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P36284

- CAPSD_SMSV1

UniProt

P36284 - CAPSD_SMSV1

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Protein
Capsid protein
Gene
ORF2
Organism
San Miguel sea lion virus serotype 1 (SMSV-1) (SMSV serotype 1)
Status
Reviewed - Annotation score: 2 out of 5 - Protein inferred from homologyi

Functioni

Capsid protein self assembles to form an icosahedral capsid with a T=3 symmetry, about 38 nm in diameter, and consisting of 180 capsid proteins. A smaller form of capsid with a diameter of 23 nm might be capsid proteins assembled as icosahedron with T=1 symmetry. The capsid encapsulate the genomic RNA and VP2 proteins. Attaches virion to target cells by binding to feline junctional adhesion molecule A (F11R) and/or to alpha-2,6-linked sialic acid. Once attached, the virion is endocytosed. Acidification of the endosome induces conformational change of capsid protein thereby injecting virus genomic RNA into host cytoplasm By similarity.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei152 – 1532Cleavage; by 3C-like protease By similarity

Names & Taxonomyi

Protein namesi
Recommended name:
Capsid protein
Alternative name(s):
Coat protein
Short name:
CP
VP1
Gene namesi
ORF Names:ORF2
OrganismiSan Miguel sea lion virus serotype 1 (SMSV-1) (SMSV serotype 1)
Taxonomic identifieri36406 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
Virus hostiOtariidae (fur seals & sea lions) [TaxID: 9702]
ProteomesiUP000007224: Genome

Subcellular locationi

Virion. Host cytoplasm By similarity

GO - Cellular componenti

  1. T=3 icosahedral viral capsid Source: UniProtKB-KW
  2. host cell cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Host cytoplasm, T=3 icosahedral capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Propeptidei1 – 152152 By similarity
PRO_0000036882Add
BLAST
Chaini153 – 702550Capsid protein By similarity
PRO_0000036883Add
BLAST

Post-translational modificationi

Cleaved by virus calcivirin to produce mature capsid protein By similarity.

Interactioni

Subunit structurei

Homodimerizes, then multimerizes. May bind to VP3 and Vpg proteins By similarity.

Structurei

3D structure databases

ProteinModelPortaliP36284.
SMRiP36284. Positions 163-696.

Family & Domainsi

Sequence similaritiesi

Family and domain databases

Gene3Di2.60.120.20. 1 hit.
InterProiIPR004005. Calicivirus_coat.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00915. Calici_coat. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P36284-1 [UniParc]FASTAAdd to Basket

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MATTHTLLSF DDLEFLLHKK DLTDLYGERC GTLNLVINPY DLFLPDDLDD    50
DWCDDPFNCC FSDVYTSIGT EYSYIDPPDL IYEEHCATNG HWPDGTPCEP 100
ILPPFVIEGT HHYYATKPGE AVSGILSKLG SAWDPDLQST VDTKPDFVFR 150
AESDGPGGAD IVTEEQGTVV QQQPVPAQSA LTTLAAASTG KTVDCEWTTF 200
FSYHTAVNWS TTEAQGKILF SRALSPELNP YLRHISSLYS TWSGGIDVRF 250
TVSGSGVFGG KLAALIVPPG IEPVESPTML QYPHVLFDAR QTEPVIFTIP 300
DIRKTLYHSM DDTDTTRLVI MVYNELINPY EQSEPKSSCS ITVETRPSSD 350
FTFSLLKPPG SLLKHGSIPS DLIPRNSRHW MGNRWWSTID GFVVQPRVFQ 400
SNRHFDFDST TTGWSTPYYI PIEVTLEKLD RGGQYFKVTD TEKSLVPGLP 450
DGWPDTTIPT AMTASNGNYD YTVAEYRITN NGTHFKGFYI MGNLTTKVKG 500
SDNLGETQQT SRTLFASVGN YKDQNTINPT HKITSNSLVV YDANNVSAAT 550
AKTTTWHSTM SHLGYVLVDE SPVGSDSTKV VRIATLPEAF TNGGNFPVFF 600
TNKIQIGHFD RAHTKCFNSQ VLMTSQKLAE NHYTLPPDSL LVYRITDAAS 650
SWFDLGINHD GFSYVGISTI PELDFPLTFN LHGVQLAKVK LASKVKTSKT 700
TI 702
Length:702
Mass (Da):77,850
Last modified:June 1, 1994 - v1
Checksum:iE6E5A58523DEE3D7
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M87481 Unassigned DNA. Translation: AAA16217.1.
PIRiA48562.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M87481 Unassigned DNA. Translation: AAA16217.1 .
PIRi A48562.

3D structure databases

ProteinModelPortali P36284.
SMRi P36284. Positions 163-696.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 2.60.120.20. 1 hit.
InterProi IPR004005. Calicivirus_coat.
IPR029053. Viral_coat.
[Graphical view ]
Pfami PF00915. Calici_coat. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Nucleotide sequence of the capsid protein gene of two serotypes of San Miguel sea lion virus: identification of conserved and non-conserved amino acid sequences among calicivirus capsid proteins."
    Neill J.D.
    Virus Res. 24:211-222(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiCAPSD_SMSV1
AccessioniPrimary (citable) accession number: P36284
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: July 9, 2014
This is version 49 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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