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P03531

- VP6_ROTS1

UniProt

P03531 - VP6_ROTS1

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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

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 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.

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 VP6
PRO_0000149577Add
BLAST

Post-translational modificationi

The N-terminus is blocked By similarity.

Interactioni

Subunit structurei

Homotrimer. Interacts with VP2 By similarity.

Structurei

3D structure databases

ProteinModelPortaliP03531.
SMRiP03531. 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.

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

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 conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti164 – 1641F → Y1 Publication
Sequence conflicti164 – 1641F → Y in AAO32085. 1 Publication
Sequence conflicti385 – 3851V → I1 Publication
Sequence conflicti385 – 3851V → I in AAO32085. 1 Publication

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: December 11, 2013
This is version 77 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.

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi