Cdd:COG2319   337 AFSPDGKTLASGSDDGTVRLWDL----ATGELLR-----TLTGHTGAVTSVAFSPdgRTLASGSAD 393
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
16-307 2.97e-21

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: 94.71  E-value: 2.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  16 PAGVRCMAYQHNGRRLALARTDGAVEVYNFAANYYmEKAIPGHqTRSVEA-LCWAAGERLFGAGLSGDITEYDLERLRPA 94
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL-LRTLKGH-TGPVRDvAASADGTYLASGSSDKTIRLWDLETGECV 86
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  95 RAVDGFGGPIWSMAANNDGtRLAIGC-EDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVL 172
Cdd:cd00200    87 RTLTGHTSYVSSVAFSPDG-RILSSSsRDKTIKVWDVETG---KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDgTIKLW 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 173 DVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWERGTLQDSHTVSSSAALSLAVSEKEDS 251
Cdd:cd00200   163 DLRTGKCVATL---------TGHTGEVNSVAFSPDGeKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYL 233
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2024452863 252 IVVGTSAGATYQFQLlpvkaggqeKRWVRTKPFQHHTHDVRAVVHTPTA--LISGGLD 307
Cdd:cd00200   234 LASGSEDGTIRVWDL---------RTGECVQTLSGHTNSVTSLAWSPDGkrLASGSAD 282
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
116-201 6.11e-06

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 44.96  E-value: 6.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 116 LAIGCEDGSVKLF----QVVpgggvqFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVLDVHSGRTAQRIMVnchvp 190
Cdd:pfam12894  10 IALATEDGELLLHrlnwQRV------WTLSPDKEDLEVTSLAWRPDGKLLAVGYSDgTVRLLDAENGKIVHHFSA----- 78
                          90
                  ....*....|.
gi 2024452863 191 KSKKRECVVWS 201
Cdd:pfam12894  79 GSDLITCLGWG 89
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
63-223 5.00e-04

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 43.54  E-value: 5.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  63 VEALCWAA--GERLFGAGLSGDITEYDLERLRPARAVDGFGGPIWSM-AANNDGTRLAIGCEDGSVKLFQVVPGGGVQFE 139
Cdd:PLN00181  535 LSGICWNSyiKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIdYSSADPTLLASGSDDGSVKLWSINQGVSIGTI 614
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 140 KNldrqKGRVLCLSW-HPSGTHLAAGSIDF-IRVLDVHSGRTAQRIMVNCHVPKSKKRecvvwsiaFLSSGTVISSDSFG 217
Cdd:PLN00181  615 KT----KANICCVQFpSESGRSLAFGSADHkVYYYDLRNPKLPLCTMIGHSKTVSYVR--------FVDSSTLVSSSTDN 682

                  ....*.
gi 2024452863 218 RVQFWD 223
Cdd:PLN00181  683 TLKLWD 688
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
394-613 7.68e-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: 41.94  E-value: 7.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 394 IYCSCVSPCGSWIAysTASRFHLYRV--QHEGDSISVKKVPgvpklLLPAYQLQCASDSGRLFIASdrgSVHVVQLLEPG 471
Cdd:cd00200    12 VTCVAFSPDGKLLA--TGSGDGTIKVwdLETGELLRTLKGH-----TGPVRDVAASADGTYLASGS---SDKTIRLWDLE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 472 GCKHLHTLRppaGTREAVYLLASSADGNWLAAVSGDWEVHVYSLKHFKHHCTVPTYSCAVTALAIHPTTNNLFISYSDQQ 551
Cdd:cd00200    82 TGECVRTLT---GHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2024452863 552 LFEFSIPEkqytawSRAVQNSGLHKlwlerdSPITHIAFNPKNTSqvllhdvYMLCVLDKSL 613
Cdd:cd00200   159 IKLWDLRT------GKCVATLTGHT------GEVNSVAFSPDGEK-------LLSSSSDGTI 201
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
98-128 4.46e-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: 35.37  E-value: 4.46e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2024452863   98 DGFGGPIWSMAANNDGTRLAIGCEDGSVKLF 128
Cdd:smart00320   9 KGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
7-307 1.96e-30

