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Conserved domains on  [gi|1830494786|gb|QIZ15275|]
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protein F, partial [Hepacivirus hominis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HCV_core super family cl46603
Hepatitis C virus core protein; The viral core protein forms the internal viral coat that ...
 51-114 3.27e-04

Hepatitis C virus core protein; The viral core protein forms the internal viral coat that encapsidates the genomic RNA and is enveloped in a host cell-derived lipid membrane. The core protein has been shown, by yeast two-hybrid assay to interact with cellular DEAD box helicases. The N terminus of the core protein is involved in transcriptional repression.


The actual alignment was detected with superfamily member pfam01543:

Pssm-ID: 480943  Cd Length: 121  Bit Score: 37.37  E-value: 3.27e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1830494786  51 GDASPSPKIGVPLASPGENQDTPGPFMEMRASAGQGGSCPPGvlvhlGAPLTPGIGHAIWVRSS 114
Cdd:pfam01543  59 GRRQPIPKARPPEGRSWLSPGTLGPSTAMRALYGNDGSCGWA-----GWLLPPRGSRPSWGQND 117
 
Name Accession Description Interval E-value
HCV_capsid pfam01543
Hepatitis C virus capsid protein;
51-114 3.27e-04

Hepatitis C virus capsid protein;


Pssm-ID: 144947  Cd Length: 121  Bit Score: 37.37  E-value: 3.27e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1830494786  51 GDASPSPKIGVPLASPGENQDTPGPFMEMRASAGQGGSCPPGvlvhlGAPLTPGIGHAIWVRSS 114
Cdd:pfam01543  59 GRRQPIPKARPPEGRSWLSPGTLGPSTAMRALYGNDGSCGWA-----GWLLPPRGSRPSWGQND 117
 
Name Accession Description Interval E-value
HCV_capsid pfam01543
Hepatitis C virus capsid protein;
51-114 3.27e-04

Hepatitis C virus capsid protein;


Pssm-ID: 144947  Cd Length: 121  Bit Score: 37.37  E-value: 3.27e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1830494786  51 GDASPSPKIGVPLASPGENQDTPGPFMEMRASAGQGGSCPPGvlvhlGAPLTPGIGHAIWVRSS 114
Cdd:pfam01543  59 GRRQPIPKARPPEGRSWLSPGTLGPSTAMRALYGNDGSCGWA-----GWLLPPRGSRPSWGQND 117
 
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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