vps52 (SPBC336.11)


Gene Standard Namevps52 Characterisation Statusbiological_role_inferred
Systematic IDSPBC336.11 Feature Typeprotein coding
Synonyms Name Description
ProductGARP complex subunit Vps52 (predicted) Product Size508aa, 58.38 kDa
Genomic Location Chromosome II, 2759472-2761211 (1740nt); CDS:2759639-2761165 (1527nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006896Golgi to vacuole transportISOSGD:S000002892GO_REF:000002418
GO:0030029actin filament-based processISOSGD:S000002892GO_REF:0000024100
GO:0006886intracellular protein transportICGO:0042147GO_REF:0000001330
GO:0042147retrograde transport, endosome to GolgiISOSGD:S000002892GO_REF:000002423
GO:0016192vesicle-mediated transportISOSGD:S000002892GO_REF:0000024296
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000938GARP complexISOSGD:S000002892GO_REF:00000244
GO:0005794Golgi apparatusIDAPMID:16823372355
GO:0016020membraneIEAUniProtKB-KW:KW-0472GO_REF:00000371442
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyvps52ΔNullPMID:204732891315
Microscopyvps52ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000054abnormal microtubule cytoskeleton organizationnot recorded (overexpression)PMID:1579792549
FYPO:0002148inviable after spore germination, multiple cell divisions, abnormal morphology185
expressivity FYPO_EXT:0000003Microscopyvps52ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
127594722761211

UTRs

Region Coordinates Reference
five_prime_UTR2759472..2759638PMID:21511999
three_prime_UTR2761166..2761211PMID: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
PF04129 Pfam IPR007258 Vps52/Sac2 1 508 1
PTHR14190 HMMPANTHER IPR007258 Vps52/Sac2 18 507 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.93 Da
Charge 6.50
Isoelectric point 7.99
Molecular weight 58.38 kDa
Number of residues 508
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
843during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
878during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
1076during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
NDduring GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.39during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
2during GO:0072690PECO:0000014,
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


External References
Database Identifier Description
NBRP SPBC336.11 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC336.11 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC336.11 BioGRID Interaction Datasets
Expression Viewer SPBC336.11 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC336.11 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC336.11 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC336.11 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC336.11 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC336.11 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC336.11 Cell Cycle Data
GEO SPBC336.11 GEO profiles
PInt SPBC336.11 Protein-Protein Interaction Predictor (Bähler Lab)
EntrezGene2540233GARP complex subunit Vps52 (predicted)
WikiGene2540233GARP complex subunit Vps52 (predicted)
SPD / RIKEN44/44H03Orfeome Localization Data
UniProtKB/SwissProtQ9UST3Vacuolar protein sorting-associated protein 52
ModBaseQ9UST3Database of comparative protein structure models
STRINGQ9UST3Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596131GARP complex subunit Vps52 (predicted)
RefSeq mRNANM_001022049972h- GARP complex subunit Vps52 (predicted) (SPBC336.11), mRNA
European Nucleotide ArchiveCAB58163ENA Protein Mapping
European Nucleotide ArchiveCAB58163.1ENA Protein Mapping
UniParcUPI000006A056UniProt Archive

Literature for vps52

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014