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 NameCount
GTPase activator activity42
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
ER to Golgi vesicle-mediated transport74
Annotation ExtensionEvidenceWith/FromReference
signal transduction365
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2306
Annotation ExtensionEvidenceWith/FromReference
Golgi-associated vesicle24
Annotation ExtensionEvidenceWith/FromReference
nucleus2692
Annotation ExtensionEvidenceWith/FromReference
plasma membrane255
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
slow vegetative cell population growthSPCC1620.12cΔ357
viable vegetative cell populationSPCC1620.12cΔ3837

Cell Phenotype

Term NameGenotypesCount
viable vegetative cell with normal cell morphologySPCC1620.12cΔ3100
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2170064..2169781, 2169715..2167425, 2167358..2164463
Intron2169780..2169716, 2167424..2167359
5' UTR2170064..2169787PMID:21511999
3' 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
SSF47923 SuperFamily IPR000195 Rab-GTPase-TBC domain 358 442 13
Coil ncoils Predicted coiled-coil protein (DUF2205) 546 566 1057
Coil ncoils Predicted coiled-coil protein (DUF2205) 603 630 1057
Coil ncoils Predicted coiled-coil protein (DUF2205) 504 538 1057

View domain organization at Pfam

Protein Properties

Ave. residue weight 113.65 Da
Charge -6.50
Codon Adaptation Index 0.47
Isoelectric point 5.55
Molecular weight 72.73 kDa
Number of residues 640
Modifications

Protein Modifications

Term NameResidueCount
phosphorylated residue 1930
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for SPCC1620.12c

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.3during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999433
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4605
conserved in eukaryotes4515
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2505
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPCC1620.12c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withsts5RNB-like protein Positive GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withppk16serine/threonine protein kinase Ppk16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withmid1medial ring protein Mid1 Positive GeneticPMID:22681890
negative genetic interaction withrpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
negative genetic interaction withdsc4Golgi Dsc E3 ligase complex subunit Dsc4 Negative GeneticPMID:21504829
negative genetic interaction withask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
negative genetic interaction withsty1MAP kinase Sty1 Negative GeneticPMID:22681890
negative genetic interaction withdad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
negative genetic interaction withusp102U1 snRNP-associated protein Usp102 Negative 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)
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
Cyclebase SPCC1620.12c.1 Cell Cycle Data
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
RefSeq PeptideNP_588470GTPase activating protein (predicted)

Literature for SPCC1620.12c

Search: Europe PMC or PubMed

Release Version: PomBase:30_58 - 11 Mar 2016