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Conserved domains on  [gi|17531523|ref|NP_496146|]
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Ubiquitin fusion degradation protein 3 homolog [Caenorhabditis elegans]

Protein Classification

WD repeat PLAP family protein( domain architecture ID 13235881)

WD repeat PLAP family protein containing WD40, PFU, and PUL domains, similar to Caenorhabditis elegans ubiquitin fusion degradation protein 3 homolog that plays a role in protein ubiquitination, sorting and degradation through its association with cdc-48.1 and/or cdc-48.2

CATH:  2.130.10.10
Gene Ontology:  GO:0005515|GO:0043130
PubMed:  10322433|8090199|30069656|29026209
SCOP:  4002744

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PUL pfam08324
PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated ...
 599-839 3.47e-39

PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated domain. It directly binds to Cdc48, a chaperone-like AAA ATPase that collects ubiquitylated substrates.


:

Pssm-ID: 462428  Cd Length: 261  Bit Score: 146.32  E-value: 3.47e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   599 AGKGEKAIAKLKELN-EKQDAFQLNPDQINGLEELF-VLPTSSNYSSEVTQSAFEMSLQWPVEHLTPVLDFLRIALTHHS 676
Cdd:pfam08324  10 KANLDKILKKLGEFNgGEPKVLALSPEELATLEALLsFLESSSSASEADIELLLKILTSWPPEDRFPALDLLRLLALDPR 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   677 LNSYFCDrERGQELVGRLIAILVSDPADvALKVLVCRCIANAFSHPVGRNLFAS---TELSTLAPLVVRQVLNEKTVLQM 753
Cdd:pfam08324  90 VAAYFAE-EEGGKTISTLLSLLISSGLY-ALRMLALRLLCNLFSSPLGRQLLLShfdSILSTLASLLSSSLLDSNKNLRI 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   754 SAATALANWSLALLQQSEQCEQLGPKEdLLRAILNGIESVDSfgylGEDAIIRLLQALVTVM--WGDASVIRLAKNRNIA 831
Cdd:pfam08324 168 ALATLLLNYAVLLHKEKSPLSEEDQVE-LLAALLEALSTEEE----DSEALYRLLVALGTLVyaPDGEVLADLAQVLDAA 242


                  ....*...
gi 17531523   832 QIAARLKD 839
Cdd:pfam08324 243 SWVKKAKK 250
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 22-320 7.99e-32

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


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 125.91  E-value: 7.99e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  22 SHVIEAHKSDTKALAVT-QGGCLISGGRDETVKFWAKKGKQYTKThaFEQPKGiTVNSIAYaeLADGWRLFVGRRDGTIA 100
Cdd:cd00200   2 RRTLKGHTGGVTCVAFSpDGKLLATGSGDGTIKVWDLETGELLRT--LKGHTG-PVRDVAA--SADGTYLASGSSDKTIR 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITELNsssftfQTIVCPGHTLSVWALASFPDlpNT 180
Cdd:cd00200  77 LWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGK------CLTTLRGHTDWVNSVAFSPD--GT 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWFGDT--TLSVFKGHTDVVRALVVL-SSSHFLSAGNDGHIIHWDVASASILRKFatQAHE-FIYSMT 255
Cdd:cd00200 149 FVaSSSQDGTIKLWDLRTgkCVATLTGHTGEVNSVAFSpDGEKLLSSSSDGTIKLWDLSTGKCLGTL--RGHEnGVNSVA 226

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17531523 256 LS-DSHILTTG-EDGTLEFWAIDGGK-DGNLAIVSEAVIQLpttnTWDAKvllNSDIAVAGSDGRIYI 320
Cdd:cd00200 227 FSpDGYLLASGsEDGTIRVWDLRTGEcVQTLSGHTNSVTSL----AWSPD---GKRLASGSADGTIRI 287
PFU super family cl08519
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 422-474 3.81e-14

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


The actual alignment was detected with superfamily member pfam09070:

Pssm-ID: 462670  Cd Length: 111  Bit Score: 69.09  E-value: 3.81e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17531523   422 SGKKVIVDGKEYDYALGVNFGKGEPDKQMPFNVNESPQFAAQRFVERHQLPVS 474
Cdd:pfam09070  42 SSQKKEYEGKEYDYVFDVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQS 94
PFU super family cl08519
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 363-408 1.96e-07

