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Conserved domains on  [gi|767943144|ref|XP_011534248|]
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tubby-related protein 4 isoform X1 [Homo sapiens]

Protein Classification

WD40 and Tub domain-containing protein( domain architecture ID 11455620)

protein containing domains WD40, SOCS, PHA03247, and Tub

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tub super family cl08308
Tub family;
1489-1559 2.34e-23

Tub family;


The actual alignment was detected with superfamily member pfam01167:

Pssm-ID: 460094  Cd Length: 251  Bit Score: 101.11  E-value: 2.34e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1489 VMANKQPLWNEATQVYQLDFGGRVTQESAKNFQI---ELEGRQVMQFGRIDGSAYILDFQYPFSAVQAFAVALA 1559
Cdd:pfam01167  174 VLKNKPPRWNEQLQCYCLNFHGRVTVASVKNFQLvapEDQDKVILQFGKVGKDMFTMDYRYPLSAFQAFAICLS 247
WD40 COG2319
WD40 repeat [General function prediction only];
45-217 1.23e-10

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 65.32  E-value: 1.23e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   45 WLATGNGRGVVGVtftsshcrRDRSTPQRInFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDR 124
Cdd:COG2319   176 LLASGSDDGTVRL--------WDLATGKLL-RTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLW-DLATGKLLRTLTGH 245

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  125 GAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHV 204
Cdd:COG2319   246 SGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRT 325

                         170
                  ....*....|...
gi 767943144  205 LLHESDGVLGMSW 217
Cdd:COG2319   326 LTGHTGAVRSVAF 338
Atrophin-1 super family cl38111
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1042-1318 2.70e-06

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


The actual alignment was detected with superfamily member pfam03154:

Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 52.46  E-value: 2.70e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1042 PGGVVTQLPARPPPALYTCSQCSGTGPSSQPGASLAHTASASPLASQSSY----SLLSPPDSARDRTDYVNSAFTEDEAL 1117
Cdd:pfam03154  187 PPPGTTQAATAGPTPSAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTlhpqRLPSPHPPLQPMTQPPPPSQVSPQPL 266

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1118 SQhcqlekPLRHPPLPEAAVTLKRPPPYQWDPMLGEDVWVPQERTAQTSGPNPLKLSSLMLSQGQHLDVSRlpfISPKSP 1197
Cdd:pfam03154  267 PQ------PSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPSQ---SQLQSQ 337

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1198 ASPTATFQTGYGMGVPY---PGSYNNPPLPGVQAPCSPKDALSPTQF---AQQEPAVVLQPL------YPPSLSYCTL-- 1263
Cdd:pfam03154  338 QPPREQPLPPAPLSMPHikpPPTTPIPQLPNPQSHKHPPHLSGPSPFqmnSNLPPPPALKPLsslsthHPPSAHPPPLql 417

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1264 ---------PPMYPGSSTCSSLQLPPVALHPWSSYSACPPMQNPqgtLPPKPHLVVEKPLVSPP 1318
Cdd:pfam03154  418 mpqsqqlppPPAQPPVLTQSQSLPPPAASHPPTSGLHQVPSQSP---FPQHPFVPGGPPPITPP 478
SOCS super family cl02533
SOCS (suppressors of cytokine signaling) box. The SOCS box is found in the C-terminal region ...
 396-431 4.71e-04

SOCS (suppressors of cytokine signaling) box. The SOCS box is found in the C-terminal region of CIS/SOCS family proteins (in combination with a SH2 domain), ASBs (ankyrin repeat-containing proteins with a SOCS box), SSBs (SPRY domain-containing proteins with a SOCS box), and WSBs (WD40 repeat-containing proteins with a SOCS box), as well as, other miscellaneous proteins. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.


