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Conserved domains on  [gi|6137533|pdb|1QCI|A]
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Chain A, POKEWEED ANTIVIRAL PROTEIN

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RIP super family cl08249
Ribosome inactivating protein;
12-215 5.40e-35

Ribosome inactivating protein;


The actual alignment was detected with superfamily member pfam00161:

Pssm-ID: 425494  Cd Length: 197  Bit Score: 123.99  E-value: 5.40e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         12 TISKYATFLNDLRNEAKDPSLKCYGIPMLPN---TNTNPKYVLVELQGSNKKTITLMLRRNNLYVMGysdpFETNKCRYH 88
Cdd:pfam00161   2 TADSYRDFIEDLRKALASGDHVSHGIPVLPPqvpPRQPARWVHVVLVNTGTSSLTLALRVDNLYLVG----FRNRNGYWY 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         89 IFNDISGTERQDVETTLCPnansrvskninFDSRYPTLEsKAGVKSRSQVQLGIQILDSNIGKISGVMSFTEKTE--AEF 166
Cdd:pfam00161  78 EFSDGSIYAALITGSTTLP-----------FGGSYSLLE-NGGGANLENVPLGRQQLTEAVSALARYPPGGAPTAdlARA 145
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
1QCI_A        167 LLVAIQMVSEAARFKYIENQVKTNFNRAFNPNPKVLN--LQETWGKISTAI 215
Cdd:pfam00161 146 LAVLIQMVCEAARFRYIERTVAAGWDEGLGVSPTGTMvkLENNWGDLSKAL 196
 
Name Accession Description Interval E-value
RIP pfam00161
Ribosome inactivating protein;
12-215 5.40e-35

Ribosome inactivating protein;


Pssm-ID: 425494  Cd Length: 197  Bit Score: 123.99  E-value: 5.40e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         12 TISKYATFLNDLRNEAKDPSLKCYGIPMLPN---TNTNPKYVLVELQGSNKKTITLMLRRNNLYVMGysdpFETNKCRYH 88
Cdd:pfam00161   2 TADSYRDFIEDLRKALASGDHVSHGIPVLPPqvpPRQPARWVHVVLVNTGTSSLTLALRVDNLYLVG----FRNRNGYWY 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         89 IFNDISGTERQDVETTLCPnansrvskninFDSRYPTLEsKAGVKSRSQVQLGIQILDSNIGKISGVMSFTEKTE--AEF 166
Cdd:pfam00161  78 EFSDGSIYAALITGSTTLP-----------FGGSYSLLE-NGGGANLENVPLGRQQLTEAVSALARYPPGGAPTAdlARA 145
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
1QCI_A        167 LLVAIQMVSEAARFKYIENQVKTNFNRAFNPNPKVLN--LQETWGKISTAI 215
Cdd:pfam00161 146 LAVLIQMVCEAARFRYIERTVAAGWDEGLGVSPTGTMvkLENNWGDLSKAL 196
 
Name Accession Description Interval E-value
RIP pfam00161
Ribosome inactivating protein;
12-215 5.40e-35

Ribosome inactivating protein;


Pssm-ID: 425494  Cd Length: 197  Bit Score: 123.99  E-value: 5.40e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         12 TISKYATFLNDLRNEAKDPSLKCYGIPMLPN---TNTNPKYVLVELQGSNKKTITLMLRRNNLYVMGysdpFETNKCRYH 88
Cdd:pfam00161   2 TADSYRDFIEDLRKALASGDHVSHGIPVLPPqvpPRQPARWVHVVLVNTGTSSLTLALRVDNLYLVG----FRNRNGYWY 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1QCI_A         89 IFNDISGTERQDVETTLCPnansrvskninFDSRYPTLEsKAGVKSRSQVQLGIQILDSNIGKISGVMSFTEKTE--AEF 166
Cdd:pfam00161  78 EFSDGSIYAALITGSTTLP-----------FGGSYSLLE-NGGGANLENVPLGRQQLTEAVSALARYPPGGAPTAdlARA 145
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
1QCI_A        167 LLVAIQMVSEAARFKYIENQVKTNFNRAFNPNPKVLN--LQETWGKISTAI 215
Cdd:pfam00161 146 LAVLIQMVCEAARFRYIERTVAAGWDEGLGVSPTGTMvkLENNWGDLSKAL 196
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.20
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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