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


The actual alignment was detected with superfamily member pfam09070:

Pssm-ID: 462670  Cd Length: 111  Bit Score: 50.21  E-value: 1.96e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 17531523   363 KVDIDDRPTQLNLKYKKGTDPGLCAQEFLSENNLPIHYLEEITRFI 408
Cdd:pfam09070  58 DVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQSYLDQVVNFI 103
 
Name Accession Description Interval E-value
PUL pfam08324
PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated ...
 599-839 3.47e-39

PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated domain. It directly binds to Cdc48, a chaperone-like AAA ATPase that collects ubiquitylated substrates.


Pssm-ID: 462428  Cd Length: 261  Bit Score: 146.32  E-value: 3.47e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   599 AGKGEKAIAKLKELN-EKQDAFQLNPDQINGLEELF-VLPTSSNYSSEVTQSAFEMSLQWPVEHLTPVLDFLRIALTHHS 676
Cdd:pfam08324  10 KANLDKILKKLGEFNgGEPKVLALSPEELATLEALLsFLESSSSASEADIELLLKILTSWPPEDRFPALDLLRLLALDPR 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   677 LNSYFCDrERGQELVGRLIAILVSDPADvALKVLVCRCIANAFSHPVGRNLFAS---TELSTLAPLVVRQVLNEKTVLQM 753
Cdd:pfam08324  90 VAAYFAE-EEGGKTISTLLSLLISSGLY-ALRMLALRLLCNLFSSPLGRQLLLShfdSILSTLASLLSSSLLDSNKNLRI 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   754 SAATALANWSLALLQQSEQCEQLGPKEdLLRAILNGIESVDSfgylGEDAIIRLLQALVTVM--WGDASVIRLAKNRNIA 831
Cdd:pfam08324 168 ALATLLLNYAVLLHKEKSPLSEEDQVE-LLAALLEALSTEEE----DSEALYRLLVALGTLVyaPDGEVLADLAQVLDAA 242


                  ....*...
gi 17531523   832 QIAARLKD 839
Cdd:pfam08324 243 SWVKKAKK 250
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 22-320 7.99e-32

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 125.91  E-value: 7.99e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  22 SHVIEAHKSDTKALAVT-QGGCLISGGRDETVKFWAKKGKQYTKThaFEQPKGiTVNSIAYaeLADGWRLFVGRRDGTIA 100
Cdd:cd00200   2 RRTLKGHTGGVTCVAFSpDGKLLATGSGDGTIKVWDLETGELLRT--LKGHTG-PVRDVAA--SADGTYLASGSSDKTIR 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITELNsssftfQTIVCPGHTLSVWALASFPDlpNT 180
Cdd:cd00200  77 LWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGK------CLTTLRGHTDWVNSVAFSPD--GT 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWFGDT--TLSVFKGHTDVVRALVVL-SSSHFLSAGNDGHIIHWDVASASILRKFatQAHE-FIYSMT 255
Cdd:cd00200 149 FVaSSSQDGTIKLWDLRTgkCVATLTGHTGEVNSVAFSpDGEKLLSSSSDGTIKLWDLSTGKCLGTL--RGHEnGVNSVA 226

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17531523 256 LS-DSHILTTG-EDGTLEFWAIDGGK-DGNLAIVSEAVIQLpttnTWDAKvllNSDIAVAGSDGRIYI 320
Cdd:cd00200 227 FSpDGYLLASGsEDGTIRVWDLRTGEcVQTLSGHTNSVTSL----AWSPD---GKRLASGSADGTIRI 287
WD40 COG2319
WD40 repeat [General function prediction only];
23-320 8.71e-29

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 119.63  E-value: 8.71e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  23 HVIEAHKSDTKALAVT-QGGCLISGGRDETVKFW-AKKGKQytkTHAFEQPKGiTVNSIAYAelADGWRLFVGRRDGTIA 100
Cdd:COG2319 114 RTLTGHTGAVRSVAFSpDGKTLASGSADGTVRLWdLATGKL---LRTLTGHSG-AVTSVAFS--PDGKLLASGSDDGTVR 187

