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Conserved domains on  [gi|182627767|gb|ACB88903|]
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mediator complex subunit MED16 variant MED16_i24 [Homo sapiens]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 18100804)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 70-109 7.01e-05

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: 38.45  E-value: 7.01e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 182627767    70 PWDLHSIPSEHHEAITCLEWDQSGSRLLSADADGQIKCWS 109
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 super family cl43672
WD40 repeat [General function prediction only];
45-144 6.32e-03

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: 36.04  E-value: 6.32e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 182627767  45 IAFTMDLR-----SDDqdltRMIHILDTEHPWDLHSIpSEHHEAITCLEWDQSGSRLLSADADGQIKCWSMADHLAnswe 119
Cdd:COG2319  294 VAFSPDGKllasgSDD----GTVRLWDLATGKLLRTL-TGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGEL---- 364

                         90       100
                 ....*....|....*....|....*.
gi 182627767 120 ssVGSLVE-GDPIVALSWLHNGVKLA 144
Cdd:COG2319  365 --LRTLTGhTGAVTSVAFSPDGRTLA 388
 
Name Accession Description Interval E-value
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 70-109 7.01e-05

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: 38.45  E-value: 7.01e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 182627767    70 PWDLHSIPSEHHEAITCLEWDQSGSRLLSADADGQIKCWS 109
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
78-109 1.13e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.01  E-value: 1.13e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 182627767   78 SEHHEAITCLEWDQSGSRLLSADADGQIKCWS 109
Cdd:pfam00400   8 EGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 COG2319
WD40 repeat [General function prediction only];
45-144 6.32e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 36.04  E-value: 6.32e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 182627767  45 IAFTMDLR-----SDDqdltRMIHILDTEHPWDLHSIpSEHHEAITCLEWDQSGSRLLSADADGQIKCWSMADHLAnswe 119
Cdd:COG2319  294 VAFSPDGKllasgSDD----GTVRLWDLATGKLLRTL-TGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGEL---- 364

                         90       100
                 ....*....|....*....|....*.
gi 182627767 120 ssVGSLVE-GDPIVALSWLHNGVKLA 144
Cdd:COG2319  365 --LRTLTGhTGAVTSVAFSPDGRTLA 388
 
Name Accession Description Interval E-value
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 70-109 7.01e-05

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: 38.45  E-value: 7.01e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 182627767    70 PWDLHSIPSEHHEAITCLEWDQSGSRLLSADADGQIKCWS 109
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
78-109 1.13e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.01  E-value: 1.13e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 182627767   78 SEHHEAITCLEWDQSGSRLLSADADGQIKCWS 109
Cdd:pfam00400   8 EGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 COG2319
WD40 repeat [General function prediction only];
45-144 6.32e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 36.04  E-value: 6.32e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 182627767  45 IAFTMDLR-----SDDqdltRMIHILDTEHPWDLHSIpSEHHEAITCLEWDQSGSRLLSADADGQIKCWSMADHLAnswe 119
Cdd:COG2319  294 VAFSPDGKllasgSDD----GTVRLWDLATGKLLRTL-TGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGEL---- 364

                         90       100
                 ....*....|....*....|....*.
gi 182627767 120 ssVGSLVE-GDPIVALSWLHNGVKLA 144
Cdd:COG2319  365 --LRTLTGhTGAVTSVAFSPDGRTLA 388
 
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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