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Conserved domains on  [gi|6321662|ref|NP_011739|]
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Hsv2p [Saccharomyces cerevisiae S288C]

Protein Classification

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];
220-296 5.95e-06

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: 48.37  E-value: 5.95e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRrgVDKADIYEMSFSPNGSKLAVLSNKQTLHIF 296
Cdd:COG2319 158 LTGHSGAVTSVAFSPDGKLLASGSDDGT-VRLWDLATGKLLRTLT--GHTGAVRSVAFSPDGKLLASGSADGTVRLW 231
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
220-296 5.95e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 48.37  E-value: 5.95e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRrgVDKADIYEMSFSPNGSKLAVLSNKQTLHIF 296
Cdd:COG2319 158 LTGHSGAVTSVAFSPDGKLLASGSDDGT-VRLWDLATGKLLRTLT--GHTGAVRSVAFSPDGKLLASGSADGTVRLW 231
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 220-298 6.20e-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: 44.63  E-value: 6.20e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRgvDKADIYEMSFSPNGSKLAVLSNKQTLHIFQI 298
Cdd:cd00200 131 LRGHTDWVNSVAFSPDGTFVASSSQDGT-IKLWDLRTGKCVATLTG--HTGEVNSVAFSPDGEKLLSSSSDGTIKLWDL 206
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
220-296 5.95e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 48.37  E-value: 5.95e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRrgVDKADIYEMSFSPNGSKLAVLSNKQTLHIF 296
Cdd:COG2319 158 LTGHSGAVTSVAFSPDGKLLASGSDDGT-VRLWDLATGKLLRTLT--GHTGAVRSVAFSPDGKLLASGSADGTVRLW 231
WD40 COG2319
WD40 repeat [General function prediction only];
208-298 6.39e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 48.37  E-value: 6.39e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321662  208 NPKESALLPTsiIKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRGvdKADIYEMSFSPNGSKLAVL 287
Cdd:COG2319 316 DLATGKLLRT--LTGHTGAVRSVAFSPDGKTLASGSDDGT-VRLWDLATGELLRTLTGH--TGAVTSVAFSPDGRTLASG 390

                        90
                ....*....|.
gi 6321662  288 SNKQTLHIFQI 298
Cdd:COG2319 391 SADGTVRLWDL 401
WD40 COG2319
WD40 repeat [General function prediction only];
215-298 9.24e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 9.24e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321662  215 LPTSIIKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRgvDKADIYEMSFSPNGSKLAVLSNKQTLH 294
Cdd:COG2319 111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGT-VRLWDLATGKLLRTLTG--HSGAVTSVAFSPDGKLLASGSDDGTVR 187


                ....
gi 6321662  295 IFQI 298
Cdd:COG2319 188 LWDL 191
WD40 COG2319
WD40 repeat [General function prediction only];
220-298 1.03e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 1.03e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRGVDkaDIYEMSFSPNGSKLAVLSNKQTLHIFQI 298
Cdd:COG2319 242 LTGHSGSVRSVAFSPDGRLLASGSADGT-VRLWDLATGELLRTLTGHSG--GVNSVAFSPDGKLLASGSDDGTVRLWDL 317
WD40 COG2319
WD40 repeat [General function prediction only];
219-298 5.64e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 45.29  E-value: 5.64e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321662  219 IIKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRGVDkaDIYEMSFSPNGSKLAVLSNKQTLHIFQI 298
Cdd:COG2319 283 TLTGHSGGVNSVAFSPDGKLLASGSDDGT-VRLWDLATGKLLRTLTGHTG--AVRSVAFSPDGKTLASGSDDGTVRLWDL 359
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 220-298 6.20e-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: 44.63  E-value: 6.20e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6321662  220 IKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRgvDKADIYEMSFSPNGSKLAVLSNKQTLHIFQI 298
Cdd:cd00200 131 LRGHTDWVNSVAFSPDGTFVASSSQDGT-IKLWDLRTGKCVATLTG--HTGEVNSVAFSPDGEKLLSSSSDGTIKLWDL 206
WD40 COG2319
WD40 repeat [General function prediction only];
223-298 2.93e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 39.89  E-value: 2.93e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 6321662  223 HKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFRRGVDkaDIYEMSFSPNGSKLAVLSNKQTLHIFQI 298
Cdd:COG2319  77 HTAAVLSVAFSPDGRLLASASADGT-VRLWDLATGLLLRTLTGHTG--AVRSVAFSPDGKTLASGSADGTVRLWDL 149
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 216-296 6.69e-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: 38.47  E-value: 6.69e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321662  216 PTSIIKAHKNPIKLVRLNRQGTMVATCSVQGTlIRIFSTHNGTLIKEFrRGVdKADIYEMSFSPNGSKLAVLSNKQTLHI 295
Cdd:cd00200  85 CVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT-IKVWDVETGKCLTTL-RGH-TDWVNSVAFSPDGTFVASSSQDGTIKL 161


                .
gi 6321662  296 F 296
Cdd:cd00200 162 W 162
 
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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