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P36284 (CAPSD_SMSV1) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 49. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Capsid protein
Alternative name(s):
Coat protein
Short name=CP
VP1
Gene names
ORF Names:ORF2
OrganismSan Miguel sea lion virus serotype 1 (SMSV-1) (SMSV serotype 1) [Complete proteome]
Taxonomic identifier36406 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageCaliciviridaeVesivirus
Virus hostOtariidae (fur seals & sea lions) [TaxID: 9702]

Protein attributes

Sequence length702 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred 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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Propeptide1 – 152152 By similarity
PRO_0000036882
Chain153 – 702550Capsid protein By similarity
PRO_0000036883

Sites

Site152 – 1532Cleavage; by 3C-like protease By similarity

Sequences

Sequence LengthMass (Da)Tools
P36284 [UniParc].

Last modified June 1, 1994. Version 1.
Checksum: E6E5A58523DEE3D7

FASTA70277,850
        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 

« Hide

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.
PIRA48562.

3D structure databases

ProteinModelPortalP36284.
SMRP36284. Positions 163-696.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D2.60.120.20. 1 hit.
InterProIPR004005. Calicivirus_coat.
IPR029053. Viral_coat.
[Graphical view]
PfamPF00915. Calici_coat. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameCAPSD_SMSV1
AccessionPrimary (citable) accession number: P36284
Entry history
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: July 9, 2014
This is version 49 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families