SPCC1620.12c


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPCC1620.12c Feature Typeprotein coding
Synonyms Name Description
ProductGTPase activating protein (predicted) Product Size640aa, 72.73 kDa
Genomic Location Chromosome III, 2170064-2164463 (5602nt); CDS:2169786-2167799 (1988nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005097Rab GTPase activator activityISOSGD:S000006170GO_REF:000002413
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006888ER to Golgi vesicle-mediated transportISOSGD:S000006170GO_REF:000002477
GO:0032851positive regulation of Rab GTPase activityISOSGD:S000006170GO_REF:00000243
GO:0007165signal transductionNASGO_REF:0000051394
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005798Golgi-associated vesicleISOSGD:S000006170GO_REF:000002425
GO:0005829cytosolIDAPMID:168233722315
ISOSGD:S000006170GO_REF:0000024
GO:0005634nucleusIDAPMID:168233722740
GO:0005886plasma membraneISOSGD:S000006170GO_REF:0000024247
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopySPCC1620.12cΔNullPMID:204732893759
MicroscopySPCC1620.12cΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001MicroscopySPCC1620.12cΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
121700642169781
221697152167425
321673582164463

UTRs

Region Coordinates Reference
five_prime_UTR2170064..2169787PMID:21511999
three_prime_UTR2167798..2167425,2167358..2164463PMID: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
PF00566 Pfam IPR000195 Rab-GTPase-TBC domain 220 427 13
SM00164 SMART IPR000195 Rab-GTPase-TBC domain 212 431 13
PS50086 Prosite Profiles IPR000195 Rab-GTPase-TBC domain 215 408 13
PTHR22957 HMMPANTHER 46 640 12
PTHR22957:SF11 HMMPANTHER 46 640 1
SSF47923 SuperFamily IPR000195 Rab-GTPase-TBC domain 358 442 13
Coil ncoils Rabaptin coiled-coil domain 504 539 968
Coil ncoils Rabaptin coiled-coil domain 546 567 968
Coil ncoils Rabaptin coiled-coil domain 603 631 968

View domain organization at Pfam

Protein Properties

Ave. residue weight 113.65 Da
Charge -6.50
Isoelectric point 5.55
Molecular weight 72.73 kDa
Number of residues 640
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00696phosphorylated residueNASPMID:195477441922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
11879during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
12048during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
12901during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
12636during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
11678during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
593.73during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1546.12during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.3during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999432
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
ppk16serine/threonine protein kinase Ppk16 (predicted) Positive GeneticPMID:22681890
dad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
dsc4Golgi Dsc E3 ligase complex subunit Dsc3 Negative GeneticPMID:21504829
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
rpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
sty1MAP kinase Sty1 Negative GeneticPMID:22681890
sts5RNB-like protein Positive GeneticPMID:22681890
ask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
rpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
usp102U1 snRNP-associated protein Usp102 Negative GeneticPMID:22681890
mid1medial ring protein Mid1 Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPCC1620.12c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC1620.12c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC1620.12c BioGRID Interaction Datasets
Expression Viewer SPCC1620.12c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC1620.12c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC1620.12c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC1620.12c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC1620.12c Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC1620.12c Transcriptome Viewer (Bähler Lab)
Cyclebase SPCC1620.12c Cell Cycle Data
GEO SPCC1620.12c GEO profiles
PInt SPCC1620.12c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC1620.12c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC1620.12c Fission yeast phenotypic data & analysis
SPD / RIKEN45/45H04Orfeome Localization Data
UniProtKB/SwissProtO94419Putative GTPase-activating protein C1620.12c
ModBaseO94419Database of comparative protein structure models
STRINGO94419Network display of known and predicted interactions and functional associations
European Nucleotide ArchiveCAA22496.2ENA Protein Mapping
UniParcUPI000228F3FEUniProt Archive

Literature for SPCC1620.12c

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014