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Entry version 66 (12 Aug 2020)
Sequence version 2 (12 Apr 2017)
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Protein

Vacuolar sorting protein 3

Gene

VPS3

Organism
Arabidopsis thaliana (Mouse-ear cress)
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

Essential protein required during embryogenesis. Believed to act as a component of the putative class C core vacuole/endosome tethering (CORVET) endosomal tethering complexes. CORVET is required for vacuolar transport of SYP22. Involved in root development (PubMed:29463724). Plays a role in vesicle-mediated protein trafficking of the endocytic membrane transport pathway (By similarity).By similarity1 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 - 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%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 sorting protein 31 Publication
<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:VPS31 Publication
Ordered Locus Names:At1g22860Imported
ORF Names:F19G10.18Imported
<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>OrganismiArabidopsis thaliana (Mouse-ear cress)
<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 identifieri3702 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<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
  • UP000006548 <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 1

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G22860

The Arabidopsis Information Resource

More...
TAIRi
locus:2017714, AT1G22860

<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 Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Endosome, 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

Embryonic lethality (PubMed:29463724). Heterozygous mutants produce some yellowish seeds with developmentally retarded or abnormally shaped embryos. Conditional dexamethasone (DEX)-inducible mutants exhibit abnormal root morphology (PubMed:29463724).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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004443091 – 984Vacuolar sorting protein 3Add BLAST984

Proteomic databases

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

More...
PaxDbi
F4I312

PRoteomics IDEntifications database

More...
PRIDEi
F4I312

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
242778

<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

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
F4I312, 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%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 class C core vacuole/endosome tethering (CORVET) complex. Their common core is composed of the class C Vps core proteins VPS11, VCL1, VPS18 and VPS33, which in CORVET further associates with VPS3 (PubMed:29463724).

Interacts directly with VPS11. Binds to RABF2A and RABF2B (PubMed:29463724).

1 Publication

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
3702.AT1G22860.1

<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 <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini21 – 339CNHPROSITE-ProRule annotationAdd BLAST319
<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>Repeati663 – 844CHCRPROSITE-ProRule annotationAdd BLAST182

<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 TRAP1 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2063, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_009467_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
F4I312

KEGG Orthology (KO)

More...
KOi
K20177

Identification of Orthologs from Complete Genome Data

More...
OMAi
HTHCAAN

Database of Orthologous Groups

More...
OrthoDBi
682722at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
F4I312

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000547, Clathrin_H-chain/VPS_repeat
IPR001180, CNH_dom
IPR011047, Quinoprotein_ADH-like_supfam
IPR032914, Vam6/VPS39/TRAP1
IPR019452, VPS39/TGF_beta_rcpt-assoc_1
IPR019453, VPS39/TGF_beta_rcpt-assoc_2

The PANTHER Classification System

More...
PANTHERi
PTHR12894, PTHR12894, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00637, Clathrin, 1 hit
PF10366, Vps39_1, 1 hit
PF10367, Vps39_2, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50998, SSF50998, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50219, CNH, 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.

