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:0000037559
GO:0016887ATPase activityNASGO_REF:0000051233
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0045324late endosome to vacuole transportIMPPMID:1766043940
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:00000014198
IDAPMID:16823372
GO:0005829cytosolIDAPMID:168233722317
GO:0005768endosomeIEAUniProtKB-KW:KW-0967GO_REF:000003777
GO:0016020membraneIEAUniProtKB-KW:KW-0472GO_REF:00000371439
GO:0005634nucleusIDAPMID:168233722730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000268sensitive to UV during vegetative growthcompetitive growth assay evidencevps4ΔNullPMID:2053713282
FYPO:0002060viable vegetative cell populationMicroscopyvps4ΔNullPECO:0000005, PECO:0000137PMID:236978063755
Microscopyvps4ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001475fragmented spindle pole bodyMicroscopyvps4ΔNullPMID:226822532
FYPO:0002380viable spheroid vegetative cellMicroscopyvps4ΔNullPECO:0000005, PECO:0000137PMID:2369780633
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
1817996818140
2818207818318
3818429818915
4818975819739

UTRs

Region Start End Reference
three_prime_UTR819651819739PMID:21511999
five_prime_UTR817996818116PMID: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
PF04212 Pfam IPR007330 MIT 7 74 1
PF09336 Pfam IPR015415 Vps4 oligomerisation, C-terminal 369 429 3
PF00004 Pfam IPR003959 ATPase, AAA-type, core 165 294 32
SM00745 SMART IPR007330 MIT 3 80 1
SM00382 SMART IPR003593 AAA+ ATPase domain 161 296 73
PS00674 Prosite Patterns IPR003960 ATPase, AAA-type, conserved site 266 285 19
PTHR23074 HMMPANTHER 1 432 4
G3DSA:1.10.8.60 Gene3D 303 412 35
G3DSA:1.20.58.280 Gene3D 1 79 2
G3DSA:3.40.50.300 Gene3D 122 302 279
SSF52540 SuperFamily IPR027417 124 425 294
SSF116846 SuperFamily 1 91 2
Low complexity (SEG) seg 235 247

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
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3374.46during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1244.11during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.65during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
2.3during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
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)
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 ArchiveCAA91171ENA Protein Mapping
UniParcUPI00001359D4UniProt Archive

Literature for vps4

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014