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITelnsSSFTFQTIvcPGHTLSVWALASFPDlpNT 180
Cdd:COG2319 188 LWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLA----TGKLLRTL--TGHSGSVRSVAFSPD--GR 259

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWfgDTT----LSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWDVASASILRKFatQAHE-FIYS 253
Cdd:COG2319 260 LLaSGSADGTVRLW--DLAtgelLRTLTGHSGGVNSVAFSPDGKLLaSGSDDGTVRLWDLATGKLLRTL--TGHTgAVRS 335

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17531523 254 MTLS--DSHILTTGEDGTLEFWAIDGGK-----DGNLAIVSEAVIqlpttnTWDAKVLlnsdiAVAGSDGRIYI 320
Cdd:COG2319 336 VAFSpdGKTLASGSDDGTVRLWDLATGEllrtlTGHTGAVTSVAF------SPDGRTL-----ASGSADGTVRL 398
PFU pfam09070
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 422-474 3.81e-14

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


Pssm-ID: 462670  Cd Length: 111  Bit Score: 69.09  E-value: 3.81e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17531523   422 SGKKVIVDGKEYDYALGVNFGKGEPDKQMPFNVNESPQFAAQRFVERHQLPVS 474
Cdd:pfam09070  42 SSQKKEYEGKEYDYVFDVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQS 94
PFU pfam09070
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 363-408 1.96e-07

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


Pssm-ID: 462670  Cd Length: 111  Bit Score: 50.21  E-value: 1.96e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 17531523   363 KVDIDDRPTQLNLKYKKGTDPGLCAQEFLSENNLPIHYLEEITRFI 408
Cdd:pfam09070  58 DVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQSYLDQVVNFI 103
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 45-229 1.93e-04

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 45.08  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   45 SGGRDETVKFWAKKGKQYTkTHAFEQPKgiTVNSIAYAElADGWRLFVGRRDGTIAVFGPSQAEPYAIFnEHKQNVCCLH 124
Cdd:PLN00181 550 SSNFEGVVQVWDVARSQLV-TEMKEHEK--RVWSIDYSS-ADPTLLASGSDDGSVKLWSINQGVSIGTI-KTKANICCVQ 624

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  125 INEKATHMLS-GSWDSNVIIWpitELNSSSFTFQTIVcpGHTLSVwALASFPDlPNTYLSASADKTIRMW--------FG 195
Cdd:PLN00181 625 FPSESGRSLAfGSADHKVYYY---DLRNPKLPLCTMI--GHSKTV-SYVRFVD-SSTLVSSSTDNTLKLWdlsmsisgIN 697

                        170       180       190
                 ....*....|....*....|....*....|....
gi 17531523  196 DTTLSVFKGHTDvVRALVVLSSShflsagnDGHI 229
Cdd:PLN00181 698 ETPLHSFMGHTN-VKNFVGLSVS-------DGYI 723
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 108-144 1.97e-04

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


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 39.60  E-value: 1.97e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 17531523    108 EPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIW 144
Cdd:smart00320   3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
WD40 pfam00400
WD domain, G-beta repeat;
108-144 8.15e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.71  E-value: 8.15e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 17531523   108 EPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIW 144
Cdd:pfam00400   2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVW 38
 
Name Accession Description Interval E-value
PUL pfam08324
PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated ...
 599-839 3.47e-39

PUL domain; The PUL (PLAP, Ufd3p and Lub1p) domain is a novel alpha-helical Ub-associated domain. It directly binds to Cdc48, a chaperone-like AAA ATPase that collects ubiquitylated substrates.


