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Protein

Capsid protein

Gene

ORF2

Organism
Feline calicivirus (strain CFI/68 FIV) (FCV)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

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 CFI/68 FIV) (FCV)
Taxonomic identifieri11979 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
Virus hostiFelidae (cat family) [TaxID: 9681]
ProteomesiUP000008667 Componenti: Genome

Subcellular locationi

  1. Virion
  2. Host cytoplasm By similarity

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-SubCell
  2. T=3 icosahedral viral capsid Source: UniProtKB-KW
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 – 124124By similarityPRO_0000036874Add
BLAST
Chaini125 – 668544Capsid proteinBy similarityPRO_0000036875Add
BLAST
Chaini?465 – 668204Protein 40kPRO_0000341979Add
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 (By similarity).By similarity

Structurei

3D structure databases

ProteinModelPortaliP27404.
SMRiP27404. 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.

P27404-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCSTCANVLK YYDWDPHIKL VINPNKFLHV GFCDNPLMCC YPELLPEFGT
60 70 80 90 100
MWDCDQSPLQ VYLESILGDD EWSSTHEAID PVVPPMHWDE AGKIFQPHPG
110 120 130 140 150
VLMHHLICKV AEGWDPNLPL FRLEADDGSI TTPEQGTMVG GVIAEPNAQM
160 170 180 190 200
STAADMATGK SVDSEWEAFF SFHTSVNWST SETQGKILFK QSLGPLLNPY
210 220 230 240 250
LTHLAKLYVA WSGSVDVRFS ISGSGVFGGK LAAIVVPPGI DPVQSTSMLQ
260 270 280 290 300
YPHVLFDARQ VEPVIFSIPD LRSTLYHLMS DTDTTSLVIM VYNDLINPYA
310 320 330 340 350
NDSNSSGCIV TVETKPGPDF KFHLLKPPGS MLTHGSIPSD LIPKSSSLWI
360 370 380 390 400
GNRFWSDITD FVIRPFVFQA NRHFDFNQET AGWSTPRFRP ITITISVKES
410 420 430 440 450
AKLGIGVATD YIVPGIPDGW PDTTIPGELV PVGDYAITNG TNNDITTAAQ
460 470 480 490 500
YDAATEIRNN TNFRGMYICG SLQRAWGDKK ISNTAFITTG TVDGAKLIPS
510 520 530 540 550
NTIDQTKIAV FQDTHANKHV QTSDDTLALL GYTGIGEEAI GADRDRVVRI
560 570 580 590 600
SVLPERGARG GNHPIFHKNS IKLGYVIRSI DVFNSQILHT SRQLSLNHYL
610 620 630 640 650
LSPDSFAVYR IIDSNGSWFD IGIDNDGFSF VGVSSIGKLE FPLTASYMGI
660
QLAKIRLASN IRSVMTKL
Length:668
Mass (Da):73,550
Last modified:August 1, 1992 - v1
Checksum:i9E52312108D4D441
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M32819 Genomic RNA. Translation: AAA42925.1.
U13992 Genomic RNA. Translation: AAC13993.1.
PIRiA40507. VCWWFF.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M32819 Genomic RNA. Translation: AAA42925.1.
U13992 Genomic RNA. Translation: AAC13993.1.
PIRiA40507. VCWWFF.

3D structure databases

ProteinModelPortaliP27404.
SMRiP27404. Positions 129-662.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

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]
ProtoNetiSearch...

Publicationsi

  1. "Nucleotide sequence and expression of the capsid protein gene of feline calicivirus."
    Neill J.D., Reardon I.M., Heinrikson R.L.
    J. Virol. 65:5440-5447(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA], PARTIAL PROTEIN SEQUENCE.

Entry informationi

Entry nameiCAPSD_FCVC6
AccessioniPrimary (citable) accession number: P27404
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1992
Last sequence update: August 1, 1992
Last modified: January 7, 2015
This is version 60 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, Direct protein sequencing

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.