vps4 (SPAC2G11.06)


Gene Standard Namevps4 Characterisation Statusbiological_role_inferred
Systematic IDSPAC2G11.06 Feature Typeprotein coding
Synonyms Name Description
ProductAAA family ATPase Vps4 (predicted) Product Size432aa, 48.40 kDa
Genomic Location Chromosome I, 817996-819739 (1744nt); CDS:818117-819650 (1534nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037557
GO:0016887ATPase activityNASGO_REF:0000051232
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0045324late endosome to vacuole transportIMPPMID:1766043939
GO:0045053protein retention in Golgi apparatusISSUniProtKB:P52917GO_REF:00000018
GO:0043328protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathwayIMPPMID:1766043915
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005737cytoplasmISSUniProtKB:P52917GO_REF:00000014201
IDAPMID:16823372
GO:0005829cytosolIDAPMID:168233722316
GO:0005768endosomeIEAUniProtKB-KW:KW-0967GO_REF:000003778
GO:0016020membraneIEAUniProtKB-KW:KW-0472GO_REF:00000371444
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000268sensitive to UV during vegetative growthcompetitive growth assay evidencevps4ΔNullPMID:20537132118
FYPO:0002060viable vegetative cell populationMicroscopyvps4ΔNullPMID:204732893730
Microscopyvps4ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001475fragmented spindle pole bodyMicroscopyvps4ΔNullPMID:226822532
FYPO:0002380viable spheroid vegetative cell37
penetrance FYPO_EXT:0000001Microscopyvps4ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
1817996818140
2818207818318
3818429818915
4818975819739

UTRs

Region Coordinates Reference
five_prime_UTR817996..818116PMID:21511999
three_prime_UTR819651..819739PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF00004 Pfam IPR003959 ATPase, AAA-type, core 165 294 32
PF09336 Pfam IPR015415 Vps4 oligomerisation, C-terminal 369 429 3
PF04212 Pfam IPR007330 MIT 7 74 1
SM00745 SMART IPR007330 MIT 3 80 1
SM00382 SMART IPR003593 AAA+ ATPase domain 161 296 70
PS00674 Prosite Patterns IPR003960 ATPase, AAA-type, conserved site 266 285 19
PTHR23074 HMMPANTHER 7 432 4
1.20.58.280 Gene3D IPR007330 MIT 1 79 2
1.10.8.60 Gene3D 303 412 35
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 122 302 288
SSF116846 SuperFamily IPR007330 MIT 1 91 2
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 124 425 294

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000539AAA family ATPaseTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000539

Protein Properties

Ave. residue weight 112.04 Da
Charge 0.50
Isoelectric point 6.70
Molecular weight 48.40 kDa
Number of residues 432
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS97PMID:217125471669
present during mitotic M phase
S97PMID:24763107
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
21115during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
21477during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
20765during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
20331during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3374.46during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
20966during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
1244.11during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
2.3during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
0.65during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
External References
Database Identifier Description
NBRP SPAC2G11.06 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC2G11.06 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC2G11.06 BioGRID Interaction Datasets
Expression Viewer SPAC2G11.06 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC2G11.06 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC2G11.06 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC2G11.06 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC2G11.06 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC2G11.06 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC2G11.06 Cell Cycle Data
GEO SPAC2G11.06 GEO profiles
PInt SPAC2G11.06 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC2G11.06 Peptides identified in tandem mass spectrometry proteomics experiments
WikiGene2542054AAA family ATPase Vps4 (predicted)
EntrezGene2542054AAA family ATPase Vps4 (predicted)
SPD / RIKEN24/24H04Orfeome Localization Data
UniProtKB/SwissProtQ09803Suppressor protein of bem1/bed5 double mutants
ModBaseQ09803Database of comparative protein structure models
STRINGQ09803Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593086AAA family ATPase Vps4 (predicted)
RefSeq mRNANM_001018484972h- AAA family ATPase Vps4 (predicted) (vps4), mRNA
European Nucleotide ArchiveAAA35347ENA Protein Mapping
European Nucleotide ArchiveAAA35347.1ENA Protein Mapping
European Nucleotide ArchiveCAA91171ENA Protein Mapping
European Nucleotide ArchiveCAA91171.1ENA Protein Mapping
UniParcUPI00001359D4UniProt Archive

Literature for vps4

Search: Europe PMC or PubMed

Release Version: PomBase:22_45 - 08 Aug 2014