Pssm-ID: 462428  Cd Length: 261  Bit Score: 146.32  E-value: 3.47e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   599 AGKGEKAIAKLKELN-EKQDAFQLNPDQINGLEELF-VLPTSSNYSSEVTQSAFEMSLQWPVEHLTPVLDFLRIALTHHS 676
Cdd:pfam08324  10 KANLDKILKKLGEFNgGEPKVLALSPEELATLEALLsFLESSSSASEADIELLLKILTSWPPEDRFPALDLLRLLALDPR 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   677 LNSYFCDrERGQELVGRLIAILVSDPADvALKVLVCRCIANAFSHPVGRNLFAS---TELSTLAPLVVRQVLNEKTVLQM 753
Cdd:pfam08324  90 VAAYFAE-EEGGKTISTLLSLLISSGLY-ALRMLALRLLCNLFSSPLGRQLLLShfdSILSTLASLLSSSLLDSNKNLRI 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   754 SAATALANWSLALLQQSEQCEQLGPKEdLLRAILNGIESVDSfgylGEDAIIRLLQALVTVM--WGDASVIRLAKNRNIA 831
Cdd:pfam08324 168 ALATLLLNYAVLLHKEKSPLSEEDQVE-LLAALLEALSTEEE----DSEALYRLLVALGTLVyaPDGEVLADLAQVLDAA 242


                  ....*...
gi 17531523   832 QIAARLKD 839
Cdd:pfam08324 243 SWVKKAKK 250
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 22-320 7.99e-32

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 125.91  E-value: 7.99e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  22 SHVIEAHKSDTKALAVT-QGGCLISGGRDETVKFWAKKGKQYTKThaFEQPKGiTVNSIAYaeLADGWRLFVGRRDGTIA 100
Cdd:cd00200   2 RRTLKGHTGGVTCVAFSpDGKLLATGSGDGTIKVWDLETGELLRT--LKGHTG-PVRDVAA--SADGTYLASGSSDKTIR 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITELNsssftfQTIVCPGHTLSVWALASFPDlpNT 180
Cdd:cd00200  77 LWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGK------CLTTLRGHTDWVNSVAFSPD--GT 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWFGDT--TLSVFKGHTDVVRALVVL-SSSHFLSAGNDGHIIHWDVASASILRKFatQAHE-FIYSMT 255
Cdd:cd00200 149 FVaSSSQDGTIKLWDLRTgkCVATLTGHTGEVNSVAFSpDGEKLLSSSSDGTIKLWDLSTGKCLGTL--RGHEnGVNSVA 226

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17531523 256 LS-DSHILTTG-EDGTLEFWAIDGGK-DGNLAIVSEAVIQLpttnTWDAKvllNSDIAVAGSDGRIYI 320
Cdd:cd00200 227 FSpDGYLLASGsEDGTIRVWDLRTGEcVQTLSGHTNSVTSL----AWSPD---GKRLASGSADGTIRI 287
WD40 COG2319
WD40 repeat [General function prediction only];
23-320 8.71e-29

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 119.63  E-value: 8.71e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  23 HVIEAHKSDTKALAVT-QGGCLISGGRDETVKFW-AKKGKQytkTHAFEQPKGiTVNSIAYAelADGWRLFVGRRDGTIA 100
Cdd:COG2319 114 RTLTGHTGAVRSVAFSpDGKTLASGSADGTVRLWdLATGKL---LRTLTGHSG-AVTSVAFS--PDGKLLASGSDDGTVR 187

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITelnsSSFTFQTIvcPGHTLSVWALASFPDlpNT 180
Cdd:COG2319 188 LWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLA----TGKLLRTL--TGHSGSVRSVAFSPD--GR 259

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWfgDTT----LSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWDVASASILRKFatQAHE-FIYS 253
Cdd:COG2319 260 LLaSGSADGTVRLW--DLAtgelLRTLTGHSGGVNSVAFSPDGKLLaSGSDDGTVRLWDLATGKLLRTL--TGHTgAVRS 335

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17531523 254 MTLS--DSHILTTGEDGTLEFWAIDGGK-----DGNLAIVSEAVIqlpttnTWDAKVLlnsdiAVAGSDGRIYI 320
Cdd:COG2319 336 VAFSpdGKTLASGSDDGTVRLWDLATGEllrtlTGHTGAVTSVAF------SPDGRTL-----ASGSADGTVRL 398
WD40 COG2319
WD40 repeat [General function prediction only];
23-277 2.03e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 118.48  E-value: 2.03e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  23 HVIEAHKSDTKALAVTQGGC-LISGGRDETVKFW-AKKGKQytkTHAFEQPKGiTVNSIAYAelADGWRLFVGRRDGTIA 100
Cdd:COG2319 156 RTLTGHSGAVTSVAFSPDGKlLASGSDDGTVRLWdLATGKL---LRTLTGHTG-AVRSVAFS--PDGKLLASGSADGTVR 229

