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P03531

- VP6_ROTS1

UniProt

P03531 - VP6_ROTS1

Protein

Intermediate capsid protein VP6

Gene
N/A
Organism
Rotavirus A (strain SA11-Both G3-P5B[2]-I2-R2-C5-M5-A5-N2-T5-E2-H5) (RV-A) (Simian Agent 11 (strain Both))
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 78 (01 Oct 2014)
      Sequence version 2 (01 Apr 1990)
      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 SA11-Both G3-P5B[2]-I2-R2-C5-M5-A5-N2-T5-E2-H5) (RV-A) (Simian Agent 11 (strain Both))
    Taxonomic identifieri37137 [NCBI]
    Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
    Virus hostiMacaca mulatta (Rhesus macaque) [TaxID: 9544]
    ProteomesiUP000007180: Genome

    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_0000149577Add
    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

    ProteinModelPortaliP03531.
    SMRiP03531. 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.

    P03531-1 [UniParc]FASTAAdd to Basket

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    MDVLYSLSKT LKDARDKIVE GTLYSNVSDL IQQFNQMIIT MNGNEFQTGG    50
    IGNLPIRNWN FNFGLLGTTL LNLDANYVET ARNTIDYFVD FVDNVCMDEM 100
    VRESQRNGIA PQSDSLRKLS AIKFKRINFD NSSEYIENWN LQNRRQRTGF 150
    TFHKPNIFPY SASFTLNRSQ PAHDNLMGTM WLNAGSEIQV AGFDYSCAIN 200
    APANIQQFEH IVPLRRVLTT ATITLLPDAE RFSFPRVINS ADGATTWFFN 250
    PVILRPNNVE VEFLLNGQII NTYQARFGTI VARNFDTIRL SFQLMRPPNM 300
    TPAVAVLFPN AQPFEHHATV GLTLRIESAV CESVLADASE TLLANVTSVR 350
    QEYAIPVGPV FPPGMNWTDL ITNYSPSRED NLQRVFTVAS IRSMLIK 397
    Length:397
    Mass (Da):44,873
    Last modified:April 1, 1990 - v2
    Checksum:i39FAC6E17AE42A46
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti164 – 1641F → Y(PubMed:6328048)Curated
    Sequence conflicti164 – 1641F → Y in AAO32085. 1 PublicationCurated
    Sequence conflicti385 – 3851V → I(PubMed:6328048)Curated
    Sequence conflicti385 – 3851V → I in AAO32085. 1 PublicationCurated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti10 – 101T → S in strain: Isolate temperature-sensitive mutant G.
    Natural varianti13 – 131D → H in strain: Isolate temperature-sensitive mutant G.
    Natural varianti121 – 1211A → G in strain: Isolate temperature-sensitive mutant G.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M27824 Genomic RNA. Translation: AAA47397.1.
    X00421 Genomic RNA. Translation: CAA25122.1.
    AY187029 Genomic RNA. Translation: AAO32085.1.
    L15384 Genomic RNA. Translation: AAA65638.1.
    PIRiA93002. VPXR6S.
    JQ0019. VPXR11.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M27824 Genomic RNA. Translation: AAA47397.1 .
    X00421 Genomic RNA. Translation: CAA25122.1 .
    AY187029 Genomic RNA. Translation: AAO32085.1 .
    L15384 Genomic RNA. Translation: AAA65638.1 .
    PIRi A93002. VPXR6S.
    JQ0019. VPXR11.

    3D structure databases

    ProteinModelPortali P03531.
    SMRi P03531. 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. "Cloning and expression of the major inner capsid protein of SA-11 simian rotavirus in Escherichia coli."
      Smith R.E., Kister S.E., Carozzi N.B.
      Gene 79:239-248(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "Cloning and nucleotide sequence of the simian rotavirus gene 6 that codes for the major inner capsid protein."
      Estes M.K., Mason B.B., Crawford S.E., Cohen J.
      Nucleic Acids Res. 12:1875-1887(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    3. "Comparative sequence analysis of rotavirus genomic segment 6 -- the gene specifying viral subgroups 1 and 2."
      Both G.W., Siegman L.J., Bellamy A.R., Ikegami N., Shatkin A.J., Furuichi Y.
      J. Virol. 51:97-101(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    4. "Temperature-sensitive lesions in the capsid proteins of the rotavirus mutants tsF and tsG that affect virion assembly."
      Mansell E.A., Ramig R.F., Patton J.T.
      Virology 204:69-81(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
      Strain: Isolate temperature-sensitive mutant G.
    5. "Complete nucleotide sequence of Simian rotavirus."
      Mitchell D.B., Both G.W.
      Submitted (NOV-2002) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

    Entry informationi

    Entry nameiVP6_ROTS1
    AccessioniPrimary (citable) accession number: P03531
    Secondary accession number(s): Q6Y3A1, Q86230
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 21, 1986
    Last sequence update: April 1, 1990
    Last modified: October 1, 2014
    This is version 78 of the entry and version 2 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

    Complete proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3