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:000002475
GO:0032851positive regulation of Rab GTPase activityISOSGD:S000006170GO_REF:00000242
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005798Golgi-associated vesicleISOSGD:S000006170GO_REF:000002425
GO:0005829cytosolISOSGD:S000006170GO_REF:00000242317
IDAPMID:16823372
GO:0005634nucleusIDAPMID:168233722730
GO:0005886plasma membraneISOSGD:S000006170GO_REF:0000024243
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopySPCC1620.12cΔNullPMID:204732893755
MicroscopySPCC1620.12cΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphologyMicroscopySPCC1620.12cΔNullPECO:0000005, PECO:0000137PMID:236978063078
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
121700642169781
221697152167425
321673582164463

UTRs

Region Start End Reference
three_prime_UTR21673582164463PMID:21511999
five_prime_UTR21700642169787PMID:21511999
three_prime_UTR21677982167425PMID: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:SF11 HMMPANTHER 46 640 1
PTHR22957 HMMPANTHER 46 640 12
SSF47923 SuperFamily IPR000195 358 442 13
Coil ncoils Rabaptin coiled-coil domain 603 631 975
Coil ncoils Rabaptin coiled-coil domain 504 539 975
Coil ncoils Rabaptin coiled-coil domain 546 567 975
Low complexity (SEG) seg 30 45
Low complexity (SEG) seg 109 123
Low complexity (SEG) seg 186 204
Low complexity (SEG) seg 242 253

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 residuePMID:195477441192
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
1546.12during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
593.73during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
1.3during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999426
Species Distribution
DescriptionQualifierReferenceCount
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


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)
SPD / RIKEN45/45H04Orfeome Localization Data
WikiGene2538866GTPase activating protein (predicted)
EntrezGene2538866GTPase activating protein (predicted)
UniProtKB/SwissProtO94419Putative GTPase-activating protein C1620.12c
ModBaseO94419Database of comparative protein structure models
StringO94419Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588470GTPase activating protein (predicted)
RefSeq mRNANM_001023461972h- GTPase activating protein (predicted) (SPCC1620.12c), mRNA
European Nucleotide ArchiveCAA22496ENA Protein Mapping
UniParcUPI000228F3FEUniProt Archive

Literature for SPCC1620.12c

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014