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Conserved domains on  [gi|1111814009|gb|API68822|]
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leucine-rich repeat and WD repeat-containing protein, partial [Madascincus stumpffi]

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];
120-256 1.78e-04

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: 42.21  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYDnlnsclLSEVEIKGSKH 197
Cdd:COG2319   212 FSPdgKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWD------LATGELLRTLT 285

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1111814009 198 GgisvGSSFINGFTLSVN--HALSwleASKD--ITVIDLLYGWPLYQF--HcWYEVTCVQCSPDG 256
Cdd:COG2319   286 G----HSGGVNSVAFSPDgkLLAS---GSDDgtVRLWDLATGKLLRTLtgH-TGAVRSVAFSPDG 342
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
120-256 1.78e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 42.21  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYDnlnsclLSEVEIKGSKH 197
Cdd:COG2319   212 FSPdgKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWD------LATGELLRTLT 285

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1111814009 198 GgisvGSSFINGFTLSVN--HALSwleASKD--ITVIDLLYGWPLYQF--HcWYEVTCVQCSPDG 256
Cdd:COG2319   286 G----HSGGVNSVAFSPDgkLLAS---GSDDgtVRLWDLATGKLLRTLtgH-TGAVRSVAFSPDG 342
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 120-262 8.99e-04

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 40.01  E-value: 8.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYD-NLNSCLlseVEIKGSK 196
Cdd:cd00200    17 FSPdgKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDlETGECV---RTLTGHT 93

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1111814009 197 HGGISVgsSFINGftlsvNHALSWLEASKDITVIDLLYGWPLYQFHC---WyeVTCVQCSPDGMYAFCG 262
Cdd:cd00200    94 SYVSSV--AFSPD-----GRILSSSSRDKTIKVWDVETGKCLTTLRGhtdW--VNSVAFSPDGTFVASS 153
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
120-256 1.78e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 42.21  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYDnlnsclLSEVEIKGSKH 197
Cdd:COG2319   212 FSPdgKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWD------LATGELLRTLT 285

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1111814009 198 GgisvGSSFINGFTLSVN--HALSwleASKD--ITVIDLLYGWPLYQF--HcWYEVTCVQCSPDG 256
Cdd:COG2319   286 G----HSGGVNSVAFSPDgkLLAS---GSDDgtVRLWDLATGKLLRTLtgH-TGAVRSVAFSPDG 342
WD40 COG2319
WD40 repeat [General function prediction only];
119-180 8.51e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 40.28  E-value: 8.51e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1111814009 119 TFNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYD 180
Cdd:COG2319   127 AFSPdgKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWD 190
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 120-262 8.99e-04

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 40.01  E-value: 8.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYD-NLNSCLlseVEIKGSK 196
Cdd:cd00200    17 FSPdgKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDlETGECV---RTLTGHT 93

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1111814009 197 HGGISVgsSFINGftlsvNHALSWLEASKDITVIDLLYGWPLYQFHC---WyeVTCVQCSPDGMYAFCG 262
Cdd:cd00200    94 SYVSSV--AFSPD-----GRILSSSSRDKTIKVWDVETGKCLTTLRGhtdW--VNSVAFSPDGTFVASS 153
WD40 COG2319
WD40 repeat [General function prediction only];
120-262 1.52e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 39.51  E-value: 1.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYDnlnscLLSEVEIKGSKH 197
Cdd:COG2319   170 FSPdgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWD-----LATGKLLRTLTG 244

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 198 GGISVGS-SF-INGFTLSVnhalswleASKD--ITVIDLLYGWPLYQF-HCWYEVTCVQCSPDGMYAFCG 262
Cdd:COG2319   245 HSGSVRSvAFsPDGRLLAS--------GSADgtVRLWDLATGELLRTLtGHSGGVNSVAFSPDGKLLASG 306
WD40 COG2319
WD40 repeat [General function prediction only];
120-180 2.12e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 39.12  E-value: 2.12e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1111814009 120 FNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYD 180
Cdd:COG2319   296 FSPdgKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWD 358
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 120-262 7.27e-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: 36.93  E-value: 7.27e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009 120 FNPST--VIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYDNLNSCLLseVEIKGSKH 197
Cdd:cd00200   143 FSPDGtfVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCL--GTLRGHEN 220

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1111814009 198 GGISVGSSFINGFTLSvnhalswleASKDITVidllYGWPLYQFHCWYE-------VTCVQCSPDGMYAFCG 262
Cdd:cd00200   221 GVNSVAFSPDGYLLAS---------GSEDGTI----RVWDLRTGECVQTlsghtnsVTSLAWSPDGKRLASG 279
WD40 COG2319
WD40 repeat [General function prediction only];
96-180 8.06e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 37.20  E-value: 8.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1111814009  96 DVTYSPERLPLASNCAQITEILPTFNPSTVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNT 175
Cdd:COG2319    64 DAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGT 143


                  ....*
gi 1111814009 176 LLIYD 180
Cdd:COG2319   144 VRLWD 148
WD40 COG2319
WD40 repeat [General function prediction only];
119-180 8.28e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 37.20  E-value: 8.28e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1111814009 119 TFNP--STVIVALENGSISTWDVETRQLLRQITTAQSVILGMKLTSDEKYLVVATTKNTLLIYD 180
Cdd:COG2319   337 AFSPdgKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWD 400
 
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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