F4I312-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSKSRAVVEL TARFDLGGDD KIRALSLSPI SDSQTLVYLG TYSGSLILLS
60 70 80 90 100
LDTLTNTVSR LASVSLSPSP VESIFVLGEE RGRVLALCNG YLFLLDSLLS
110 120 130 140 150
QPAKRLGGLL KGINVIAKRV RGRDSSSTDL LPSEISTDSS SSKKFLQLLG
160 170 180 190 200
AGNLVSDVRG NDSRHERVQQ GHYVFAVAIG ERMLLIELQC AEKEGLSGSF
210 220 230 240 250
VVLKEILGIG GIKTLVWLDD YVIAGTVKGY SLISCVTGLS GVIFTLPDVS
260 270 280 290 300
GPPLLKLLCK EWKVLLLVDN VGVVVDTNGQ PIGGSLVFRR RPDSVGELSF
310 320 330 340 350
YLVTVGDGKM EIHQKKSGAC VQSVSFGPQG CGPSLLAADE AGDGNLLVVT
360 370 380 390 400
TLSKLIFYRR VPYEEQIKDL LRKKRYRETI SLVEELDSQG EISKDMLSFL
410 420 430 440 450
HAQIGYLLLF DLRFEEAVNQ FLKSEKMEPS EVFPFIMRDP NRWSLVVPRN
460 470 480 490 500
RYWGLHPPPA PFEDVVDNGL MAIQRANFLR KAGMDTPVDE EFFSDPPSRA
510 520 530 540 550
DLLDSAIKNI TRYLEISREK GLTLPVREGI DTLLMLLYRA LNRVEDMENL
560 570 580 590 600
ASSGNNCVVE ELETLLTESG HLRTLAFLYA TKGMGAKALA IWRLFTKNYS
610 620 630 640 650
SGLWQDSDDL VPYLHDNELI RLSGKEAAAA EAARILEEPC DPELALQHLS
660 670 680 690 700
WIADVNPLFA IQVLTSDKRT EELSPEQVIQ AIDPKKVEII QRYFQWLIEE
710 720 730 740 750
RDYTDPQLHT SYALSLARSA LECVEVQNGI QEADVPNGSE AHDSNVGSIS
760 770 780 790 800
LFEVDVRERL QAFLQSSDLY DPEEILELVE GSELWLEKAI LYRRIGKETL
810 820 830 840 850
VLQILALKLE DCAAAEQYCV EIGRPDAFMQ LLDMYLDPQN GKEPMFKAAV
860 870 880 890 900
RLLHNHGESL DPLQVLDKLS PDMPLKLASD TILRMLRARV HHHRQGQIVH
910 920 930 940 950
NISRALDVDS RLARLEERSR HMQINDESLC DSCYARLGTK LFAMYPDDTI
960 970 980
VCYKCYRRLG ESKSVTGRDF KRDVLIKPGW LVNR
Length:984
Mass (Da):109,906
Last modified:April 12, 2017 - 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:iF0088DC86812944F
GO

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAB72173 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence BAF01039 differs from that shown. Reason: Frameshift.Curated
The sequence BAF01039 differs from that shown. Reason: Erroneous initiation. Truncated N-terminus.Curated

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AF000657 Genomic DNA Translation: AAB72173.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE30297.2
AK229169 mRNA Translation: BAF01039.1 Sequence problems.

Protein sequence database of the Protein Information Resource

More...
PIRi
E86362

NCBI Reference Sequences

More...
RefSeqi
NP_001319063.1, NM_001332561.1

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT1G22860.1; AT1G22860.1; AT1G22860

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
838891

Gramene; a comparative resource for plants

More...
Gramenei
AT1G22860.1; AT1G22860.1; AT1G22860

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT1G22860

<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
AF000657 Genomic DNA Translation: AAB72173.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE30297.2
AK229169 mRNA Translation: BAF01039.1 Sequence problems.
PIRiE86362
RefSeqiNP_001319063.1, NM_001332561.1

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

STRINGi3702.AT1G22860.1

Proteomic databases

PaxDbiF4I312
PRIDEiF4I312
ProteomicsDBi242778

Genome annotation databases

EnsemblPlantsiAT1G22860.1; AT1G22860.1; AT1G22860
GeneIDi838891
GrameneiAT1G22860.1; AT1G22860.1; AT1G22860
KEGGiath:AT1G22860

Organism-specific databases

AraportiAT1G22860
TAIRilocus:2017714, AT1G22860

Phylogenomic databases

eggNOGiKOG2063, Eukaryota
HOGENOMiCLU_009467_0_0_1
InParanoidiF4I312
KOiK20177
OMAiHTHCAAN
OrthoDBi682722at2759
PhylomeDBiF4I312

Miscellaneous databases

Protein Ontology

More...
PROi
PR:F4I312

Gene expression databases

ExpressionAtlasiF4I312, baseline and differential

Family and domain databases

InterProiView protein in InterPro
IPR000547, Clathrin_H-chain/VPS_repeat
IPR001180, CNH_dom
IPR011047, Quinoprotein_ADH-like_supfam
IPR032914, Vam6/VPS39/TRAP1
IPR019452, VPS39/TGF_beta_rcpt-assoc_1
IPR019453, VPS39/TGF_beta_rcpt-assoc_2
PANTHERiPTHR12894, PTHR12894, 1 hit
PfamiView protein in Pfam
PF00637, Clathrin, 1 hit
PF10366, Vps39_1, 1 hit
PF10367, Vps39_2, 1 hit
SUPFAMiSSF50998, SSF50998, 1 hit
PROSITEiView protein in PROSITE
PS50219, CNH, 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 nameiVPS3_ARATH
<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: F4I312
Secondary accession number(s): O23136, Q0WPB0
<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: May 23, 2018
Last sequence update: April 12, 2017
Last modified: August 12, 2020
This is version 66 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 programPlant 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. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families
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