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 101 VFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWpitelNSSSFTFQTIVcPGHTLSVWALASFPDlpNT 180
Cdd:COG2319 230 LWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLW-----DLATGELLRTL-TGHSGGVNSVAFSPD--GK 301

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 181 YL-SASADKTIRMWFGDT--TLSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWDVASASILRKFatQAHE-FIYSMT 255
Cdd:COG2319 302 LLaSGSDDGTVRLWDLATgkLLRTLTGHTGAVRSVAFSPDGKTLaSGSDDGTVRLWDLATGELLRTL--TGHTgAVTSVA 379

                       250       260
                ....*....|....*....|....
gi 17531523 256 LS--DSHILTTGEDGTLEFWAIDG 277
Cdd:COG2319 380 FSpdGRTLASGSADGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
34-327 2.75e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 103.45  E-value: 2.75e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  34 ALAVTQGGCLISGGRDETVKFWAKKGKQYTKThafeqPKGITVNSIAYAELADGWRLFVGRRDGTIAVFGPSQAEPYAIF 113
Cdd:COG2319  42 LAASPDGARLAAGAGDLTLLLLDAAAGALLAT-----LLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTL 116

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 114 NEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITelnsSSFTFQTIvcPGHTLSVWALASFPDlpNTYL-SASADKTIRM 192
Cdd:COG2319 117 TGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLA----TGKLLRTL--TGHSGAVTSVAFSPD--GKLLaSGSDDGTVRL 188

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 193 WFGDT--TLSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWDVASASILRKFATQAHEfIYSMTLS--DSHILTTGED 267
Cdd:COG2319 189 WDLATgkLLRTLTGHTGAVRSVAFSPDGKLLaSGSADGTVRLWDLATGKLLRTLTGHSGS-VRSVAFSpdGRLLASGSAD 267

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17531523 268 GTLEFWAIDGGK-----DGNLAIVSEAVIqlpttnTWDAKVLlnsdiAVAGSDGRIYIMTTDKNR 327
Cdd:COG2319 268 GTVRLWDLATGEllrtlTGHSGGVNSVAF------SPDGKLL-----ASGSDDGTVRLWDLATGK 321
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 109-320 3.79e-22

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: 97.41  E-value: 3.79e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 109 PYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIW----------------PITELNSSSFTFQTIVC----------- 161
Cdd:cd00200   1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWdletgellrtlkghtgPVRDVAASADGTYLASGssdktirlwdl 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 162 ---------PGHTLSVWALASFPDlpNTYL-SASADKTIRMWFGDTT--LSVFKGHTDVVRALVVLSSSHFLSAG-NDGH 228
Cdd:cd00200  81 etgecvrtlTGHTSYVSSVAFSPD--GRILsSSSRDKTIKVWDVETGkcLTTLRGHTDWVNSVAFSPDGTFVASSsQDGT 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523 229 IIHWDVASASILRKFatQAHE-FIYSMTLSD--SHILTTGEDGTLEFWAIDGGKdgnlaivSEAVIQLPTTNTWDAKVLL 305
Cdd:cd00200 159 IKLWDLRTGKCVATL--TGHTgEVNSVAFSPdgEKLLSSSSDGTIKLWDLSTGK-------CLGTLRGHENGVNSVAFSP 229

                       250
                ....*....|....*.
gi 17531523 306 NSDIAVAGS-DGRIYI 320
Cdd:cd00200 230 DGYLLASGSeDGTIRV 245
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 15-193 1.98e-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: 95.48  E-value: 1.98e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  15 SMPQYTISHVIEAHKSDTKALAVTQGGCLISGG-RDETVKFWAKKGKQYTKThaFEQPKGiTVNSIAYaeLADGWRLFVG 93
Cdd:cd00200 121 DVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCVAT--LTGHTG-EVNSVAF--SPDGEKLLSS 195