The actual alignment was detected with superfamily member cd03717:

Pssm-ID: 470605  Cd Length: 39  Bit Score: 39.12  E-value: 4.71e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 767943144  396 RVSSLQLLCQQAIASTLREDKdVSKLTLPPRLCSYL 431
Cdd:cd03717     2 SVRSLQHLCRFVIRQCTRRDL-IDQLPLPRRLKDYL 36
 
Name Accession Description Interval E-value
Tub pfam01167
Tub family;
1489-1559 2.34e-23

Tub family;


Pssm-ID: 460094  Cd Length: 251  Bit Score: 101.11  E-value: 2.34e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1489 VMANKQPLWNEATQVYQLDFGGRVTQESAKNFQI---ELEGRQVMQFGRIDGSAYILDFQYPFSAVQAFAVALA 1559
Cdd:pfam01167  174 VLKNKPPRWNEQLQCYCLNFHGRVTVASVKNFQLvapEDQDKVILQFGKVGKDMFTMDYRYPLSAFQAFAICLS 247
WD40 COG2319
WD40 repeat [General function prediction only];
45-217 1.23e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 65.32  E-value: 1.23e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   45 WLATGNGRGVVGVtftsshcrRDRSTPQRInFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDR 124
Cdd:COG2319   176 LLASGSDDGTVRL--------WDLATGKLL-RTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLW-DLATGKLLRTLTGH 245

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  125 GAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHV 204
Cdd:COG2319   246 SGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRT 325

                         170
                  ....*....|...
gi 767943144  205 LLHESDGVLGMSW 217
Cdd:COG2319   326 LTGHTGAVRSVAF 338
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 78-213 2.21e-06

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: 51.18  E-value: 2.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   78 LRGHNSEVVLVRWNEPYQKLATCDADGGIFVWIQYEGRWSVELVNDRGAqVSDFTWSHDGTQALISYRDGFVLVGSVSGQ 157
Cdd:cd00200     5 LKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGP-VRDVAASADGTYLASGSSDKTIRLWDLETG 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  158 R-------HwsseinlESQITCGIWTPDDQQVLFGTADGQVIV-----------MDCHGRMLAHVLLHESDGVL 213
Cdd:cd00200    84 EcvrtltgH-------TSYVSSVAFSPDGRILSSSSRDKTIKVwdvetgkclttLRGHTDWVNSVAFSPDGTFV 150
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1042-1318 2.70e-06

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 52.46  E-value: 2.70e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1042 PGGVVTQLPARPPPALYTCSQCSGTGPSSQPGASLAHTASASPLASQSSY----SLLSPPDSARDRTDYVNSAFTEDEAL 1117
Cdd:pfam03154  187 PPPGTTQAATAGPTPSAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTlhpqRLPSPHPPLQPMTQPPPPSQVSPQPL 266

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1118 SQhcqlekPLRHPPLPEAAVTLKRPPPYQWDPMLGEDVWVPQERTAQTSGPNPLKLSSLMLSQGQHLDVSRlpfISPKSP 1197
Cdd:pfam03154  267 PQ------PSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPSQ---SQLQSQ 337

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1198 ASPTATFQTGYGMGVPY---PGSYNNPPLPGVQAPCSPKDALSPTQF---AQQEPAVVLQPL------YPPSLSYCTL-- 1263
Cdd:pfam03154  338 QPPREQPLPPAPLSMPHikpPPTTPIPQLPNPQSHKHPPHLSGPSPFqmnSNLPPPPALKPLsslsthHPPSAHPPPLql 417

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1264 ---------PPMYPGSSTCSSLQLPPVALHPWSSYSACPPMQNPqgtLPPKPHLVVEKPLVSPP 1318
Cdd:pfam03154  418 mpqsqqlppPPAQPPVLTQSQSLPPPAASHPPTSGLHQVPSQSP---FPQHPFVPGGPPPITPP 478
SOCS_SOCS_like cd03717
SOCS (suppressors of cytokine signaling) box of SOCS-like proteins. The CIS/SOCS family of ...
 396-431 4.71e-04

SOCS (suppressors of cytokine signaling) box of SOCS-like proteins. The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain.


Pssm-ID: 239687  Cd Length: 39  Bit Score: 39.12  E-value: 4.71e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 767943144  396 RVSSLQLLCQQAIASTLREDKdVSKLTLPPRLCSYL 431
Cdd:cd03717     2 SVRSLQHLCRFVIRQCTRRDL-IDQLPLPRRLKDYL 36
SOCS_box smart00969
The SOCS box acts as a bridge between specific substrate- binding domains and more generic ...
 398-432 1.41e-03

The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases;


Pssm-ID: 198037  Cd Length: 34  Bit Score: 37.77  E-value: 1.41e-03
                            10        20        30
                    ....*....|....*....|....*....|....*
gi 767943144    398 SSLQLLCQQAIASTLredKDVSKLTLPPRLCSYLS 432
Cdd:smart00969    1 RSLQHLCRLAIRRSL---GGIDKLPLPPRLKDYLL 32
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 146-219 2.23e-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: 38.80  E-value: 2.23e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767943144   146 DGFVLVGSVSGQRHWS-SEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHVLLHESDGVLGMSWNY 219
Cdd:pfam12894   16 DGELLLHRLNWQRVWTlSPDKEDLEVTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVHHFSAGSDLITCLGWGE 90
SOCS_box pfam07525
SOCS box; The SOCS box acts as a bridge between specific substrate- binding domains and more ...
 397-431 3.25e-03

SOCS box; The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases.


