P36284 (CAPSD_SMSV1) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Capsid protein

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

Gene names

ORF Names:

ORF2

Organism

San Miguel sea lion virus serotype 1 (SMSV-1) (SMSV serotype 1) [Complete proteome]

Taxonomic identifier

36406 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Caliciviridae › Vesivirus › Vesicular exanthema of swine virus

Virus host

Otariidae (fur seals & sea lions) [TaxID: 9702]

Protein attributes

Sequence length	702 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

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 By similarity.
Subcellular location	Virion. Host cytoplasm By similarity.
Post-translational modification	Cleaved by virus calcivirin to produce mature capsid protein 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
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 – 152	152	By similarity		PRO_0000036882
	Chain	153 – 702	550	Capsid protein By similarity		PRO_0000036883
Sites
	Site	152 – 153	2	Cleavage; by 3C-like protease By similarity

Sequences

	Sequence		Length	Mass (Da)
	P36284 [UniParc]. Last modified June 1, 1994. Version 1. Checksum: E6E5A58523DEE3D7	FASTA	702	77,850
	10 20 30 40 50 60 MATTHTLLSF DDLEFLLHKK DLTDLYGERC GTLNLVINPY DLFLPDDLDD DWCDDPFNCC 70 80 90 100 110 120 FSDVYTSIGT EYSYIDPPDL IYEEHCATNG HWPDGTPCEP ILPPFVIEGT HHYYATKPGE 130 140 150 160 170 180 AVSGILSKLG SAWDPDLQST VDTKPDFVFR AESDGPGGAD IVTEEQGTVV QQQPVPAQSA 190 200 210 220 230 240 LTTLAAASTG KTVDCEWTTF FSYHTAVNWS TTEAQGKILF SRALSPELNP YLRHISSLYS 250 260 270 280 290 300 TWSGGIDVRF TVSGSGVFGG KLAALIVPPG IEPVESPTML QYPHVLFDAR QTEPVIFTIP 310 320 330 340 350 360 DIRKTLYHSM DDTDTTRLVI MVYNELINPY EQSEPKSSCS ITVETRPSSD FTFSLLKPPG 370 380 390 400 410 420 SLLKHGSIPS DLIPRNSRHW MGNRWWSTID GFVVQPRVFQ SNRHFDFDST TTGWSTPYYI 430 440 450 460 470 480 PIEVTLEKLD RGGQYFKVTD TEKSLVPGLP DGWPDTTIPT AMTASNGNYD YTVAEYRITN 490 500 510 520 530 540 NGTHFKGFYI MGNLTTKVKG SDNLGETQQT SRTLFASVGN YKDQNTINPT HKITSNSLVV 550 560 570 580 590 600 YDANNVSAAT AKTTTWHSTM SHLGYVLVDE SPVGSDSTKV VRIATLPEAF TNGGNFPVFF 610 620 630 640 650 660 TNKIQIGHFD RAHTKCFNSQ VLMTSQKLAE NHYTLPPDSL LVYRITDAAS SWFDLGINHD 670 680 690 700 GFSYVGISTI PELDFPLTFN LHGVQLAKVK LASKVKTSKT TI

References

[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].

Cross-references

Sequence databases
EMBL GenBank DDBJ	M87481 Unassigned DNA. Translation: AAA16217.1.
PIR	A48562.
3D structure databases
ProteinModelPortal	P36284.
SMR	P36284. Positions 163-696.
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_SMSV1

Accession

Primary (citable) accession number: P36284

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 1994
Last sequence update:	June 1, 1994
Last modified:	April 3, 2013
This is version 47 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program