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Entry version 131 (26 Feb 2020)
Sequence version 2 (01 May 2007)
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Protein

Vacuolar protein sorting-associated protein 18 homolog

Gene

vps18

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score:

Annotation score:5 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 transcript 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

Plays a role in vesicle-mediated protein trafficking to lysosomal compartments including the endocytic membrane transport pathways. Believed to act as a core component of the putative HOPS endosomal tethering complex which is proposed to be involved in the Rab5-to-Rab7 endosome conversion probably implicating MON1A/B, and via binding SNAREs and SNARE complexes to mediate tethering and docking events during SNARE-mediated membrane fusion (By similarity). May be involved in vesicle trafficking to the hepatocyte apical membrane and play a role in development of the intra-hepatic biliary tree. May target endosomes to the pigment granule in melanocytes. Essential for early embryonic development.By similarity2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri853 – 948RING-typeAdd BLAST96

<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

Molecular functionDevelopmental protein
Biological processProtein transport, Transport
LigandMetal-binding, Zinc

<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%5Fand%5Ftaxonomy%5Fsection">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 18 homolog
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:vps18
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri7955 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000000437 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 20

Organism-specific databases

Zebrafish Information Network genome database

More...
ZFINi
ZDB-GENE-020419-33 vps18

<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

Endosome, Lysosome, Membrane

<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 display hepatomegaly associated with large, vesicle-filled hepatocytes. They also have defects in pigmentation with reduced numbers of melanophores and no iridophores.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_00000559041 – 974Vacuolar protein sorting-associated protein 18 homologAdd BLAST974

Proteomic databases

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

More...
PaxDbi
P59015

<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
ENSDARG00000070433 Expressed in female gonad and 28 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
P59015 baseline

<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%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the homotypic fusion and vacuole protein sorting (HOPS) complex (By similarity).

By similarity

GO - Molecular functioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
7955.ENSDARP00000094129

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section indicates the positions and types of repeated sequence motifs or repeated domains within the protein.<p><a href='/help/repeat' target='_top'>More...</a></p>Repeati618 – 772CHCRAdd BLAST155

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 coili461 – 481Sequence analysisAdd BLAST21
Coiled coili799 – 852Sequence analysisAdd BLAST54

<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 VPS18 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri853 – 948RING-typeAdd BLAST96

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2034 Eukaryota
ENOG410XRSD LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000153635

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_003488_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P59015

KEGG Orthology (KO)

More...
KOi
K20181

Identification of Orthologs from Complete Genome Data

More...
OMAi
DAWIEMG

Database of Orthologous Groups

More...
OrthoDBi
87842at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P59015

TreeFam database of animal gene trees

More...
TreeFami
TF105704

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000547 Clathrin_H-chain/VPS_repeat
IPR007810 Pep3_Vps18
IPR011990 TPR-like_helical_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00637 Clathrin, 1 hit
PF05131 Pep3_Vps18, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50236 CHCR, 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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

