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A7J3A1

- VP6_ROTBN

UniProt

A7J3A1 - VP6_ROTBN

Protein

Intermediate capsid protein VP6

Gene
N/A
Organism
Rotavirus A (strain Cow/United States/NCDV-Lincoln/1969 G6-P6[1]-I2-R2-C2-M2-Ax-N2-T6-E2-Hx) (RV-A) (Rotavirus A (strain Nebraska calf diarrhea virus))
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 30 (01 Oct 2014)
      Sequence version 1 (11 Sep 2007)
      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 Cow/United States/NCDV-Lincoln/1969 G6-P6[1]-I2-R2-C2-M2-Ax-N2-T6-E2-Hx) (RV-A) (Rotavirus A (strain Nebraska calf diarrhea virus))
    Taxonomic identifieri36439 [NCBI]
    Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
    Virus hostiBos taurus (Bovine) [TaxID: 9913]

    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_0000368173Add
    BLAST

    Post-translational modificationi

    The N-terminus is blocked.By similarity

    Interactioni

    Subunit structurei

    Homotrimer. Interacts with VP2 By similarity.By similarity

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4F5XX-ray5.00C/D/E/F/G/H/I/J/K/L/M/N/O1-397[»]
    ProteinModelPortaliA7J3A1.
    SMRiA7J3A1. Positions 1-397.
    ModBaseiSearch...
    MobiDBiSearch...

    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.

    A7J3A1-1 [UniParc]FASTAAdd to Basket

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    MDVLYSLSKT LKDARDKIVE GTLYSNVSDL IQQFNQMIIT MNGNEFQTGG    50
    IGNLPIRNWN FDFGLLGTTL LNLDANYVET ARNTIDYFVD FVDNVCMDEM 100
    VRESQRNGIA PQSDSLRKLS GLKFKRINFD NSSEYIENWN LQNRRQRTGF 150
    TFHKPNIFPY SASFTLNRSQ PAHDNLMGTM WLNAGSEIQV AGFDYSCAIN 200
    APANTQQFEH IVQLRRVLTT ATITLLPDAE RFSFPRVINS ADGATTWYFN 250
    PVILRPNNVE VEFLLNGQII NTYQARFGTI IARNFDTIRL SFQLMRPPNM 300
    TPAVAALFPN AQPFEHHATV GLTLRIESAV CESVLADASE TMLANVTSVR 350
    QEYAIPVGPV FPPGMNWTDL ITNYSPSRED NLQRVFTVAS IRSMLVK 397
    Length:397
    Mass (Da):44,885
    Last modified:September 11, 2007 - v1
    Checksum:i857669BCEFF672A9
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti122 – 1221L → I in AAK60608. 1 PublicationCurated
    Sequence conflicti239 – 2391N → I in AAK60608. 1 PublicationCurated
    Sequence conflicti281 – 2811I → V in AAK60608. 1 PublicationCurated
    Sequence conflicti339 – 3391S → R in AAK60608. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF317127 mRNA. Translation: AAK60608.1.
    DQ870496 Genomic RNA. Translation: ABI60863.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF317127 mRNA. Translation: AAK60608.1 .
    DQ870496 Genomic RNA. Translation: ABI60863.1 .

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4F5X X-ray 5.00 C/D/E/F/G/H/I/J/K/L/M/N/O 1-397 [» ]
    ProteinModelPortali A7J3A1.
    SMRi A7J3A1. Positions 1-397.
    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. "Antigenic and molecular analysis of group A porcine and bovine rotaviruses isolated in the United States, Venezuela, and South Africa."
      Ciarlet M., Steele A.D., Vasquez E., Bertolotti-Ciarlet A., Sanchez-Camacho A., Pina C.I., Pujol F.H., Liprandi F.
      Submitted (OCT-2000) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. "Full genome-based classification of rotaviruses reveals a common origin between human Wa-Like and porcine rotavirus strains and human DS-1-like and bovine rotavirus strains."
      Matthijnssens J., Ciarlet M., Heiman E.M., Arijs I., Delbeke T., McDonald S.M., Palombo E.A., Iturriza-Gomara M., Maes P., Patton J.T., Rahman M., Van Ranst M.
      J. Virol. 82:3204-3219(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

    Entry informationi

    Entry nameiVP6_ROTBN
    AccessioniPrimary (citable) accession number: A7J3A1
    Secondary accession number(s): Q91N57
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: September 11, 2007
    Last modified: October 1, 2014
    This is version 30 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

    Keywords - Technical termi

    3D-structure

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3