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P36284

- CAPSD_SMSV1

UniProt

P36284 - CAPSD_SMSV1

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
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    • History
      Entry version 50 (01 Oct 2014)
      Sequence version 1 (01 Jun 1994)
      Previous versions | rss
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    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.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei152 – 1532Cleavage; by 3C-like proteaseBy 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. host cell cytoplasm Source: UniProtKB-SubCell
    2. T=3 icosahedral viral capsid Source: UniProtKB-KW

    Keywords - Cellular componenti

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

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Propeptidei1 – 152152By similarityPRO_0000036882Add
    BLAST
    Chaini153 – 702550Capsid proteinBy similarityPRO_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.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliP36284.
    SMRiP36284. Positions 163-696.
    ModBaseiSearch...
    MobiDBiSearch...

    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: October 1, 2014
    This is version 50 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