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 124.25  E-value: 1.96e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863   7 HRVRFFGLVPAGVRCMAYQHNGRRLALARTDGAVEVYNfAANYYMEKAIPGHqTRSVEALCWAA-GERLFGAGLSGDITE 85
Cdd:COG2319   111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWD-LATGKLLRTLTGH-SGAVTSVAFSPdGKLLASGSDDGTVRL 188
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  86 YDLERLRPARAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGS 165
Cdd:COG2319   189 WDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG---KLLRTLTGHSGSVRSVAFSPDGRLLASGS 265
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 166 IDF-IRVLDVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWERGTLQDSHTVSSSAALSL 243
Cdd:COG2319   266 ADGtVRLWDLATGELLRTL---------TGHSGGVNSVAFSPDGkLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSV 336
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2024452863 244 AVSEKEDSIVVGTSAGATYQFQLlpvkAGGQEKRwvrtkPFQHHTHDVRAVVHTP--TALISGGLD 307
Cdd:COG2319   337 AFSPDGKTLASGSDDGTVRLWDL----ATGELLR-----TLTGHTGAVTSVAFSPdgRTLASGSAD 393
WD40 COG2319
WD40 repeat [General function prediction only];
8-307 1.21e-24

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 106.92  E-value: 1.21e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863   8 RVRFFGLVPAGVRCMAYQHNGRRLALARTDGAVEVYNFAANYYmEKAIPGHQTRSVEALCWAAGERLFGAGLSGDITEYD 87
Cdd:COG2319    28 LLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGAL-LATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWD 106
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  88 LERLRPARAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGSID 167
Cdd:COG2319   107 LATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATG---KLLRTLTGHSGAVTSVAFSPDGKLLASGSDD 183
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 168 F-IRVLDVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSGTVISSDSF-GRVQFWDWERGTLQDSHTVSSSAALSLAV 245
Cdd:COG2319   184 GtVRLWDLATGKLLRTL---------TGHTGAVRSVAFSPDGKLLASGSAdGTVRLWDLATGKLLRTLTGHSGSVRSVAF 254
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2024452863 246 SEKEDSIVVGTSAGATYQFQLlpvkAGGQEKRwvrtkPFQHHTHDVRAVVHTP--TALISGGLD 307
Cdd:COG2319   255 SPDGRLLASGSADGTVRLWDL----ATGELLR-----TLTGHSGGVNSVAFSPdgKLLASGSDD 309
WD40 COG2319
WD40 repeat [General function prediction only];
16-225 1.82e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 103.45  E-value: 1.82e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  16 PAGVRCMAYQHNGRRLALARTDGAVEVYNFAANyyMEKAIPGHQTRSVEALCWAA-GERLFGAGLSGDITEYDLERLRPA 94
Cdd:COG2319   204 TGAVRSVAFSPDGKLLASGSADGTVRLWDLATG--KLLRTLTGHSGSVRSVAFSPdGRLLASGSADGTVRLWDLATGELL 281
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  95 RAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVLD 173
Cdd:COG2319   282 RTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATG---KLLRTLTGHTGAVRSVAFSPDGKTLASGSDDgTVRLWD 358
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2024452863 174 VHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWE 225
Cdd:COG2319   359 LATGELLRTL---------TGHTGAVTSVAFSPDGrTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
16-307 2.97e-21