P59015-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MASILDQYED SQNIRQHSRM STANIGITHS GFVNVRLEEE KPIFTKQRID
60 70 80 90 100
FSPPEKINQF SVCNNQLCMS LGKDTLLRID LGKPDQPNQI ELGRKDDSKV
110 120 130 140 150
HRLFLDPTGS HLVICLTTNE CVYLNRNTQK VRGLSRWRGH LIESIGWNKL
160 170 180 190 200
IGSETNTGPI LVGTSQGIIF EAEISASEGS LFNTNPDQYF RQVHYLEEDG
210 220 230 240 250
KPAPVCCLEV ERGLETKYFI IATTRKRLFQ FVGKLAEGSE QQGFSSIFAQ
260 270 280 290 300
NQDLLPSFQE FPVNMGYSEI TFYTSKLRSR PKTFAWMMGN GVLYGQLDYV
310 320 330 340 350
RPDSLLSDVQ VWEYTQDIDL NFVKPISIVL TQFHFLLLLP DRVRGICTLN
360 370 380 390 400
GQVVHEDVFP EKFGTLQKMI KDPITGLVWI YTEKAVFRYH IQKEARDVWQ
410 420 430 440 450
MYMNMNKFDL AKEYCKDRPE CLDMVLAKEA EHCFQNKRYL ESAKCYALTQ
460 470 480 490 500
NYFEEIALKF IEAKQEEALK EFLIKKLVNL KPSEKTQITL LVTWLTELYL
510 520 530 540 550
NRLGQLEADE GKQHLFLETR EEFRTFLKSP KHKDCFYNNR STIYDLLASH
560 570 580 590 600
GDVDNMVYFS VIMQDYERVI SHYCQHDDYS AALDVLSKHC DDKLFYKFSP
610 620 630 640 650
VLMQHIPKKV VDAWIQMGNR LDPKNLIPAL VNYSQMGSMQ QINETIRYME
660 670 680 690 700
FCVYELDVKE EAIHNYLLSL YAKHKPDALL WYLEQAGTHV SDIHYDLKYA
710 720 730 740 750
LRLCSEHGYL QACVLVYKIM ELYEEAVDLA LKVDVDLAKS CADLPEDDEE
760 770 780 790 800
LRKKLWLKIA RHVVQEEKDV KKAMNCLSSC NLLKIEDILP FFPDFVTIDH
810 820 830 840 850
FKEAICSSLE EYNKHIEELK QEMEEATESA KRIREDIQEM RNKYGVVESQ
860 870 880 890 900
EKCATCDFPL LNRPFYLFLC GHMFHYDCLL QEVIPHLSVY KQNKLDELQK
910 920 930 940 950
KLAATTQTTK ARHKPREEDT VSLGKGQGSR EQIKSDIDDI IACECVYCGE
960 970
LMIKSIDKPF IDPQKFDQEM SSWL
Length:974
Mass (Da):113,267
Last modified:May 1, 2007 - 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:i05B5AE0D853BEC74
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti258 – 260FQE → SRN in AAM34648 (PubMed:12006978).Curated3
Sequence conflicti745P → S in AAM34648 (PubMed:12006978).Curated1

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
AL929049 Genomic DNA Translation: CAI20654.1
BX897725 Genomic DNA Translation: CAI11898.1
AF506204 mRNA Translation: AAM34648.1
BC086828 mRNA Translation: AAH86828.1

NCBI Reference Sequences

More...
RefSeqi
NP_775352.2, NM_173245.2

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSDART00000103352; ENSDARP00000094129; ENSDARG00000070433

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
100005887

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
dre:100005887

<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
AL929049 Genomic DNA Translation: CAI20654.1
BX897725 Genomic DNA Translation: CAI11898.1
AF506204 mRNA Translation: AAM34648.1
BC086828 mRNA Translation: AAH86828.1
RefSeqiNP_775352.2, NM_173245.2

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000094129

Proteomic databases

PaxDbiP59015

Genome annotation databases

EnsembliENSDART00000103352; ENSDARP00000094129; ENSDARG00000070433
GeneIDi100005887
KEGGidre:100005887

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
57617
ZFINiZDB-GENE-020419-33 vps18

Phylogenomic databases

eggNOGiKOG2034 Eukaryota
ENOG410XRSD LUCA
GeneTreeiENSGT00940000153635
HOGENOMiCLU_003488_1_0_1
InParanoidiP59015
KOiK20181
OMAiDAWIEMG
OrthoDBi87842at2759
PhylomeDBiP59015
TreeFamiTF105704

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P59015

Gene expression databases

BgeeiENSDARG00000070433 Expressed in female gonad and 28 other tissues
ExpressionAtlasiP59015 baseline

Family and domain databases

Gene3Di1.25.40.10, 1 hit
InterProiView protein in InterPro
IPR000547 Clathrin_H-chain/VPS_repeat
IPR007810 Pep3_Vps18
IPR011990 TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF00637 Clathrin, 1 hit
PF05131 Pep3_Vps18, 1 hit
PROSITEiView protein in PROSITE
PS50236 CHCR, 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 nameiVPS18_DANRE
<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: P59015
Secondary accession number(s): Q5SPB8
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: May 1, 2007
Last modified: February 26, 2020
This is version 131 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 programChordata Protein Annotation Program

<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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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