Pssm-ID: 462192  Cd Length: 39  Bit Score: 36.76  E-value: 3.25e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 767943144   397 VSSLQLLCQQAIASTL--REDKDVSKLTLPPRLCSYL 431
Cdd:pfam07525    2 PRSLQHLCRLAIRRALgkRRLGAIDKLPLPPLLKDYL 38
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 78-109 8.54e-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: 35.75  E-value: 8.54e-03
                            10        20        30
                    ....*....|....*....|....*....|..
gi 767943144     78 LRGHNSEVVLVRWNEPYQKLATCDADGGIFVW 109
Cdd:smart00320    8 LKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
 
Name Accession Description Interval E-value
Tub pfam01167
Tub family;
1489-1559 2.34e-23

Tub family;


Pssm-ID: 460094  Cd Length: 251  Bit Score: 101.11  E-value: 2.34e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1489 VMANKQPLWNEATQVYQLDFGGRVTQESAKNFQI---ELEGRQVMQFGRIDGSAYILDFQYPFSAVQAFAVALA 1559
Cdd:pfam01167  174 VLKNKPPRWNEQLQCYCLNFHGRVTVASVKNFQLvapEDQDKVILQFGKVGKDMFTMDYRYPLSAFQAFAICLS 247
WD40 COG2319
WD40 repeat [General function prediction only];
45-217 1.23e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 65.32  E-value: 1.23e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   45 WLATGNGRGVVGVtftsshcrRDRSTPQRInFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDR 124
Cdd:COG2319   176 LLASGSDDGTVRL--------WDLATGKLL-RTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLW-DLATGKLLRTLTGH 245

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  125 GAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHV 204
Cdd:COG2319   246 SGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRT 325

                         170
                  ....*....|...
gi 767943144  205 LLHESDGVLGMSW 217
Cdd:COG2319   326 LTGHTGAVRSVAF 338
WD40 COG2319
WD40 repeat [General function prediction only];
45-217 2.79e-10

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 64.16  E-value: 2.79e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   45 WLATGNGRGVVGVTftsshcrrDRSTPQRInFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDR 124
Cdd:COG2319   218 LLASGSADGTVRLW--------DLATGKLL-RTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLW-DLATGELLRTLTGH 287

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  125 GAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHV 204
Cdd:COG2319   288 SGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRT 367

                         170
                  ....*....|...
gi 767943144  205 LLHESDGVLGMSW 217
Cdd:COG2319   368 LTGHTGAVTSVAF 380
WD40 COG2319
WD40 repeat [General function prediction only];
45-193 2.77e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 54.92  E-value: 2.77e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   45 WLATGNGRGVVGVtftsshcrRDRSTPQRINFnLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDR 124
Cdd:COG2319   260 LLASGSADGTVRL--------WDLATGELLRT-LTGHSGGVNSVAFSPDGKLLASGSDDGTVRLW-DLATGKLLRTLTGH 329

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767943144  125 GAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIV 193
Cdd:COG2319   330 TGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRL 398
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 78-213 2.21e-06

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: 51.18  E-value: 2.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   78 LRGHNSEVVLVRWNEPYQKLATCDADGGIFVWIQYEGRWSVELVNDRGAqVSDFTWSHDGTQALISYRDGFVLVGSVSGQ 157
Cdd:cd00200     5 LKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGP-VRDVAASADGTYLASGSSDKTIRLWDLETG 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  158 R-------HwsseinlESQITCGIWTPDDQQVLFGTADGQVIV-----------MDCHGRMLAHVLLHESDGVL 213
Cdd:cd00200    84 EcvrtltgH-------TSYVSSVAFSPDGRILSSSSRDKTIKVwdvetgkclttLRGHTDWVNSVAFSPDGTFV 150
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1042-1318 2.70e-06

