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Conserved domains on  [gi|377655306|gb|AFB73844|]
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capsid protein VP1, partial [Human bocavirus 4]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Parvo_coat super family cl08286
Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these ...
 62-172 2.89e-18

Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminal region of VP1. VP2 is involved in packaging the viral DNA.


The actual alignment was detected with superfamily member pfam00740:

Pssm-ID: 395599  Cd Length: 518  Bit Score: 80.82  E-value: 2.89e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 377655306   62 STGGWVGGSYFTDSYVITKNTRQFLVKIQNNHQYKteLISP------STSQGKSQRC-------VSTPWSYFNFNQYSSH 128
Cdd:pfam00740   5 STGNWHNDTTFMGNRVTCTATRTVHIPTYNNHLYK--QFSSqsttdtNASGKKANVSnddhhfgYSTPWGYVDFNAWGVW 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 377655306  129 FSPQDWQRLTNEYKRFRPKGMHVKIYNLQIKQIL-SNGADTTYNN 172
Cdd:pfam00740  83 FSPRDFQRLINNNSGIRPVRLNQEIFNIQVKTVTeNDGGGTIANN 127
 
Name Accession Description Interval E-value
Parvo_coat pfam00740
Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these ...
 62-172 2.89e-18

Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminal region of VP1. VP2 is involved in packaging the viral DNA.


Pssm-ID: 395599  Cd Length: 518  Bit Score: 80.82  E-value: 2.89e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 377655306   62 STGGWVGGSYFTDSYVITKNTRQFLVKIQNNHQYKteLISP------STSQGKSQRC-------VSTPWSYFNFNQYSSH 128
Cdd:pfam00740   5 STGNWHNDTTFMGNRVTCTATRTVHIPTYNNHLYK--QFSSqsttdtNASGKKANVSnddhhfgYSTPWGYVDFNAWGVW 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 377655306  129 FSPQDWQRLTNEYKRFRPKGMHVKIYNLQIKQIL-SNGADTTYNN 172
Cdd:pfam00740  83 FSPRDFQRLINNNSGIRPVRLNQEIFNIQVKTVTeNDGGGTIANN 127
 
Name Accession Description Interval E-value
Parvo_coat pfam00740
Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these ...
 62-172 2.89e-18

Parvovirus coat protein VP2; This protein, together with VP1 forms a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminal region of VP1. VP2 is involved in packaging the viral DNA.


Pssm-ID: 395599  Cd Length: 518  Bit Score: 80.82  E-value: 2.89e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 377655306   62 STGGWVGGSYFTDSYVITKNTRQFLVKIQNNHQYKteLISP------STSQGKSQRC-------VSTPWSYFNFNQYSSH 128
Cdd:pfam00740   5 STGNWHNDTTFMGNRVTCTATRTVHIPTYNNHLYK--QFSSqsttdtNASGKKANVSnddhhfgYSTPWGYVDFNAWGVW 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 377655306  129 FSPQDWQRLTNEYKRFRPKGMHVKIYNLQIKQIL-SNGADTTYNN 172
Cdd:pfam00740  83 FSPRDFQRLINNNSGIRPVRLNQEIFNIQVKTVTeNDGGGTIANN 127
 
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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