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P08035

- VP6_ROTHS

UniProt

P08035 - VP6_ROTHS

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Protein

Intermediate capsid protein VP6

Gene
N/A
Organism
Rotavirus A (strain Human/Japan/S2/1980 G2-P1B[4]-I2-R2-C2-M2-Ax-Nx-T2-E2-Hx) (RV-A)
Status
Reviewed - Annotation score: 2 out of 5 - Experimental evidence at transcript leveli

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi153 – 1531Zinc; shared with all trimeric partners By 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
Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Intermediate capsid protein VP6
OrganismiRotavirus A (strain Human/Japan/S2/1980 G2-P1B[4]-I2-R2-C2-M2-Ax-Nx-T2-E2-Hx) (RV-A)
Taxonomic identifieri10959 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostiHomo sapiens (Human) [TaxID: 9606]

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.

GO - Cellular componenti

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

Keywords - Cellular componenti

Capsid protein, Intermediate capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 397397Intermediate capsid protein VP6PRO_0000149572Add
BLAST

Post-translational modificationi

The N-terminus is blocked By similarity.

Interactioni

Subunit structurei

Homotrimer. Interacts with VP2 By similarity.

Structurei

3D structure databases

ProteinModelPortaliP08035.
SMRiP08035. Positions 1-397.

Family & Domainsi

Sequence similaritiesi

Belongs to the rotavirus VP6 family.

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.

P08035-1 [UniParc]FASTAAdd to Basket

« Hide

MDVLYSLSKT LKDARDKIVE GTLYSNVSDL IQQFNQMIIT MNGNEFQTGG    50
IGNLPTRNWS FDFGLLGTTL LNLDANYVET ARNTIDYFVD FVDNVCMDEM 100
VRESQRNGIA PQSESLRKLS GIKFKRINFD NSSEYIENWN LQNRRQRTGF 150
TFHKPNIFPY SASFTLNRSQ PAHDNLMGTM WLNAGSEIHV AGFDYSCAIN 200
APANIQQFEH IVQLRRVLTT ATITLLPDAE RFSFPRVINS ADGATTWYFN 250
PVILRPNNVE VEFLLNGQII NTYQARFGTI VARNFDTIRL SFQLMRPPNM 300
TPSVAALFPN AQPFEHHATV GLTLRIESAI CESVLADASE TMLANVTSVR 350
QEYAIPVGPV FPPGMNWTDL ITNYSPSRED NLHRVFTVAS IRSMLVK 397
Length:397
Mass (Da):44,906
Last modified:August 1, 1988 - v1
Checksum:i3FB1424216F5940E
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti189 – 1891H → Q in ABI60847. 1 Publication
Sequence conflicti383 – 3831H → Q in ABI60847. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y00437 mRNA. Translation: CAA68495.1.
DQ870488 Genomic RNA. Translation: ABI60847.1.
PIRiA26849. VPXRS2.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y00437 mRNA. Translation: CAA68495.1 .
DQ870488 Genomic RNA. Translation: ABI60847.1 .
PIRi A26849. VPXRS2.

3D structure databases

ProteinModelPortali P08035.
SMRi P08035. 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. "Nucleotide sequence for gene 6 of rotavirus strain S2."
    Hofer J.M.I., Sato F., Street J.E., Bellamy A.R.
    Nucleic Acids Res. 15:7175-7175(1987) [PubMed] [Europe PMC] [Abstract]
    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_ROTHS
AccessioniPrimary (citable) accession number: P08035
Secondary accession number(s): A7J393
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: December 11, 2013
This is version 69 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.

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi