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Entry version 86 (16 Oct 2019)
Sequence version 1 (01 May 1997)
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Protein

Capsid protein VP1

Gene

VP1

Organism
JC polyomavirus (JCPyV) (JCV)
Status
Unreviewed-Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Forms an icosahedral capsid with a T=7 symmetry.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei131GalactoseCombined sources1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processHost-virus interaction, Viral attachment to host cellUniRule annotation, Virus entry into host cell

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Capsid protein VP1UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:VP1Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiJC polyomavirus (JCPyV) (JCV)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri10632 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiVirusesPolyomaviridaeBetapolyomavirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiHomo sapiens (Human) [TaxID: 9606]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Host nucleusUniRule annotation, T=7 icosahedral capsid proteinUniRule annotation, Virion

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Keywords - Developmental stagei

Late proteinUniRule annotation

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homomultimer.

UniRule annotation

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P90498

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni60 – 61N-acetyl-D-galactosamine bindingCombined sources2
Regioni61 – 62Galactose bindingCombined sources2

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the polyomaviruses coat protein VP1 family.UniRule annotation

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.60.175.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000662 Capsid_VP1_Polyomavir
IPR011222 dsDNA_vir_gr_I_capsid
IPR036931 Polyomavir_VP1_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00718 Polyoma_coat, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF003376 Capsid_VP1_Polyomavir, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF88648 SSF88648, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P90498-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAPTKRKGER KDPVQVPKLL IRGGVEVLEV KTGVDSITEV ECFLTPEMGD
60 70 80 90 100
PDEHLRGFSK SISISDTFES DSPNKDMLPC YSVARIPLPN LNEDLTCGNI
110 120 130 140 150
LMWEAVTLKT EVIGVTTLMN VHSNGQATHD NGAAKPVQGT SFHFFSVGGE
160 170 180 190 200
ALELQGVVFN YRTTYPDGTI FPKNATVQSQ VMNTEHKAYL DKNKAYPVEC
210 220 230 240 250
WVPDPTRNEN TRYFGTLTGG ENVPPVLHIT NTATTVLLDE FGVGPLCKGD
260 270 280 290 300
NLYLSAVDVC GMFTNRSGSQ QWRGLSRYFK VQLRKRRVKN PYPISFLLTD
310 320 330 340 350
LINRRTPRVD GQPMYGMDAQ IEEVRVFEGT EQLPGDPDMM RYVDRYGQLQ

TKML
Length:354
Mass (Da):39,609
Last modified:May 1, 1997 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i3404B551E2387ABD
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
U73500 Genomic DNA Translation: AAB41705.1
U73501 Genomic DNA Translation: AAB41711.1
U73502 Genomic DNA Translation: AAB41717.1
AF295731 Genomic DNA Translation: AAG34667.1
AF295732 Genomic DNA Translation: AAG34673.1
AF295735 Genomic DNA Translation: AAK28472.1
AY382187 Genomic DNA Translation: AAQ88264.1
AY382188 Genomic DNA Translation: AAQ88270.1
AY328376 Genomic DNA Translation: AAR02457.1
AY342299 Genomic DNA Translation: AAR02463.1
AY349147 Genomic DNA Translation: AAR06661.1
AY356539 Genomic DNA Translation: AAR13659.1
AY373463 Genomic DNA Translation: AAR32743.1
AY378084 Genomic DNA Translation: AAR89187.1
AY378085 Genomic DNA Translation: AAR89193.1
AY378086 Genomic DNA Translation: AAR89199.1
AY378087 Genomic DNA Translation: AAR89205.1
AY382185 Genomic DNA Translation: AAR89217.1
AY382186 Genomic DNA Translation: AAR89223.1
AY386373 Genomic DNA Translation: AAR89229.1
AY386374 Genomic DNA Translation: AAR89235.1
AY386375 Genomic DNA Translation: AAR89241.1
AY386376 Genomic DNA Translation: AAR89247.1
AY386377 Genomic DNA Translation: AAR89253.1
AY376828 Genomic DNA Translation: AAR89265.1
AY376830 Genomic DNA Translation: AAR89277.1
AY376831 Genomic DNA Translation: AAR89283.1
DQ875211 Genomic DNA Translation: ABH10586.1
AB048547 Genomic DNA Translation: BAB68785.1
AB126981 Genomic DNA Translation: BAE02890.1
AB126982 Genomic DNA Translation: BAE02896.1
AB126983 Genomic DNA Translation: BAE02902.1
AB126985 Genomic DNA Translation: BAE02914.1
AB126986 Genomic DNA Translation: BAE02920.1
AB126990 Genomic DNA Translation: BAE02944.1
AB126993 Genomic DNA Translation: BAE02962.1
AB126994 Genomic DNA Translation: BAE02968.1
AB126995 Genomic DNA Translation: BAE02974.1
AB126996 Genomic DNA Translation: BAE02980.1
AB126997 Genomic DNA Translation: BAE02986.1
AB126998 Genomic DNA Translation: BAE02992.1
AB126999 Genomic DNA Translation: BAE02998.1
AB127001 Genomic DNA Translation: BAE03010.1
AB127002 Genomic DNA Translation: BAE03016.1
AB127003 Genomic DNA Translation: BAE03022.1
AB127004 Genomic DNA Translation: BAE03028.1
AB127005 Genomic DNA Translation: BAE03034.1
AB127006 Genomic DNA Translation: BAE03040.1
AB127007 Genomic DNA Translation: BAE03046.1
AB127008 Genomic DNA Translation: BAE03052.1
AB127009 Genomic DNA Translation: BAE03058.1
AB127010 Genomic DNA Translation: BAE03064.1
AB127011 Genomic DNA Translation: BAE03070.1
AB127012 Genomic DNA Translation: BAE03076.1
AB127013 Genomic DNA Translation: BAE03082.1
AB127014 Genomic DNA Translation: BAE03088.1
AB127015 Genomic DNA Translation: BAE03094.1
AB127016 Genomic DNA Translation: BAE03100.1
AB127017 Genomic DNA Translation: BAE03106.1
AB127018 Genomic DNA Translation: BAE03112.1
AB127026 Genomic DNA Translation: BAE03160.1
AB127027 Genomic DNA Translation: BAE03166.1

