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P03531 (VP6_ROTS1) Reviewed, UniProtKB/Swiss-Prot

Last modified December 11, 2013. Version 77. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein attributes

Sequence length397 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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.

Subunit structure

Homotrimer. Interacts with VP2 By similarity.

Subcellular location

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.

Post-translational modification

The N-terminus is blocked By similarity.

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.

Sequence similarities

Belongs to the rotavirus VP6 family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 397397Intermediate capsid protein VP6
PRO_0000149577

Sites

Metal binding1531Zinc; shared with all trimeric partners By similarity

Natural variations

Natural variant101T → S in strain: Isolate temperature-sensitive mutant G.
Natural variant131D → H in strain: Isolate temperature-sensitive mutant G.
Natural variant1211A → G in strain: Isolate temperature-sensitive mutant G.

Experimental info

Sequence conflict1641F → Y Ref.3
Sequence conflict1641F → Y in AAO32085. Ref.5
Sequence conflict3851V → I Ref.3
Sequence conflict3851V → I in AAO32085. Ref.5

Sequences

Sequence LengthMass (Da)Tools
P03531 [UniParc].

Last modified April 1, 1990. Version 2.
Checksum: 39FAC6E17AE42A46

FASTA39744,873
        10         20         30         40         50         60 
MDVLYSLSKT LKDARDKIVE GTLYSNVSDL IQQFNQMIIT MNGNEFQTGG IGNLPIRNWN 

        70         80         90        100        110        120 
FNFGLLGTTL LNLDANYVET ARNTIDYFVD FVDNVCMDEM VRESQRNGIA PQSDSLRKLS 

       130        140        150        160        170        180 
AIKFKRINFD NSSEYIENWN LQNRRQRTGF TFHKPNIFPY SASFTLNRSQ PAHDNLMGTM 

       190        200        210        220        230        240 
WLNAGSEIQV AGFDYSCAIN APANIQQFEH IVPLRRVLTT ATITLLPDAE RFSFPRVINS 

       250        260        270        280        290        300 
ADGATTWFFN PVILRPNNVE VEFLLNGQII NTYQARFGTI VARNFDTIRL SFQLMRPPNM 

       310        320        330        340        350        360 
TPAVAVLFPN AQPFEHHATV GLTLRIESAV CESVLADASE TLLANVTSVR QEYAIPVGPV 

       370        380        390 
FPPGMNWTDL ITNYSPSRED NLQRVFTVAS IRSMLIK 

« Hide

References

[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].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M27824 Genomic RNA. Translation: AAA47397.1.
X00421 Genomic RNA. Translation: CAA25122.1.
AY187029 Genomic RNA. Translation: AAO32085.1.
L15384 Genomic RNA. Translation: AAA65638.1.
PIRVPXR6S. A93002.
VPXR11. JQ0019.

3D structure databases

ProteinModelPortalP03531.
SMRP03531. Positions 1-397.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

InterProIPR008980. Capsid_hemagglutn.
IPR001385. Rotavirus_A/C_VP6.
IPR008935. Virus_capsid_a-hlx_vir.
[Graphical view]
PfamPF00980. Rota_Capsid_VP6. 1 hit.
[Graphical view]
ProDomPD001812. Rota_Capsid_VP6. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMSSF48345. SSF48345. 2 hits.
SSF49818. SSF49818. 1 hit.
ProtoNetSearch...

Entry information

Entry nameVP6_ROTS1
AccessionPrimary (citable) accession number: P03531
Secondary accession number(s): Q6Y3A1, Q86230
Entry history
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 statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families