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P03136 (CAPSD_PAVHH) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 72. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Capsid protein VP1
Alternative name(s):
Coat protein VP1
OrganismHamster parvovirus H1 [Complete proteome]
Taxonomic identifier10799 [NCBI]
Taxonomic lineageVirusesssDNA virusesParvoviridaeParvovirinaeParvovirus
Virus hostCricetidae sp. (Hamster) [TaxID: 36483]
Rattus norvegicus (Rat) [TaxID: 10116]

Protein attributes

Sequence length734 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Capsid protein self-assembles to form an icosahedral capsid with a T=1 symmetry, about 22 nm in diameter, and consisting of 60 copies of two size variants of the capsid proteins, VP1 and VP2, which differ by the presence of an N-terminal extension in the minor protein VP1. The capsid encapsulates the genomic ssDNA. Capsid proteins are responsible for the attachment to host cell receptors. This attachment induces virion internalization predominantly through clathrin-dependent endocytosis. Binding to the host receptors also induces capsid rearrangements leading to surface exposure of VP1 N-terminus, specifically its phospholipase A2-like region and putative nuclear localization signal(s). VP1 N-terminus might serve as a lipolytic enzyme to breach the endosomal membrane during entry into host cell and might contribute to virus transport to the nucleus By similarity.

Subcellular location

Virion By similarity. Host nucleus Potential.

Domain

The N-terminus of VP1 is sequestered within the mature capsid. It contains a phospholipase A2-like region and putative nuclear localization signals.

Sequence similarities

Belongs to the parvoviridae capsid protein family.

Ontologies

Keywords
   Biological processClathrin-mediated endocytosis of virus by host
Cytoplasmic inwards viral transport
Host-virus interaction
Microtubular inwards viral transport
Viral attachment to host cell
Viral penetration into host cytoplasm
Viral penetration into host nucleus
Viral penetration via permeabilization of host membrane
Virus endocytosis by host
Virus entry into host cell
   Cellular componentCapsid protein
Host nucleus
T=1 icosahedral capsid protein
Virion
   Coding sequence diversityAlternative splicing
   LigandMagnesium
Metal-binding
   Technical term3D-structure
Complete proteome
Gene Ontology (GO)
   Biological_processclathrin-mediated endocytosis of virus by host cell

Inferred from electronic annotation. Source: UniProtKB-KW

microtubule-dependent intracellular transport of viral material towards nucleus

Inferred from electronic annotation. Source: UniProtKB-KW

permeabilization of host organelle membrane involved in viral entry into host cell

Inferred from electronic annotation. Source: UniProtKB-KW

viral penetration into host nucleus

Inferred from electronic annotation. Source: UniProtKB-KW

virion attachment to host cell

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentT=1 icosahedral viral capsid

Inferred from electronic annotation. Source: UniProtKB-KW

host cell nucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

intracellular

Inferred from electronic annotation. Source: GOC

   Molecular_functionmetal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

structural molecule activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform VP1 (identifier: P03136-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Note: Minor splicing isoform.
Isoform VP2 (identifier: P03136-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-142: Missing.
Note: Major splicing isoform produced by deletion of the initiating AUG for VP1 and downstream translation of VP2.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 734734Capsid protein VP1
PRO_0000039431

Regions

Region19 – 6446Phospholipase A2-like By similarity
Motif4 – 1310Nuclear localization signal Potential
Compositional bias166 – 18217Gly-rich

Sites

Metal binding3281Magnesium 1 By similarity

Natural variations

Alternative sequence1 – 142142Missing in isoform VP2.
VSP_041140

Secondary structure

........................................................................................... 734
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform VP1 [UniParc].

Last modified April 5, 2011. Version 2.
Checksum: 0AA6B088729203F8

FASTA73481,053
        10         20         30         40         50         60 
MAPPAKRAKR GWVPPGYKYL GPGNSLDQGE PTNPSDAAAK EHDEAYDQYI KSGKNPYLYF 

        70         80         90        100        110        120 
SPADQRFIDQ TKDAKDWGGK VGHYFFRTKR AFAPKLSTDS EPGTSGVSRP GKRTKPPAHI 

       130        140        150        160        170        180 
FVNQARAKKK RASLAAQQRT LTMSDGTETN QPDTGIANAR VERSADGGGS SGGGGSGGGG 

       190        200        210        220        230        240 
IGVSTGTYDN QTTYKFLGDG WVEITAHASR LLHLGMPPSE NYCRVTVHNN QTTGHGTKVK 

       250        260        270        280        290        300 
GNMAYDTHQQ IWTPWSLVDA NAWGVWFQPS DWQFIQNSME SLNLDSLSQE LFNVVVKTVT 

       310        320        330        340        350        360 
EQQGAGQDAI KVYNNDLTAC MMVALDSNNI LPYTPAAQTS ETLGFYPWKP TAPAPYRYYF 

       370        380        390        400        410        420 
FMPRQLSVTS SNSAEGTQIT DTIGEPQALN SQFFTIENTL PITLLRTGDE FTTGTYIFNT 

       430        440        450        460        470        480 
DPLKLTHTWQ TNRHLACLQG ITDLPTSDTA TASLTANGDR FGSTQTQNVN YVTEALRTRP 

       490        500        510        520        530        540 
AQIGFMQPHD NFEANRGGPF KVPVVPLDIT AGEDHDANGA IRFNYGKQHG EDWAKQGAAP 

       550        560        570        580        590        600 
ERYTWDAIDS AAGRDTARCF VQSAPISIPP NQNQILQRED AIAGRTNMHY TNVFNSYGPL 

       610        620        630        640        650        660 
SAFPHPDPIY PNGQIWDKEL DLEHKPRLHV TAPFVCKNNP PGQLFVHLGP NLTDQFDPNS 

       670        680        690        700        710        720 
TTVSRIVTYS TFYWKGILKF KAKLRPNLTW NPVYQATTDS VANSYMNVKK WLPSATGNMH 

       730 
SDPLICRPVP HMTY 

« Hide

Isoform VP2 [UniParc].

Checksum: 924A603F290346CB
Show »

FASTA59265,335

References

[1]"Parvovirus genome: nucleotide sequence of H-1 and mapping of its genes by hybrid-arrested translation."
Rhode S.L. III, Paradiso P.R.
J. Virol. 45:173-184(1983) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X01457 Genomic DNA. Translation: CAB57285.1. Sequence problems.
PIRVCPVV2. A03699.
RefSeqNP_040319.1. NC_001358.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4G0RX-ray2.70A1-734[»]
4GBTX-ray3.20A1-734[»]
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID1489602.

Family and domain databases

Gene3D2.170.30.10. 1 hit.
InterProIPR016184. Capsid/spike_ssDNA_virus.
IPR001403. Parvovirus_coat.
IPR013607. Parvovirus_coat_VP1_N.
[Graphical view]
PfamPF00740. Parvo_coat. 1 hit.
PF08398. Parvo_coat_N. 1 hit.
[Graphical view]
SUPFAMSSF88645. SSF88645. 1 hit.
ProtoNetSearch...

Entry information

Entry nameCAPSD_PAVHH
AccessionPrimary (citable) accession number: P03136
Entry history
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: April 5, 2011
Last modified: February 19, 2014
This is version 72 of the entry and version 2 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references