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  94 RRDGTIAVFGPSQAEPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIWPITelnsssfTFQTI-VCPGHTLSVWALA 172
Cdd:cd00200 196 SSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLR-------TGECVqTLSGHTNSVTSLA 268

                       170       180
                ....*....|....*....|.
gi 17531523 173 SFPDlPNTYLSASADKTIRMW 193
Cdd:cd00200 269 WSPD-GKRLASGSADGTIRIW 288
PFU pfam09070
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 422-474 3.81e-14

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


Pssm-ID: 462670  Cd Length: 111  Bit Score: 69.09  E-value: 3.81e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17531523   422 SGKKVIVDGKEYDYALGVNFGKGEPDKQMPFNVNESPQFAAQRFVERHQLPVS 474
Cdd:pfam09070  42 SSQKKEYEGKEYDYVFDVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQS 94
PFU pfam09070
PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ...
 363-408 1.96e-07

PFU (PLAA family ubiquitin binding); This domain is found N terminal to pfam08324 and binds to ubiquitin.


Pssm-ID: 462670  Cd Length: 111  Bit Score: 50.21  E-value: 1.96e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 17531523   363 KVDIDDRPTQLNLKYKKGTDPGLCAQEFLSENNLPIHYLEEITRFI 408
Cdd:pfam09070  58 DVDIEDGKPPLKLPYNVGDNPYEAAQKFLARNELPQSYLDQVVNFI 103
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 45-229 1.93e-04

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 45.08  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523   45 SGGRDETVKFWAKKGKQYTkTHAFEQPKgiTVNSIAYAElADGWRLFVGRRDGTIAVFGPSQAEPYAIFnEHKQNVCCLH 124
Cdd:PLN00181 550 SSNFEGVVQVWDVARSQLV-TEMKEHEK--RVWSIDYSS-ADPTLLASGSDDGSVKLWSINQGVSIGTI-KTKANICCVQ 624

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17531523  125 INEKATHMLS-GSWDSNVIIWpitELNSSSFTFQTIVcpGHTLSVwALASFPDlPNTYLSASADKTIRMW--------FG 195
Cdd:PLN00181 625 FPSESGRSLAfGSADHKVYYY---DLRNPKLPLCTMI--GHSKTV-SYVRFVD-SSTLVSSSTDNTLKLWdlsmsisgIN 697

                        170       180       190
                 ....*....|....*....|....*....|....
gi 17531523  196 DTTLSVFKGHTDvVRALVVLSSShflsagnDGHI 229
Cdd:PLN00181 698 ETPLHSFMGHTN-VKNFVGLSVS-------DGYI 723
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 108-144 1.97e-04

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


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 39.60  E-value: 1.97e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 17531523    108 EPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIW 144
Cdd:smart00320   3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
WD40 pfam00400
WD domain, G-beta repeat;
108-144 8.15e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.71  E-value: 8.15e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 17531523   108 EPYAIFNEHKQNVCCLHINEKATHMLSGSWDSNVIIW 144
Cdd:pfam00400   2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVW 38
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 199-233 9.05e-04

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: 37.68  E-value: 9.05e-04
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 17531523    199 LSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWD 233
Cdd:smart00320   5 LKTLKGHTGPVTSVAFSPDGKYLaSGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
197-233 2.00e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.55  E-value: 2.00e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 17531523   197 TTLSVFKGHTDVVRALVVLSSSHFL-SAGNDGHIIHWD 233
Cdd:pfam00400   2 KLLKTLEGHTGSVTSLAFSPDGKLLaSGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 160-193 2.24e-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: 36.52  E-value: 2.24e-03
                           10        20        30
                   ....*....|....*....|....*....|....
gi 17531523    160 VCPGHTLSVWALASFPDLpNTYLSASADKTIRMW 193
Cdd:smart00320   7 TLKGHTGPVTSVAFSPDG-KYLASGSDDGTIKLW 39
WD40 pfam00400
WD domain, G-beta repeat;
160-193 3.43e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.78  E-value: 3.43e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 17531523   160 VCPGHTLSVWALASFPDlPNTYLSASADKTIRMW 193
Cdd:pfam00400   6 TLEGHTGSVTSLAFSPD-GKLLASGSDDGTVKVW 38
 
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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