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Entry version 117 (12 Aug 2020)
Sequence version 1 (01 Jan 1998)
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Protein

Vacuolar morphogenesis protein 6

Gene

vam6

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score:

Annotation score:3 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>
-Protein inferred from homologyi <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

Required for vacuolar assembly. Acts as component of the HOPS complex that acts during the docking stage of vacuole fusion. HOPS is required for vacuolar SNARE complex assembly. It remains bound to SNARE complexes after vacuole fusion (By similarity).By similarity

<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%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 morphogenesis protein 6
Alternative name(s):
Vacuolar protein sorting-associated protein 39
<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:vam6
Synonyms:vps39
ORF Names:SPAC23H4.14
<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>OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
<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 identifieri284812 [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 lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
<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
  • UP000002485 <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 I

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:SPAC23H4.14

Schizosaccharomyces pombe database

More...
PomBasei
SPAC23H4.14, vam6

<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 Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Membrane, Vacuole

<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_00003726901 – 905Vacuolar morphogenesis protein 6Add BLAST905

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
O13955

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

More...
PaxDbi
O13955

PRoteomics IDEntifications database

More...
PRIDEi
O13955

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
O13955

<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 HOPS complex.

By similarity

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
278349, 1 interactor

STRING: functional protein association networks

More...
STRINGi
4896.SPAC23H4.14.1

<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>Domaini15 – 293CNHPROSITE-ProRule annotationAdd BLAST279
<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>Repeati614 – 786CHCRAdd BLAST173

<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 VAM6/VPS39 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_004190_1_1_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O13955

KEGG Orthology (KO)

More...
KOi
K20183

Identification of Orthologs from Complete Genome Data

More...
OMAi
RTIRYLQ

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O13955

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.130.10.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000547, Clathrin_H-chain/VPS_repeat
IPR001180, CNH_dom
IPR032914, Vam6/VPS39/TRAP1
IPR019452, VPS39/TGF_beta_rcpt-assoc_1
IPR019453, VPS39/TGF_beta_rcpt-assoc_2
IPR015943, WD40/YVTN_repeat-like_dom_sf
IPR036322, WD40_repeat_dom_sf

The PANTHER Classification System

More...
PANTHERi
PTHR12894, PTHR12894, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00637, Clathrin, 1 hit
PF00780, CNH, 1 hit
PF10366, Vps39_1, 1 hit
PF10367, Vps39_2, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50978, SSF50978, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50236, CHCR, 1 hit
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.

O13955-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MHRAFSLYRV LELSKARVEC VFELGGLVYV SNSNGDLDSY KIYNNEEEEA
60 70 80 90 100
ADFVMEHVDV YPNFTKKPIT KVVSCATQDI FYALSDSQVY VYQISTFKKL
110 120 130 140 150
FSFGAHCQNM CLYGDELIVL SSKKNLEIYE IQKNSKPNLT KTISLNDRPR
160 170 180 190 200
SLAWVSPTMI LVSLSNDFCA VNTETSRISS LNLAWQQSSS LGLGISYIGM
210 220 230 240 250
SIKSNKLHIT RISDDEVLLS KDSQGLLVNL KSLQVSRNPL RWPTVPQAVI
260 270 280 290 300
YNSPYIITLH NQYIYIWNKE TYAMIQQIGI SNIYSTFSCH KNTFFTSNSY
310 320 330 340 350
VWILTPEDFS NQIEALLNTE NLNEAISVLS QITVSQFPKR DYYLRITKRE
360 370 380 390 400
KALRSFSSGD YDLAMRLFSE ISESPSTVLG LFPGLLDNNY SDAISILSMA
410 420 430 440 450
PSQNESIESN VLFPGNHSNS QTDLRNGDAV STVANNKRLR SLSTYLTDSR
460 470 480 490 500
RKANRFLSYD EEHYFLQKKN LFLNADGTLV AKEKLEKIAV QIDTTLFLIY
510 520 530 540 550
MISSPALVGS LLRLPNRCET SVVETNLLSA KMYRELVEYY YGKSLHEAAL
560 570 580 590 600
DLLTKLCDEP TDTLSLKGKS NTTSKYEPIL SYLEKLSPEL DHLIFKYSRV
610 620 630 640 650
PLSEDPQNSI VIFIDENSEA STISKGVVLK YLETISYKVS IIYLEKLLLD
660 670 680 690 700
NKFNDTVFPT RLALLYLKRI LELEETTDFK NQEVFKQTIE KLEDYLTNSK
710 720 730 740 750
QYDANVVLQE INSQDEFLST VSIILYRRLS RHQDALDVYL KILNDWEGAL
760 770 780 790 800
SYCNSVYSID GETEPYYMLL AEISKNYKSG SLNILDFITK YSSRLDLNRV
810 820 830 840 850
FPLLPKNISM KSYHSLFSSQ FRQLFEELSN KETQSKLYQK RLEDLNEELT
860 870 880 890 900
KVRSEKVVIT REKTCLFCHK RLGKSVISIF PDGSVVHYGC AKKYVSSNHL

PYEAY
Length:905
Mass (Da):103,696
Last modified:January 1, 1998 - 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:i8C0FD258D4745D0E
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
CU329670 Genomic DNA Translation: CAB11668.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T38314

NCBI Reference Sequences

More...
RefSeqi
NP_593392.1, NM_001018824.2

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
SPAC23H4.14.1; SPAC23H4.14.1:pep; SPAC23H4.14

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
2541859

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
spo:SPAC23H4.14

<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
CU329670 Genomic DNA Translation: CAB11668.1
PIRiT38314
RefSeqiNP_593392.1, NM_001018824.2

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

BioGRIDi278349, 1 interactor
STRINGi4896.SPAC23H4.14.1

PTM databases

iPTMnetiO13955

Proteomic databases

MaxQBiO13955
PaxDbiO13955
PRIDEiO13955

Genome annotation databases

EnsemblFungiiSPAC23H4.14.1; SPAC23H4.14.1:pep; SPAC23H4.14
GeneIDi2541859
KEGGispo:SPAC23H4.14

Organism-specific databases

EuPathDBiFungiDB:SPAC23H4.14
PomBaseiSPAC23H4.14, vam6

Phylogenomic databases

eggNOGiKOG2063, Eukaryota
HOGENOMiCLU_004190_1_1_1
InParanoidiO13955
KOiK20183
OMAiRTIRYLQ
PhylomeDBiO13955

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O13955

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR000547, Clathrin_H-chain/VPS_repeat
IPR001180, CNH_dom
IPR032914, Vam6/VPS39/TRAP1
IPR019452, VPS39/TGF_beta_rcpt-assoc_1
IPR019453, VPS39/TGF_beta_rcpt-assoc_2
IPR015943, WD40/YVTN_repeat-like_dom_sf
IPR036322, WD40_repeat_dom_sf
PANTHERiPTHR12894, PTHR12894, 1 hit
PfamiView protein in Pfam
PF00637, Clathrin, 1 hit
PF00780, CNH, 1 hit
PF10366, Vps39_1, 1 hit
PF10367, Vps39_2, 1 hit
SUPFAMiSSF50978, SSF50978, 1 hit
PROSITEiView protein in PROSITE
PS50236, CHCR, 1 hit
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 nameiVAM6_SCHPO
<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: O13955
<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 5, 2009
Last sequence update: January 1, 1998
Last modified: August 12, 2020
This is version 117 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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal 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. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families
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