P27404 (CAPSD_FCVC6) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Capsid protein

Alternative name(s):
Coat protein
Short name=CP
VP1

Cleaved into the following chain:

1. Protein 40k

Gene names

ORF Names:

ORF2

Organism

Feline calicivirus (strain CFI/68 FIV) (FCV) [Complete proteome]

Taxonomic identifier

11979 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Caliciviridae › Vesivirus › Feline calicivirus

Virus host

Felidae (cat family) [TaxID: 9681]

Protein attributes

Sequence length	668 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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.
Subunit structure	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.
Subcellular location	Virion. Host cytoplasm By similarity.
Post-translational modification	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.
Sequence similarities	Belongs to the caliciviridae capsid protein family.

Ontologies

Keywords
Cellular component	Host cytoplasm Virion
Molecular function	Capsid protein T=3 icosahedral capsid protein
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Cellular_component	T=3 icosahedral viral capsid Inferred from electronic annotation. Source: UniProtKB-KW host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Propeptide	1 – 124	124	By similarity		PRO_0000036874
	Chain	125 – 668	544	Capsid protein By similarity		PRO_0000036875
	Chain	?465 – 668	204	Protein 40k		PRO_0000341979
Sites
	Site	124 – 125	2	Cleavage; by calicivirin By similarity

Sequences

	Sequence		Length	Mass (Da)
	P27404 [UniParc]. Last modified August 1, 1992. Version 1. Checksum: 9E52312108D4D441	FASTA	668	73,550
	10 20 30 40 50 60 MCSTCANVLK YYDWDPHIKL VINPNKFLHV GFCDNPLMCC YPELLPEFGT MWDCDQSPLQ 70 80 90 100 110 120 VYLESILGDD EWSSTHEAID PVVPPMHWDE AGKIFQPHPG VLMHHLICKV AEGWDPNLPL 130 140 150 160 170 180 FRLEADDGSI TTPEQGTMVG GVIAEPNAQM STAADMATGK SVDSEWEAFF SFHTSVNWST 190 200 210 220 230 240 SETQGKILFK QSLGPLLNPY LTHLAKLYVA WSGSVDVRFS ISGSGVFGGK LAAIVVPPGI 250 260 270 280 290 300 DPVQSTSMLQ YPHVLFDARQ VEPVIFSIPD LRSTLYHLMS DTDTTSLVIM VYNDLINPYA 310 320 330 340 350 360 NDSNSSGCIV TVETKPGPDF KFHLLKPPGS MLTHGSIPSD LIPKSSSLWI GNRFWSDITD 370 380 390 400 410 420 FVIRPFVFQA NRHFDFNQET AGWSTPRFRP ITITISVKES AKLGIGVATD YIVPGIPDGW 430 440 450 460 470 480 PDTTIPGELV PVGDYAITNG TNNDITTAAQ YDAATEIRNN TNFRGMYICG SLQRAWGDKK 490 500 510 520 530 540 ISNTAFITTG TVDGAKLIPS NTIDQTKIAV FQDTHANKHV QTSDDTLALL GYTGIGEEAI 550 560 570 580 590 600 GADRDRVVRI SVLPERGARG GNHPIFHKNS IKLGYVIRSI DVFNSQILHT SRQLSLNHYL 610 620 630 640 650 660 LSPDSFAVYR IIDSNGSWFD IGIDNDGFSF VGVSSIGKLE FPLTASYMGI QLAKIRLASN IRSVMTKL

References

[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.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M32819 Genomic RNA. Translation: AAA42925.1. U13992 Genomic RNA. Translation: AAC13993.1.
PIR	VCWWFF. A40507.
3D structure databases
ProteinModelPortal	P27404.
SMR	P27404. Positions 129-662.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR004005. Calicivirus_coat. [Graphical view]
Pfam	PF00915. Calici_coat. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CAPSD_FCVC6

Accession

Primary (citable) accession number: P27404

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 1, 1992
Last sequence update:	August 1, 1992
Last modified:	April 3, 2013
This is version 55 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program