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: 94.71  E-value: 2.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  16 PAGVRCMAYQHNGRRLALARTDGAVEVYNFAANYYmEKAIPGHqTRSVEA-LCWAAGERLFGAGLSGDITEYDLERLRPA 94
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGEL-LRTLKGH-TGPVRDvAASADGTYLASGSSDKTIRLWDLETGECV 86
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  95 RAVDGFGGPIWSMAANNDGtRLAIGC-EDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVL 172
Cdd:cd00200    87 RTLTGHTSYVSSVAFSPDG-RILSSSsRDKTIKVWDVETG---KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDgTIKLW 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 173 DVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSDSFGRVQFWDWERGTLQDSHTVSSSAALSLAVSEKEDS 251
Cdd:cd00200   163 DLRTGKCVATL---------TGHTGEVNSVAFSPDGeKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYL 233
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2024452863 252 IVVGTSAGATYQFQLlpvkaggqeKRWVRTKPFQHHTHDVRAVVHTPTA--LISGGLD 307
Cdd:cd00200   234 LASGSEDGTIRVWDL---------RTGECVQTLSGHTNSVTSLAWSPDGkrLASGSAD 282
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
18-223 1.33e-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: 80.84  E-value: 1.33e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  18 GVRCMAYQHNGRRLALARTDGAVEVYNFAaNYYMEKAIPGHqTRSVEALCWA-AGERLFGAGLSGDITEYDLERLRPARA 96
Cdd:cd00200    95 YVSSVAFSPDGRILSSSSRDKTIKVWDVE-TGKCLTTLRGH-TDWVNSVAFSpDGTFVASSSQDGTIKLWDLRTGKCVAT 172
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  97 VDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggvQFEKNLDRQKGRVLCLSWHPSGTHLAAGSIDF-IRVLDVH 175
Cdd:cd00200   173 LTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTG---KCLGTLRGHENGVNSVAFSPDGYLLASGSEDGtIRVWDLR 249
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 2024452863 176 SGRTAQRImvnchvPKSKKRecvVWSIAFLSSGTVISSDSF-GRVQFWD 223
Cdd:cd00200   250 TGECVQTL------SGHTNS---VTSLAWSPDGKRLASGSAdGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
95-412 2.46e-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: 76.99  E-value: 2.46e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  95 RAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGGGVQFEKNldrQKGRVLCLSWHPSGTHLAAGSID-FIRVLD 173
Cdd:cd00200     3 RTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKG---HTGPVRDVAASADGTYLASGSSDkTIRLWD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 174 VHSGRTAQRImvNCHvpkskkrECVVWSIAFLSSGTVISSDSF-GRVQFWDWERGTLQDS---HTvssSAALSLAVSEKE 249
Cdd:cd00200    80 LETGECVRTL--TGH-------TSYVSSVAFSPDGRILSSSSRdKTIKVWDVETGKCLTTlrgHT---DWVNSVAFSPDG 147
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 250 DSIVVGTSAGATYQFQLlpvkaggQEKRWVRTkpFQHHTHDVRAVVHTPTA--LISGGLDAQLVIRPLMEKVQKKGYDAA 327
Cdd:cd00200   148 TFVASSSQDGTIKLWDL-------RTGKCVAT--LTGHTGEVNSVAFSPDGekLLSSSSDGTIKLWDLSTGKCLGTLRGH 218
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 328 LRKFT----LPHRRLVSCARKARlllfqfsqHLELWRLgstnKTGKdgetlPLSRMPEHllqlkskgPEHIYCSCVSPCG 403
Cdd:cd00200   219 ENGVNsvafSPDGYLLASGSEDG--------TIRVWDL----RTGE-----CVQTLSGH--------TNSVTSLAWSPDG 273

                  ....*....
gi 2024452863 404 SWIAysTAS 412
Cdd:cd00200   274 KRLA--SGS 280
WD40 COG2319
WD40 repeat [General function prediction only];
57-592 4.51e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 77.64  E-value: 4.51e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  57 GHQTRSVEALCWAAGERLFGAGLSGDITEYDLERLRPARAVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGggv 136
Cdd:COG2319    34 GLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATG--- 110
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 137 QFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVLDVHSGRTAQRImvnchvpksKKRECVVWSIAFLSSG-TVISSD 214
Cdd:COG2319   111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADgTVRLWDLATGKLLRTL---------TGHSGAVTSVAFSPDGkLLASGS 181
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 215 SFGRVQFWDWERGTLqdshtvsssaalslavsekedsivvgtsagatyqfqllpvkaggqekrwvrTKPFQHHTHDVRAV 294
Cdd:COG2319   182 DDGTVRLWDLATGKL---------------------------------------------------LRTLTGHTGAVRSV 210
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 295 VHTP--TALISGGLDaqlvirplmekvqkkgydaalrkftlphrrlvscaRKARLllfqfsqhlelWRLgstnKTGKdge 372
Cdd:COG2319   211 AFSPdgKLLASGSAD-----------------------------------GTVRL-----------WDL----ATGK--- 237
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 373 tlPLSRMPEHllqlkskgPEHIYCSCVSPCGSWIAystasrfhlyrvqhegdsisvkkvpgvpklllpayqlqcasdsgr 452
Cdd:COG2319   238 --LLRTLTGH--------SGSVRSVAFSPDGRLLA--------------------------------------------- 262
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 453 lfIASDRGSVHVVQLlepGGCKHLHTLRPPAGtreAVYLLASSADGNWLAAVSGDWEVHVYSLKHFKHHCTVPTYSCAVT 532
Cdd:COG2319   263 --SGSADGTVRLWDL---ATGELLRTLTGHSG---GVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVR 334
                         490       500       510       520       530       540
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 533 ALAIHPTTNNLFISYSDQQLfefsipekqyTAWSraVQNSGLHKLWLERDSPITHIAFNP 592
Cdd:COG2319   335 SVAFSPDGKTLASGSDDGTV----------RLWD--LATGELLRTLTGHTGAVTSVAFSP 382
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
116-201 6.11e-06

