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B3STR0 (VP6_ROTCC) Reviewed, UniProtKB/Swiss-Prot

Last modified December 11, 2013. Version 23. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Intermediate capsid protein VP6
OrganismRotavirus A (strain Chicken/Ireland/Ch2/1979 G7-Px[x]-Ix-Rx-Cx-M4-Ax-Nx-Tx-Ex-Hx) (RV-A) (Rotavirus A (strain Ch-2))
Taxonomic identifier31589 [NCBI]
Taxonomic lineageVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostGallus gallus (Chicken) [TaxID: 9031]

Protein attributes

Sequence length397 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Intermediate capsid protein that self assembles to form an icosahedral capsid with a T=13 symmetry, which consists of 230 trimers of VP6, with channels at each of its five-fold vertices. This capsid constitutes the middle concentric layer of the viral mature particle. The innermost VP2 capsid and the intermediate VP6 capsid remain intact following cell entry to protect the dsRNA from degradation and to prevent unfavorable antiviral responses in the host cell during all the replication cycle of the virus. Nacent transcripts are transcribed within the structural confines of this double-layered particle (DLP) and are extruded through the channels at the five-fold axes. VP6 is required for the transcription activity of the DLP By similarity.

Subunit structure

Homotrimer. Interacts with VP2 By similarity.

Subcellular location

Virion. Note: Component of the intermediate capsid. Also found in spherical cytoplasmic structures, called virus factories, that appear early after infection and are the site of viral replication and packaging By similarity.

Post-translational modification

The N-terminus is blocked By similarity.

Miscellaneous

The zinc ion is not essential for either trimerization or transcription activity of the DLP. Zinc-depleted VP6 has an increased sensitivity to proteases By similarity.

Sequence similarities

Belongs to the rotavirus VP6 family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 397397Intermediate capsid protein VP6
PRO_0000368172

Sites

Metal binding1531Zinc; shared with all trimeric partners By similarity

Sequences

Sequence LengthMass (Da)Tools
B3STR0 [UniParc].

Last modified September 2, 2008. Version 1.
Checksum: 50EE3BE58C0E17A7

FASTA39744,550
        10         20         30         40         50         60 
MDVLYSLAKT LKDARARIVE GTLYTNVADI VQQINQVINS INGSTFQTGG IGNLPVRNWT 

        70         80         90        100        110        120 
FDFGTLGTTL LNLDANYVEN ARTTIDYFID FVDSVCIDEI VRESQRNGIA PQFDLLRQLS 

       130        140        150        160        170        180 
NAKYKRINYD NESEYIENWN LQNRRQRTGY LLHKPNILPY NNSFTLIRSQ PAHDNVCGTI 

       190        200        210        220        230        240 
WLNNGSEIEI AGFDSECALN APGNIQEFEH VVPMRRVLNN ATVSLLPYAP RLTQRAVIPT 

       250        260        270        280        290        300 
ADGLNTWLFN PIILRPNNVQ VEFLLNGQVI TNYQARYGTL AARNFDSIRI SFQLVRPPNM 

       310        320        330        340        350        360 
TPAVAALFPQ AAPFPNHATV GLTLKIESAS CESVLSDANE PYLSIVTGLR QEYAIPVGPV 

       370        380        390 
FPAGMNWTEL LNNYSVSRED NLQRIFTAAS IRSMIIK 

« Hide

References

[1]"VP6 capsid protein of chicken rotavirus strain CH2: Sequence, Phylogeny and In Silico antigenic analyses."
Buragohain M., Cherian S.S., Prabhakar G., Chitambar S.D.
Virus Res. 137:173-178(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
EF687020 Genomic RNA. Translation: ABV46497.1.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

InterProIPR008980. Capsid_hemagglutn.
IPR001385. Rotavirus_A/C_VP6.
IPR008935. Virus_capsid_a-hlx_vir.
[Graphical view]
PfamPF00980. Rota_Capsid_VP6. 1 hit.
[Graphical view]
ProDomPD001812. Rota_Capsid_VP6. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMSSF48345. SSF48345. 2 hits.
SSF49818. SSF49818. 1 hit.
ProtoNetSearch...

Entry information

Entry nameVP6_ROTCC
AccessionPrimary (citable) accession number: B3STR0
Entry history
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: September 2, 2008
Last modified: December 11, 2013
This is version 23 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families