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 52.46  E-value: 2.70e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1042 PGGVVTQLPARPPPALYTCSQCSGTGPSSQPGASLAHTASASPLASQSSY----SLLSPPDSARDRTDYVNSAFTEDEAL 1117
Cdd:pfam03154  187 PPPGTTQAATAGPTPSAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTlhpqRLPSPHPPLQPMTQPPPPSQVSPQPL 266

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1118 SQhcqlekPLRHPPLPEAAVTLKRPPPYQWDPMLGEDVWVPQERTAQTSGPNPLKLSSLMLSQGQHLDVSRlpfISPKSP 1197
Cdd:pfam03154  267 PQ------PSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPSQ---SQLQSQ 337

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1198 ASPTATFQTGYGMGVPY---PGSYNNPPLPGVQAPCSPKDALSPTQF---AQQEPAVVLQPL------YPPSLSYCTL-- 1263
Cdd:pfam03154  338 QPPREQPLPPAPLSMPHikpPPTTPIPQLPNPQSHKHPPHLSGPSPFqmnSNLPPPPALKPLsslsthHPPSAHPPPLql 417

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  1264 ---------PPMYPGSSTCSSLQLPPVALHPWSSYSACPPMQNPqgtLPPKPHLVVEKPLVSPP 1318
Cdd:pfam03154  418 mpqsqqlppPPAQPPVLTQSQSLPPPAASHPPTSGLHQVPSQSP---FPQHPFVPGGPPPITPP 478
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 67-218 3.17e-05

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: 47.71  E-value: 3.17e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   67 DRSTPQRINfNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiqyEGRWSVELVNDRG--AQVSDFTWSHDGTQALISY 144
Cdd:cd00200    79 DLETGECVR-TLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVW---DVETGKCLTTLRGhtDWVNSVAFSPDGTFVASSS 154

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  145 RDGFVLVGSVSGQR-------HwsseinlESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHVLLHESDGVLGMSW 217
Cdd:cd00200   155 QDGTIKLWDLRTGKcvatltgH-------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAF 227


                  .
gi 767943144  218 N 218
Cdd:cd00200   228 S 228
WD40 COG2319
WD40 repeat [General function prediction only];
65-218 5.71e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.21  E-value: 5.71e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   65 RRDRSTPQRINFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWiQYEGRWSVELVNDRGAQVSDFTWSHDGTQALISY 144
Cdd:COG2319    61 LLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLW-DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGS 139

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767943144  145 RDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHVLLHESDGVLGMSWN 218
Cdd:COG2319   140 ADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFS 213
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1061-1319 6.77e-05

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 47.84  E-value: 6.77e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1061 SQCSGTGPSSQpGASLAHTASASPL-----ASQSSYSLLSPPDSARDRTDYVNSAFTEDEALSQHCQLEKPLRHPPLPEA 1135
Cdd:pfam03154  112 SPSEGEGESSD-GRSVNDEGSSDPKdidqdNRSTSPSIPSPQDNESDSDSSAQQQILQTQPPVLQAQSGAASPPSPPPPG 190

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1136 AVTLKRPPPYQWDPMLGEDVWVPQERTAQTSGPNPLKLSslMLSQGQHLDVSRLPfiSPKSPASPtatfqtgygMGVPYP 1215
Cdd:pfam03154  191 TTQAATAGPTPSAPSVPPQGSPATSQPPNQTQSTAAPHT--LIQQTPTLHPQRLP--SPHPPLQP---------MTQPPP 257

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  1216 GSYNNP-PLPgvqapcspkdalSPTQFAQQEPAVVLQPLYPPSLSYCTLPPMYPGSSTCSSLQLPP----VALHPWSSYS 1290
Cdd:pfam03154  258 PSQVSPqPLP------------QPSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPPgpspAAPGQSQQRI 325

                          250       260       270
                   ....*....|....*....|....*....|....
gi 767943144  1291 ACPPMQN-PQGTLPPK----PHLVVEKPLVSPPP 1319
Cdd:pfam03154  326 HTPPSQSqLQSQQPPReqplPPAPLSMPHIKPPP 359
WD40 COG2319
WD40 repeat [General function prediction only];
65-217 6.97e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.21  E-value: 6.97e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   65 RRDRSTPQRINFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWIQYEGRWSVELVnDRGAQVSDFTWSHDGTQALISY 144
Cdd:COG2319    19 ALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLL-GHTAAVLSVAFSPDGRLLASAS 97

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767943144  145 RDGFVLVGSVSGQRHWSSEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHVLLHESDGVLGMSW 217
Cdd:COG2319    98 ADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAF 170
SOCS_SOCS_like cd03717
SOCS (suppressors of cytokine signaling) box of SOCS-like proteins. The CIS/SOCS family of ...
 396-431 4.71e-04

SOCS (suppressors of cytokine signaling) box of SOCS-like proteins. The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain.


