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Entry version 120 (08 May 2019)
Sequence version 2 (01 Oct 2002)
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Protein

Vacuolar protein sorting-associated protein 54

Gene

vps-54

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score:

Annotation score:4 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

Acts as component of the GARP complex that is involved in retrograde transport from early and late endosomes to the trans-Golgi network (TGN). The GARP complex facilitates tethering as well as SNARE complex assembly at the Golgi.1 Publication

<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 processProtein transport, Transport

<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:
Vacuolar protein sorting-associated protein 54
<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:vps-54
ORF Names:T21C9.2
<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>OrganismiCaenorhabditis elegans
<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 identifieri6239 [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 lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditinaRhabditomorphaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
<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
  • UP000001940 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome V

Organism-specific databases

WormBase

More...
WormBasei
T21C9.2a ; CE31365 ; WBGene00006934 ; vps-54

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Golgi apparatus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Mutants are viable but display reduced brood size and enlarged lysosomes.1 Publication

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001487351 – 1058Vacuolar protein sorting-associated protein 54Add BLAST1058

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q22639

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q22639

PRoteomics IDEntifications database

More...
PRIDEi
Q22639

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q22639

<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

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
WBGene00006934 Expressed in 5 organ(s), highest expression level in germ line (C elegans)

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q22639 baseline and differential

<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

Component of the Golgi-associated retrograde protein (GARP) complex, also called VFT (VPS fifty-three) complex, composed of vps-51, vps-52, vps-53 and vps-54.1 Publication

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
44502, 5 interactors

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-365 GARP complex

Protein interaction database and analysis system

More...
IntActi
Q22639, 5 interactors

STRING: functional protein association networks

More...
STRINGi
6239.T21C9.2a

<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
Q22639

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
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

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and domains’ section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili369 – 389Sequence analysisAdd BLAST21

<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 VPS54 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2115 Eukaryota
ENOG410XQ3K LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000000583

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000154828

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q22639

KEGG Orthology (KO)

More...
KOi
K17600

Identification of Orthologs from Complete Genome Data

More...
OMAi
ERWRQVD

Database of Orthologous Groups

More...
OrthoDBi
449680at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q22639

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR039745 Vps54
IPR012501 Vps54_C
IPR019515 VPS54_N

The PANTHER Classification System

More...
PANTHERi
PTHR12965 PTHR12965, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF07928 Vps54, 1 hit
PF10475 Vps54_N, 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>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<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.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

Q22639-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKSMDDRTVG LISASSSRAS LKIQPEIGYP RICDYCQPII ELMTASEFAR
60 70 80 90 100
HIRQDHTTKE GGSFLCRYGE HGVCQKLPLE GVCDLDFEAH IRRCHTSSQP
110 120 130 140 150
AGYSSPTSSL VASYTEDSEE TASLRSIRLT SDRDTPTIEK KKFTLHSFTQ
160 170 180 190 200
NLSAVLADPS RSRSDLTTFF TRHWGDSFVP TQPVPQSKRL ARLADSAFDS
210 220 230 240 250
YCQSAGESYR RYQAIKRALR LSHADGGVGI GDERQDAEDL PTIFIDPRFT
260 270 280 290 300
LGDSSTFSDV FTVPANDDLD ALKQTLSGRN VIPATPLEIA TNRKPGEFRD
310 320 330 340 350
YEALQNRLEM MHDVVDGRLA GKLVAKTDDF WQVVRSYSGL QEQLANALQC
360 370 380 390 400
VMVVRKNLKR VDELVCDQSK KIVEVHERYE QKKKLLAKLH DISCLREAQS
410 420 430 440 450
TVQMMLSQGD YPKAIECIET SLDVLSKELN GVTCFRHLAS QLRELYTVIG
460 470 480 490 500
RMMNEDFASL IQKELGVKPE AGTMIQAEGE LSAVLLGLMR MRKYSFIAVL
510 520 530 540 550
REEIIEGVKS VMRQVIKNQI LNNGVDLNDF DPSLTQLGEP VRRMKHADFL
560 570 580 590 600
KTVKAVMDEE FYFCKRLEAL QDILLETVER ANPLHRHGSE DIIVERIEEA
610 620 630 640 650
KDIHESESDD EVGTTFSKSA SSGGFSVGGS ALSSNASATT LLSIEVRSEA
660 670 680 690 700
FLRHVLPLIA EFGHQCAQQR ISRLLIARAK NASVTEATTP TQLSECIKLV
710 720 730 740 750
KEFQSKCDKE GWYSTQNQKV GGLGRSVNKL SMDYIEKFHA ARKIRIGNML
760 770 780 790 800
DTELWKATDV SIVDQNIVDM AMETGQLRNT KRIDDGPIKK SFKRTESAVT
810 820 830 840 850
IDSTTSTSNQ IQGVIVDEEN YVVVGSSITM IQLLSDYCEA ISEMPSFSQD
860 870 880 890 900
WNSRVVELLK TFNSRCCQLI LGAGALQLVG LKTISVRNLA LAGRSLELVC
910 920 930 940 950
RFIPMVHDEM DRVLPENRKS LLRYFKQVES EYRDHVNEIA AKLISVIAHY
960 970 980 990 1000
TTNCLGMWDV KGVIPSPEFQ QICRHMLKFH NGLVGIMPRD QIEALFRQVH
1010 1020 1030 1040 1050
ENFKANLREH VTGMGITPHD PLKYGYVTKD YMFYQQNVKN MESCRNLELE