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 44.96  E-value: 6.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 116 LAIGCEDGSVKLF----QVVpgggvqFEKNLDRQKGRVLCLSWHPSGTHLAAGSID-FIRVLDVHSGRTAQRIMVnchvp 190
Cdd:pfam12894  10 IALATEDGELLLHrlnwQRV------WTLSPDKEDLEVTSLAWRPDGKLLAVGYSDgTVRLLDAENGKIVHHFSA----- 78
                          90
                  ....*....|.
gi 2024452863 191 KSKKRECVVWS 201
Cdd:pfam12894  79 GSDLITCLGWG 89
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
63-223 5.00e-04

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 43.54  E-value: 5.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863  63 VEALCWAA--GERLFGAGLSGDITEYDLERLRPARAVDGFGGPIWSM-AANNDGTRLAIGCEDGSVKLFQVVPGGGVQFE 139
Cdd:PLN00181  535 LSGICWNSyiKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIdYSSADPTLLASGSDDGSVKLWSINQGVSIGTI 614
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 140 KNldrqKGRVLCLSW-HPSGTHLAAGSIDF-IRVLDVHSGRTAQRIMVNCHVPKSKKRecvvwsiaFLSSGTVISSDSFG 217
Cdd:PLN00181  615 KT----KANICCVQFpSESGRSLAFGSADHkVYYYDLRNPKLPLCTMIGHSKTVSYVR--------FVDSSTLVSSSTDN 682

                  ....*.
gi 2024452863 218 RVQFWD 223
Cdd:PLN00181  683 TLKLWD 688
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
96-154 5.31e-04

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 39.57  E-value: 5.31e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2024452863  96 AVDGFGGPIWSMAANNDGTRLAIGCEDGSVKLFQVVPGGGVQfekNLDRQKGRVLCLSW 154
Cdd:pfam12894  33 SPDKEDLEVTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVH---HFSAGSDLITCLGW 88
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
394-613 7.68e-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: 41.94  E-value: 7.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 394 IYCSCVSPCGSWIAysTASRFHLYRV--QHEGDSISVKKVPgvpklLLPAYQLQCASDSGRLFIASdrgSVHVVQLLEPG 471
Cdd:cd00200    12 VTCVAFSPDGKLLA--TGSGDGTIKVwdLETGELLRTLKGH-----TGPVRDVAASADGTYLASGS---SDKTIRLWDLE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024452863 472 GCKHLHTLRppaGTREAVYLLASSADGNWLAAVSGDWEVHVYSLKHFKHHCTVPTYSCAVTALAIHPTTNNLFISYSDQQ 551
Cdd:cd00200    82 TGECVRTLT---GHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2024452863 552 LFEFSIPEkqytawSRAVQNSGLHKlwlerdSPITHIAFNPKNTSqvllhdvYMLCVLDKSL 613
Cdd:cd00200   159 IKLWDLRT------GKCVATLTGHT------GEVNSVAFSPDGEK-------LLSSSSDGTI 201
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
98-128 4.46e-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: 35.37  E-value: 4.46e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2024452863   98 DGFGGPIWSMAANNDGTRLAIGCEDGSVKLF 128
Cdd:smart00320   9 KGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
2-44 7.00e-03

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 36.49  E-value: 7.00e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2024452863   2 GEFEVHRV---RFFGLVPAG----VRCMAYQHNGRRLALARTDGAVEVYN 44
Cdd:pfam12894  17 GELLLHRLnwqRVWTLSPDKedleVTSLAWRPDGKLLAVGYSDGTVRLLD 66
 
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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