Pssm-ID: 239687  Cd Length: 39  Bit Score: 39.12  E-value: 4.71e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 767943144  396 RVSSLQLLCQQAIASTLREDKdVSKLTLPPRLCSYL 431
Cdd:cd03717     2 SVRSLQHLCRFVIRQCTRRDL-IDQLPLPRRLKDYL 36
SOCS_box smart00969
The SOCS box acts as a bridge between specific substrate- binding domains and more generic ...
 398-432 1.41e-03

The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases;


Pssm-ID: 198037  Cd Length: 34  Bit Score: 37.77  E-value: 1.41e-03
                            10        20        30
                    ....*....|....*....|....*....|....*
gi 767943144    398 SSLQLLCQQAIASTLredKDVSKLTLPPRLCSYLS 432
Cdd:smart00969    1 RSLQHLCRLAIRRSL---GGIDKLPLPPRLKDYLL 32
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 146-219 2.23e-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: 38.80  E-value: 2.23e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767943144   146 DGFVLVGSVSGQRHWS-SEINLESQITCGIWTPDDQQVLFGTADGQVIVMDCHGRMLAHVLLHESDGVLGMSWNY 219
Cdd:pfam12894   16 DGELLLHRLNWQRVWTlSPDKEDLEVTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVHHFSAGSDLITCLGWGE 90
SOCS_box pfam07525
SOCS box; The SOCS box acts as a bridge between specific substrate- binding domains and more ...
 397-431 3.25e-03

SOCS box; The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases.


Pssm-ID: 462192  Cd Length: 39  Bit Score: 36.76  E-value: 3.25e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 767943144   397 VSSLQLLCQQAIASTL--REDKDVSKLTLPPRLCSYL 431
Cdd:pfam07525    2 PRSLQHLCRLAIRRALgkRRLGAIDKLPLPPLLKDYL 38
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 53-217 6.90e-03

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 40.40  E-value: 6.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144   53 GVVGVTFTSSH-----CRRDRS-------TPQRInFNLRGHNSEVVLVRWNEPYQKLATCDADGGIFVWIQYEGRwSVEL 120
Cdd:cd00200    95 YVSSVAFSPDGrilssSSRDKTikvwdveTGKCL-TTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK-CVAT 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943144  121 VNDRGAQVSDFTWSHDGTQALISYRDGFVLVGSVSGQR-------HwsseinlESQITCGIWTPDDQQVLFGTADGQVIV 193
Cdd:cd00200   173 LTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKclgtlrgH-------ENGVNSVAFSPDGYLLASGSEDGTIRV 245

                         170       180
                  ....*....|....*....|....*
gi 767943144  194 MD-CHGRMLAHVLLHESdGVLGMSW 217
Cdd:cd00200   246 WDlRTGECVQTLSGHTN-SVTSLAW 269
SOCS smart00253
suppressors of cytokine signalling; suppressors of cytokine signalling
 396-432 7.84e-03

suppressors of cytokine signalling; suppressors of cytokine signalling


Pssm-ID: 128549  Cd Length: 43  Bit Score: 35.73  E-value: 7.84e-03
                            10        20        30
                    ....*....|....*....|....*....|....*..
gi 767943144    396 RVSSLQLLCQQAIASTLREDkDVSKLTLPPRLCSYLS 432
Cdd:smart00253    6 NVPSLQHLCRFTIRRCTRTD-QIKTLPLPPKLKDYLS 41
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 78-109 8.54e-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: 35.75  E-value: 8.54e-03
                            10        20        30
                    ....*....|....*....|....*....|..
gi 767943144     78 LRGHNSEVVLVRWNEPYQKLATCDADGGIFVW 109
Cdd:smart00320    8 LKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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