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 NameCount
ATP binding559
Annotation ExtensionEvidenceWith/FromReference
ATPase activity239
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytoplasm4209
Annotation ExtensionEvidenceWith/FromReference
cytosol2306
Annotation ExtensionEvidenceWith/FromReference
endosome79
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
decreased sporulation frequencyvps4Δ101
sensitive to UV during vegetative growthvps4Δ148
viable vegetative cell populationvps4Δ3831

Cell Phenotype

Term NameGenotypesCount
abnormal cell separation after cytokinesis resulting in septated cellvps4Δ20
abnormal sporulation resulting in formation of ascus with more or fewer than four sporesvps4Δ95
fragmented spindle pole bodyvps4Δ2
misoriented septum during vegetative growthvps4Δ29
viable spheroid vegetative cellvps4Δ51

FYPO Multi-allele Phenotypes

Cell Phenotype

Term NameGenotypes
abnormal cell separation after cytokinesis resulting in septated cellvps4Δ, plo1-ts35
vps4Δ, ark1-T8
ark1-T11, vps4Δ
vps4Δ, clp1Δ
abolished septum formationark1-T11, vps4Δ
vps4Δ, plo1-ts35
mislocalized septum during vegetative growthvps4Δ, plo1-ts35
vps4Δ, ark1-T8
vps4Δ, clp1Δ
ark1-T11, vps4Δ
misoriented septum during vegetative growthark1-T11, vps4Δ
vps4Δ, ark1-T8
vps4Δ, plo1-ts35
vps4Δ, clp1Δ
multiseptate vegetative cellark1-T11, vps4Δ
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons817996..818140, 818207..818318, 818429..818915, 818975..819739
Intron818141..818206, 818319..818428, 818916..818974
5' UTR817996..818116PMID:21511999
3' 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
PF04212 Pfam IPR007330 MIT 7 71 1
PF09336 Pfam IPR015415 Vps4 oligomerisation, C-terminal 370 429 4
SM00382 SMART IPR003593 AAA+ ATPase domain 161 296 70
SM00745 SMART IPR007330 MIT 3 80 1
PS00674 Prosite Patterns IPR003960 ATPase, AAA-type, conserved site 266 285 19
PTHR23074 HMMPANTHER 1 365 4
PTHR23074 HMMPANTHER 381 432 4
PTHR23074:SF83 HMMPANTHER 1 365 1
PTHR23074:SF83 HMMPANTHER 381 432 1
1.10.8.60 Gene3D RNA polymerase sigma factor 54 interaction domain 303 412 35
1.20.58.280 Gene3D IPR007330 MIT 1 79 2
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

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
Codon Adaptation Index 0.40
Isoelectric point 6.70
Molecular weight 48.40 kDa
Number of residues 432
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS97 1675
present during mitotic M phaseS97
Annotation ExtensionEvidenceResidueReference
experimental evidence S97 PMID:24763107
present during mitotic M phase experimental evidence S97 PMID:21712547
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for vps4 (SPAC2G11.06)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.3during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.65during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3090
conserved in fungi4604
conserved in eukaryotes4514
conserved in metazoa3422
conserved in vertebrates3397
conserved in eukaryotes only2504
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Load gene that interact genetically with SPAC2G11.06 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
overexpression causes growth defect toark1aurora-B kinase Ark1 Dosage Growth DefectPMID:25356547
overexpression causes growth defect toclp1Cdc14-related protein phosphatase Clp1/Flp1 Dosage Growth DefectPMID:25356547
overexpression causes growth defect toplo1Polo kinase Plo1 Dosage Growth DefectPMID:25356547
enhances phenotype ofark1aurora-B kinase Ark1 Phenotypic EnhancementPMID:25356547
enhances phenotype ofplo1Polo kinase Plo1 Phenotypic EnhancementPMID:25356547
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)
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
SYSGRO SPAC2G11.06 Fission yeast phenotypic data & analysis
Cyclebase SPAC2G11.06.1 Cell Cycle Data
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 ArchiveCU329670ENA EMBL mapping
European Nucleotide ArchiveL33456ENA EMBL mapping
European Nucleotide ArchiveAAA35347ENA Protein Mapping
European Nucleotide ArchiveCAA91171ENA Protein Mapping
UniParcUPI00001359D4UniProt Archive

Literature for vps4

Search: Europe PMC or PubMed

Release Version: PomBase:30_57 - 27 Jan 2016