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B3STR0

- VP6_ROTCC

UniProt

B3STR0 - VP6_ROTCC

Protein

Intermediate capsid protein VP6

Gene
N/A
Organism
Rotavirus 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))
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 24 (01 Oct 2014)
      Sequence version 1 (02 Sep 2008)
      Previous versions | rss
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    Functioni

    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.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi153 – 1531Zinc; shared with all trimeric partnersBy similarity

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. structural molecule activity Source: InterPro

    GO - Biological processi

    1. fusion of virus membrane with host plasma membrane Source: InterPro

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Intermediate capsid protein VP6
    OrganismiRotavirus 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 identifieri31589 [NCBI]
    Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
    Virus hostiGallus gallus (Chicken) [TaxID: 9031]

    Subcellular locationi

    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.By similarity

    GO - Cellular componenti

    1. viral envelope Source: InterPro
    2. viral intermediate capsid Source: UniProtKB-KW

    Keywords - Cellular componenti

    Capsid protein, Intermediate capsid protein, Virion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 397397Intermediate capsid protein VP6PRO_0000368172Add
    BLAST

    Post-translational modificationi

    The N-terminus is blocked.By similarity

    Interactioni

    Subunit structurei

    Homotrimer. Interacts with VP2 By similarity.By similarity

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the rotavirus VP6 family.Curated

    Family and domain databases

    InterProiIPR008980. Capsid_hemagglutn.
    IPR001385. Rotavirus_A/C_VP6.
    IPR008935. Virus_capsid_a-hlx_vir.
    [Graphical view]
    PfamiPF00980. Rota_Capsid_VP6. 1 hit.
    [Graphical view]
    ProDomiPD001812. Rota_Capsid_VP6. 1 hit.
    [Graphical view] [Entries sharing at least one domain]
    SUPFAMiSSF48345. SSF48345. 2 hits.
    SSF49818. SSF49818. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    B3STR0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDVLYSLAKT LKDARARIVE GTLYTNVADI VQQINQVINS INGSTFQTGG    50
    IGNLPVRNWT FDFGTLGTTL LNLDANYVEN ARTTIDYFID FVDSVCIDEI 100
    VRESQRNGIA PQFDLLRQLS NAKYKRINYD NESEYIENWN LQNRRQRTGY 150
    LLHKPNILPY NNSFTLIRSQ PAHDNVCGTI WLNNGSEIEI AGFDSECALN 200
    APGNIQEFEH VVPMRRVLNN ATVSLLPYAP RLTQRAVIPT ADGLNTWLFN 250
    PIILRPNNVQ VEFLLNGQVI TNYQARYGTL AARNFDSIRI SFQLVRPPNM 300
    TPAVAALFPQ AAPFPNHATV GLTLKIESAS CESVLSDANE PYLSIVTGLR 350
    QEYAIPVGPV FPAGMNWTEL LNNYSVSRED NLQRIFTAAS IRSMIIK 397
    Length:397
    Mass (Da):44,550
    Last modified:September 2, 2008 - v1
    Checksum:i50EE3BE58C0E17A7
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    EF687020 Genomic RNA. Translation: ABV46497.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    EF687020 Genomic RNA. Translation: ABV46497.1 .

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    InterProi IPR008980. Capsid_hemagglutn.
    IPR001385. Rotavirus_A/C_VP6.
    IPR008935. Virus_capsid_a-hlx_vir.
    [Graphical view ]
    Pfami PF00980. Rota_Capsid_VP6. 1 hit.
    [Graphical view ]
    ProDomi PD001812. Rota_Capsid_VP6. 1 hit.
    [Graphical view ] [Entries sharing at least one domain ]
    SUPFAMi SSF48345. SSF48345. 2 hits.
    SSF49818. SSF49818. 1 hit.
    ProtoNeti Search...

    Publicationsi

    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].

    Entry informationi

    Entry nameiVP6_ROTCC
    AccessioniPrimary (citable) accession number: B3STR0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: September 2, 2008
    Last modified: October 1, 2014
    This is version 24 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    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.By similarity

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3