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Protein

Intermediate capsid protein VP6

Gene
N/A
Organism
Rotavirus A (strain RVA/Human/United States/Wa/1974/G1P1A[8]) (RV-A)
Status
Reviewed-Annotation score: -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. Nascent 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.UniRule annotation

Miscellaneous

The VP6 trimer contains a zinc ion located at the center of the molecule. The zinc ion is not essential for either trimerization or transcription activity of the DLP. Zinc-depleted VP6 has an increased sensitivity to proteases.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi153Zinc; via tele nitrogen; shared with all trimeric partnersUniRule annotation1
Metal bindingi266CalciumUniRule annotation1
Metal bindingi286CalciumUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

LigandCalcium, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Intermediate capsid protein VP6UniRule annotation
OrganismiRotavirus A (strain RVA/Human/United States/Wa/1974/G1P1A[8]) (RV-A)
Taxonomic identifieri10962 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000006581 Componenti: Genome

Subcellular locationi

  • Virion UniRule annotation
  • 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.UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Intermediate capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001495731 – 397Intermediate capsid protein VP6Add BLAST397

Post-translational modificationi

The N-terminus is blocked.UniRule annotation
Sumoylated with SUMO1 and SUMO2. Sumoylation of viral proteins seems to have a positive role on viral replication.UniRule annotation

Keywords - PTMi

Ubl conjugation

Interactioni

Subunit structurei

Homotrimer. Interacts with the inner capsid protein VP2. Interacts with the outer capsid glycoprotein VP7. Interacts with the outer capsid protein VP5*.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliP03530
SMRiP03530
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni62 – 73Interaction with the inner capsid protein VP2UniRule annotationAdd BLAST12

Sequence similaritiesi

Belongs to the rotavirus VP6 family.UniRule annotation

Phylogenomic databases

OrthoDBiVOG090000BQ

Family and domain databases

HAMAPiMF_04126 Rota_VP6, 1 hit
MF_04129 Rota_VP6_A, 1 hit
InterProiView protein in InterPro
IPR008980 Capsid_hemagglutn
IPR001385 Rotavirus_A/C_VP6
IPR008935 Virus_capsid_a-hlx_vir
PfamiView protein in Pfam
PF00980 Rota_Capsid_VP6, 1 hit
ProDomiView protein in ProDom or Entries sharing at least one domain
PD001812 Rota_Capsid_VP6, 1 hit
SUPFAMiSSF48345 SSF48345, 2 hits
SSF49818 SSF49818, 1 hit

Sequencei

Sequence statusi: Complete.

P03530-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEVLYSLSKT LKDARDKIVE GTLYSNVSDL IQQFNQMIVT MNGNDFQTGG
60 70 80 90 100
IGNLPVRNWT FDFGLLGTTL LNLDANYVEN ARTIIEYFID FIDNVCMDEM
110 120 130 140 150
ARESQRNGVA PQSEALRKLA GIKFKRINFD NSSEYIENWN LQNRRQRTGF
160 170 180 190 200
VFHKPNIFPY SASFTLNRSQ PMHDNLMGTM WLNAGSEIQV AGFDYSCAIN
210 220 230 240 250
APANIQQFEH IVQLRRALTT ATITLLPDAE RFSFPRVINS ADGATTWFFN
260 270 280 290 300
PVILRPNNVE VEFLLNGQII NTYQARFGTI IARNFDAIRL LFQLMRPPNM
310 320 330 340 350
TPAVNALFPQ AQPFQHHATV GLTLRIESAV CESVLADANE TLLANVTAVR
360 370 380 390
QEYAIPVGPV FPPGMNWTEL ITNYSPSRED NLQRVFTVAS IRSMLIK
Length:397
Mass (Da):44,937
Last modified:July 21, 1986 - v1
Checksum:iF72D45800F037AF6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K02086 Genomic RNA Translation: AAA47311.1
PIRiA04130 VPXR6H

Similar proteinsi

Entry informationi

Entry nameiVP6_ROTHW
AccessioniPrimary (citable) accession number: P03530
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 21, 1986
Last modified: May 23, 2018
This is version 83 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health