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Protein

Major capsid protein VP1

Gene
N/A
Organism
Murine polyomavirus (strain A2) (MPyV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Forms an icosahedral capsid with a T=7 symmetry and a 40 nm diameter. The capsid is composed of 72 pentamers linked to each other by disulfide bonds and associated with VP2 or VP3 proteins. Interacts with terminal alpha(2,3)-linked sialic acids on the cell surface to provide virion attachment to target cell. Once attached, the virion is internalized by caveolin-mediated endocytosis and traffics to the endoplasmic reticulum. Inside the endoplasmic reticulum, the protein folding machinery isomerizes VP1 interpentamer disulfide bonds, thereby triggering initial uncoating. Next, the virion uses the endoplasmic reticulum-associated degradation machinery to probably translocate in the cytosol before reaching the nucleus. Nuclear entry of the viral DNA involves the selective exposure and importin recognition of VP2/Vp3 nuclear localization signal. In late phase of infection, neo-synthesized VP1 encapsulates replicated genomic DNA in the nucleus, and participates in rearranging nucleosomes around the viral DNA (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processCaveolin-mediated endocytosis of virus by host, Host-virus interaction, Viral attachment to host cell, Viral penetration into host cytoplasm, Virus endocytosis by host, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Major capsid protein VP1
Alternative name(s):
Major structural protein VP1
OrganismiMurine polyomavirus (strain A2) (MPyV)
Taxonomic identifieri10636 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stagePolyomaviridae
Virus hostiMus musculus (Mouse) [TaxID: 10090]
Proteomesi
  • UP000008479 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Host nucleus, T=7 icosahedral capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved; by hostBy similarity
ChainiPRO_00001150242 – 383Major capsid protein VP1Add BLAST382

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi12Interchain (with C-12)By similarity
Disulfide bondi114Interchain (with C-114)By similarity
Modified residuei357Phosphothreonine; by hostBy similarity1

Keywords - PTMi

Disulfide bond, Phosphoprotein

Expressioni

Keywords - Developmental stagei

Late protein

Interactioni

Subunit structurei

Homomultimer; disulfide-linked. The virus capsid is composed of 72 icosahedral units, each one composed of five disulfide-linked copies of VP1. Interacts with minor capsid proteins VP2 and VP3 (By similarity).By similarity

Protein-protein interaction databases

DIPiDIP-1088N.

Structurei

3D structure databases

ProteinModelPortaliP03090.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni321 – 383Intrinsically disorderedBy similarityAdd BLAST63

Domaini

The intrinsically disordered C-terminal region interacts with neighboring pentamers. The unstructured nature of this region allows to make different interactions depending on the structural context: pentamers present at the 12 icosahedral fivefold axes bind five pentamers, when pentamers present at the 60 icosahedral six-fold axes interacts with six pentamers (By similarity).By similarity

Sequence similaritiesi

Phylogenomic databases

OrthoDBiVOG090000AE.

Family and domain databases

Gene3Di2.60.175.10. 1 hit.
InterProiView protein in InterPro
IPR000662. Capsid_VP1_Polyomavir.
IPR011222. dsDNA_vir_gr_I_capsid.
PfamiView protein in Pfam
PF00718. Polyoma_coat. 1 hit.
PIRSFiPIRSF003376. Capsid_VP1_Polyomavir. 1 hit.
SUPFAMiSSF88648. SSF88648. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform VP1 (identifier: P03090-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MAPKRKSGVS KCETKCTKAC PRPAPVPKLL IKGGMEVLDL VTGPDSVTEI
60 70 80 90 100
EAFLNPRMGQ PPTPESLTEG GQYYGWSRGI NLATSDTWIP RNNTLPTWSM
110 120 130 140 150
AKSSFPCLNE DLTCDTLQMW EAVSVKTEVV GSGSLLDVHG FNKTHRFSKH
160 170 180 190 200
KGNSTPVEGS QYHVFAGGGE PLDLQGLVTD ARTKYKEEGV VTIKTITKKD
210 220 230 240 250
MVNKDQVLNP ISKAKLDKDG MYPVEIWHPD PAKNENTRYF GNYTGGTTAP
260 270 280 290 300
PVLQFTNTLT TVLLDENGVG PLCKGEGLYL SCVDIMGWRV TRNYVSSLEK
310 320 330 340 350
GFPRYFKITL RKRWVKNPYP MASLISSLFN NMLPQVQGQP MEGENTQVEE
360 370 380
VRVYDGTEPV PGDPDMTRYV DRFGKTKTVF PGN
Note: Produced by alternative splicing of the late mRNA.
Length:383
Mass (Da):42,452
Last modified:January 23, 2007 - v3
Checksum:i4339D86A900DBCBD
GO
Isoform VP2 (identifier: P03096-1) [UniParc]FASTAAdd to basket
Also known as: Minor capsid protein VP2
The sequence of this isoform can be found in the external entry P03096.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by alternative splicing of the late mRNA.
Length:319
Mass (Da):34,801
GO
Isoform VP3 (identifier: P03096-2) [UniParc]FASTAAdd to basket
Also known as: Minor capsid protein VP3
The sequence of this isoform can be found in the external entry P03096.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by alternative initiation at Met-116 of isoform VP2.
Length:204
Mass (Da):22,892
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02288 Genomic DNA. Translation: AAB59902.1.
PIRiA03628. VVVP1.

Keywords - Coding sequence diversityi

Alternative initiation, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02288 Genomic DNA. Translation: AAB59902.1.
PIRiA03628. VVVP1.

3D structure databases

ProteinModelPortaliP03090.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-1088N.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

OrthoDBiVOG090000AE.

Family and domain databases

Gene3Di2.60.175.10. 1 hit.
InterProiView protein in InterPro
IPR000662. Capsid_VP1_Polyomavir.
IPR011222. dsDNA_vir_gr_I_capsid.
PfamiView protein in Pfam
PF00718. Polyoma_coat. 1 hit.
PIRSFiPIRSF003376. Capsid_VP1_Polyomavir. 1 hit.
SUPFAMiSSF88648. SSF88648. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiVP1_POVMA
AccessioniPrimary (citable) accession number: P03090
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: January 23, 2007
Last modified: May 10, 2017
This is version 92 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.