SLNDIMFE
Length:1,058
Mass (Da):119,182
Last modified:October 1, 2002 - v2
<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:iC65EF22D698C8702
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
D7SFN0D7SFN0_CAEEL
Vacuolar protein sorting-associated...
vps-54 CELE_T21C9.2, T21C9.2
749Annotation score:

Annotation score:1 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>

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
Z73098 Genomic DNA Translation: CAA97331.2

Protein sequence database of the Protein Information Resource

More...
PIRi
T25068

NCBI Reference Sequences

More...
RefSeqi
NP_001256226.1, NM_001269297.1

Genome annotation databases

Ensembl metazoan genome annotation project

More...
EnsemblMetazoai
T21C9.2a; T21C9.2a; WBGene00006934

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
179473

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cel:CELE_T21C9.2

UCSC genome browser

More...
UCSCi
T21C9.2 c. elegans

<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
Z73098 Genomic DNA Translation: CAA97331.2
PIRiT25068
RefSeqiNP_001256226.1, NM_001269297.1

3D structure databases

SMRiQ22639
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi44502, 5 interactors
ComplexPortaliCPX-365 GARP complex
IntActiQ22639, 5 interactors
STRINGi6239.T21C9.2a

PTM databases

iPTMnetiQ22639

Proteomic databases

EPDiQ22639
PaxDbiQ22639
PRIDEiQ22639

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiT21C9.2a; T21C9.2a; WBGene00006934
GeneIDi179473
KEGGicel:CELE_T21C9.2
UCSCiT21C9.2 c. elegans

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
179473
WormBaseiT21C9.2a ; CE31365 ; WBGene00006934 ; vps-54

Phylogenomic databases

eggNOGiKOG2115 Eukaryota
ENOG410XQ3K LUCA
GeneTreeiENSGT00390000000583
HOGENOMiHOG000154828
InParanoidiQ22639
KOiK17600
OMAiERWRQVD
OrthoDBi449680at2759
PhylomeDBiQ22639

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q22639

Gene expression databases

BgeeiWBGene00006934 Expressed in 5 organ(s), highest expression level in germ line (C elegans)
ExpressionAtlasiQ22639 baseline and differential

Family and domain databases

InterProiView protein in InterPro
IPR039745 Vps54
IPR012501 Vps54_C
IPR019515 VPS54_N
PANTHERiPTHR12965 PTHR12965, 1 hit
PfamiView protein in Pfam
PF07928 Vps54, 1 hit
PF10475 Vps54_N, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiVPS54_CAEEL
<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: Q22639
<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/Swiss-Prot: May 10, 2005
Last sequence update: October 1, 2002
Last modified: May 8, 2019
This is version 120 of the entry and version 2 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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

<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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
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