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P27405

- CAPSD_FCVF4

UniProt

P27405 - CAPSD_FCVF4

Protein

Capsid protein

Gene

ORF2

Organism
Feline calicivirus (strain Japanese F4) (FCV)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 52 (01 Oct 2014)
      Sequence version 1 (01 Aug 1992)
      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
    Sitei124 – 1252Cleavage; by calicivirinBy similarity

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Capsid protein
    Alternative name(s):
    Coat protein
    Short name:
    CP
    VP1
    Cleaved into the following chain:
    Gene namesi
    ORF Names:ORF2
    OrganismiFeline calicivirus (strain Japanese F4) (FCV)
    Taxonomic identifieri11980 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
    Virus hostiFelidae (cat family) [TaxID: 9681]
    ProteomesiUP000008668: 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 – 124124By similarityPRO_0000036876Add
    BLAST
    Chaini125 – 668544Capsid proteinBy similarityPRO_0000036877Add
    BLAST
    Chaini?465 – 668204Protein 40kPRO_0000341980Add
    BLAST

    Post-translational modificationi

    Cleaved by virus calcivirin to produce mature capsid protein.By similarity
    Cleaved by host caspase-2 and caspase-6 to generate protein p40.By similarity

    Interactioni

    Subunit structurei

    Homodimerizes, then multimerizes. May bind to VP3 and Vpg proteins. Binds to alpha-2,6-linked sialic acid at surface of target cells. Interacts with host F11R.1 Publication

    Structurei

    3D structure databases

    ProteinModelPortaliP27405.
    SMRiP27405. Positions 129-662.
    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.

    P27405-1 [UniParc]FASTAAdd to Basket

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    MCSTCANVLK YYDWDPHFRL IINPNKFLPI GFCDNPLMCC YPDLLPEFGT    50
    VWDCDQSPLQ IYLESILGDD EWASTHEAID PSVPPMHWDS AGKIFQPHPG 100
    VLMHHLIGEV AKAWDPNLPL FRLEADDGSI TTPEQGTAVG GVIAEPSAQM 150
    STAADMASGK SVDSEWEAFF SFHTSVNWST SETQGKILFK QSLGPLLNPY 200
    LEHLSKLYVA WSGSIEVRFS ISGSGVFGGK LAAIVVPPGV DPVQSTSMLQ 250
    YPHVLFDARQ VEPVIFTIPD LRSTLYHVMS DTDTTSLVIM VYNDLINPYA 300
    NDSNSSGCIV TVETKPGPDF KFHLLKPPGS VLTHGSIPSD LIPKSSSLWI 350
    GNRYWTDITD FVIRPFVFQA NRHFDFNQET AGWSTPRFRP ITITISEKNG 400
    SKLGIGVATD YIIPGIPDGW PDTTIADKLI PAGDYSITTG EGNDIKTAQA 450
    YDTAAVVKNT TNFRGMYICG SLQRAWGDKK ISNTAFITTA IRDGNEIKPS 500
    NTIDMTKLAV YQDTHVEQEV QTSDDTLALL GYTGIGEEAI GSNRDRVVRI 550
    SVLPEAGARG GNHPIFYKNS IKLGYVIRSI DVFNSQILHT SRQLSLNHYL 600
    LPPDSFAVYR IIDSNGSWFD IGIDSEGFSF VGVSDIGKLE FPLSASYMGI 650
    QLAKIRLASN IRSRMTKL 668
    Length:668
    Mass (Da):73,589
    Last modified:August 1, 1992 - v1
    Checksum:i85BBDCB85804E503
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D90357 Genomic RNA. Translation: BAA14371.1.
    PIRiB40481. VCWWFC.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D90357 Genomic RNA. Translation: BAA14371.1 .
    PIRi B40481. VCWWFC.

    3D structure databases

    ProteinModelPortali P27405.
    SMRi P27405. Positions 129-662.
    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. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "Junctional adhesion molecule 1 is a functional receptor for feline calicivirus."
      Makino A., Shimojima M., Miyazawa T., Kato K., Tohya Y., Akashi H.
      J. Virol. 80:4482-4490(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH HOST F11R.

    Entry informationi

    Entry nameiCAPSD_FCVF4
    AccessioniPrimary (citable) accession number: P27405
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 1, 1992
    Last sequence update: August 1, 1992
    Last modified: October 1, 2014
    This is version 52 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