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Conserved domains on  [gi|568998485|ref|XP_006523471|]
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intraflagellar transport protein 140 homolog isoform X5 [Mus musculus]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 1903264)

WD40 repeat domain-containing protein folds into a beta-propeller structure and functions as a scaffold, providing a platform for the interaction and assembly of several proteins into a signalosome; similar to a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 super family cl43672
WD40 repeat [General function prediction only];
24-133 4.80e-05

WD40 repeat [General function prediction only];


The actual alignment was detected with superfamily member COG2319:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 4.80e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  24 HPTHPFLAVAsISP--------SSGGNVDIY-LEQGEPVPdTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKE 94
Cdd:COG2319  286 GHSGGVNSVA-FSPdgkllasgSDDGTVRLWdLATGKLLR-TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGE 363

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 568998485  95 QHTVPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLD 133
Cdd:COG2319  364 LLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
24-133 4.80e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 4.80e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  24 HPTHPFLAVAsISP--------SSGGNVDIY-LEQGEPVPdTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKE 94
Cdd:COG2319  286 GHSGGVNSVA-FSPdgkllasgSDDGTVRLWdLATGKLLR-TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGE 363

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 568998485  95 QHTVPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLD 133
Cdd:COG2319  364 LLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 19-139 2.83e-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: 2.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  19 SHITWHPTHPFLAVASISpssgGNVDIY-LEQGEPVpDTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKEQHT 97
Cdd:cd00200  139 NSVAFSPDGTFVASSSQD----GTIKLWdLRTGKCV-ATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLG 213

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 568998485  98 VPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLDQRGRVQ 139
Cdd:cd00200  214 TLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQ 255
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 64-112 4.26e-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: 37.26  E-value: 4.26e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 568998485   64 ATSLCWHPTRLILAIGWETGEVIMFNKQD-KEQHTVPlPHTTDIAILSWS 112
Cdd:pfam12894  41 VTSLAWRPDGKLLAVGYSDGTVRLLDAENgKIVHHFS-AGSDLITCLGWG 89
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
24-133 4.80e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 4.80e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  24 HPTHPFLAVAsISP--------SSGGNVDIY-LEQGEPVPdTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKE 94
Cdd:COG2319  286 GHSGGVNSVA-FSPdgkllasgSDDGTVRLWdLATGKLLR-TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGE 363

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 568998485  95 QHTVPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLD 133
Cdd:COG2319  364 LLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
16-139 1.22e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 42.21  E-value: 1.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  16 SSPSHITWHPTHPFLAVASispsSGGNVDIY-LEQGEPVpDTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKE 94
Cdd:COG2319  247 GSVRSVAFSPDGRLLASGS----ADGTVRLWdLATGELL-RTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGK 321

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 568998485  95 QHTVPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLDQRGRVQ 139
Cdd:COG2319  322 LLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLR 366
WD40 COG2319
WD40 repeat [General function prediction only];
19-140 2.64e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 41.05  E-value: 2.64e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  19 SHITWHPTHPFLAVASispsSGGNVDIY-LEQGEPVpDTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKEQHT 97
Cdd:COG2319  208 RSVAFSPDGKLLASGS----ADGTVRLWdLATGKLL-RTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLR 282

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 568998485  98 VPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLDQRGRVQG 140
Cdd:COG2319  283 TLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRT 325
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 19-139 2.83e-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: 2.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568998485  19 SHITWHPTHPFLAVASISpssgGNVDIY-LEQGEPVpDTHIERSFQATSLCWHPTRLILAIGWETGEVIMFNKQDKEQHT 97
Cdd:cd00200  139 NSVAFSPDGTFVASSSQD----GTIKLWdLRTGKCV-ATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLG 213

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 568998485  98 VPLPHTTDIAILSWSTSGSCLVSGDKLGVLLLWRLDQRGRVQ 139
Cdd:cd00200  214 TLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQ 255
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 64-112 4.26e-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: 37.26  E-value: 4.26e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 568998485   64 ATSLCWHPTRLILAIGWETGEVIMFNKQD-KEQHTVPlPHTTDIAILSWS 112
Cdd:pfam12894  41 VTSLAWRPDGKLLAVGYSDGTVRLLDAENgKIVHHFS-AGSDLITCLGWG 89
 
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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