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U73500 Genomic DNA Translation: AAB41705.1
U73501 Genomic DNA Translation: AAB41711.1
U73502 Genomic DNA Translation: AAB41717.1
AF295731 Genomic DNA Translation: AAG34667.1
AF295732 Genomic DNA Translation: AAG34673.1
AF295735 Genomic DNA Translation: AAK28472.1
AY382187 Genomic DNA Translation: AAQ88264.1
AY382188 Genomic DNA Translation: AAQ88270.1
AY328376 Genomic DNA Translation: AAR02457.1
AY342299 Genomic DNA Translation: AAR02463.1
AY349147 Genomic DNA Translation: AAR06661.1
AY356539 Genomic DNA Translation: AAR13659.1
AY373463 Genomic DNA Translation: AAR32743.1
AY378084 Genomic DNA Translation: AAR89187.1
AY378085 Genomic DNA Translation: AAR89193.1
AY378086 Genomic DNA Translation: AAR89199.1
AY378087 Genomic DNA Translation: AAR89205.1
AY382185 Genomic DNA Translation: AAR89217.1
AY382186 Genomic DNA Translation: AAR89223.1
AY386373 Genomic DNA Translation: AAR89229.1
AY386374 Genomic DNA Translation: AAR89235.1
AY386375 Genomic DNA Translation: AAR89241.1
AY386376 Genomic DNA Translation: AAR89247.1
AY386377 Genomic DNA Translation: AAR89253.1
AY376828 Genomic DNA Translation: AAR89265.1
AY376830 Genomic DNA Translation: AAR89277.1
AY376831 Genomic DNA Translation: AAR89283.1
DQ875211 Genomic DNA Translation: ABH10586.1
AB048547 Genomic DNA Translation: BAB68785.1
AB126981 Genomic DNA Translation: BAE02890.1
AB126982 Genomic DNA Translation: BAE02896.1
AB126983 Genomic DNA Translation: BAE02902.1
AB126985 Genomic DNA Translation: BAE02914.1
AB126986 Genomic DNA Translation: BAE02920.1
AB126990 Genomic DNA Translation: BAE02944.1
AB126993 Genomic DNA Translation: BAE02962.1
AB126994 Genomic DNA Translation: BAE02968.1
AB126995 Genomic DNA Translation: BAE02974.1
AB126996 Genomic DNA Translation: BAE02980.1
AB126997 Genomic DNA Translation: BAE02986.1
AB126998 Genomic DNA Translation: BAE02992.1
AB126999 Genomic DNA Translation: BAE02998.1
AB127001 Genomic DNA Translation: BAE03010.1
AB127002 Genomic DNA Translation: BAE03016.1
AB127003 Genomic DNA Translation: BAE03022.1
AB127004 Genomic DNA Translation: BAE03028.1
AB127005 Genomic DNA Translation: BAE03034.1
AB127006 Genomic DNA Translation: BAE03040.1
AB127007 Genomic DNA Translation: BAE03046.1
AB127008 Genomic DNA Translation: BAE03052.1
AB127009 Genomic DNA Translation: BAE03058.1
AB127010 Genomic DNA Translation: BAE03064.1
AB127011 Genomic DNA Translation: BAE03070.1
AB127012 Genomic DNA Translation: BAE03076.1
AB127013 Genomic DNA Translation: BAE03082.1
AB127014 Genomic DNA Translation: BAE03088.1
AB127015 Genomic DNA Translation: BAE03094.1
AB127016 Genomic DNA Translation: BAE03100.1
AB127017 Genomic DNA Translation: BAE03106.1
AB127018 Genomic DNA Translation: BAE03112.1
AB127026 Genomic DNA Translation: BAE03160.1
AB127027 Genomic DNA Translation: BAE03166.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4X0YX-ray1.70A/B/C/D/E23-290[»]
4X0ZX-ray1.85A/B/C/D/E23-290[»]
4X10X-ray1.90A/B/C/D/E23-290[»]
4X11X-ray2.30A/B/C/D/E23-290[»]
4X12X-ray1.90A/B/C/D/E23-290[»]
4X13X-ray2.00A/B/C/D/E23-290[»]
SMRiP90498
ModBaseiSearch...
PDBe-KBiSearch...

Family and domain databases

Gene3Di2.60.175.10, 1 hit
InterProiView protein in InterPro
IPR000662 Capsid_VP1_Polyomavir
IPR011222 dsDNA_vir_gr_I_capsid
IPR036931 Polyomavir_VP1_sf
PfamiView protein in Pfam
PF00718 Polyoma_coat, 1 hit
PIRSFiPIRSF003376 Capsid_VP1_Polyomavir, 1 hit
SUPFAMiSSF88648 SSF88648, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiP90498_POVJC
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P90498
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: May 1, 1997
Last sequence update: May 1, 1997
Last modified: October 16, 2019
This is version 86 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structureCombined sources, Complete proteomeImported
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