gdh2 (SPCC132.04c)


Gene Standard Namegdh2 Characterisation Statusbiological role inferred
Systematic IDSPCC132.04c Feature Typeprotein coding
Synonyms Name Description
ProductNAD-dependent glutamate dehydrogenase Gdh2 (predicted) Product Size1106aa, 125.71 kDa
Genomic Location Chromosome III, 1336197-1332569 (3629nt); CDS:1336084-1332764 (3321nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
glutamate dehydrogenase (NAD+) activity1
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
glutamate catabolic process to 2-oxoglutarate1
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
viable vegetative cell populationgdh2Δ3844

Cell Phenotype

Term NameGenotypesCount
viable vegetative cell with normal cell morphologygdh2Δ3100
Target Of
OntologyRelationshipGeneProduct
GO substrate of sst2 human AMSH/STAMBP protein homolog, ubiquitin specific-protease
GO substrate of ubp15 ubiquitin C-terminal hydrolase Ubp15
GO substrate of ubp4 ubiquitin C-terminal hydrolase Ubp4
GO substrate of ubp5 ubiquitin C-terminal hydrolase Ubp5
GO substrate of ubp9 ubiquitin C-terminal hydrolase Ubp9
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1336197..1332569
mRNA1336197..1332569
5' UTR1336197..1336085PMID:21511999
CDS1336084..1332764
3' UTR1332763..1332569PMID: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
PF05088 Pfam IPR028971 NAD-glutamate dehydrogenase 462 657 1
PF00208 Pfam IPR006096 Glutamate/phenylalanine/leucine/valine dehydrogenase, C-terminal 739 1001 2
SM00839 SMART IPR006096 Glutamate/phenylalanine/leucine/valine dehydrogenase, C-terminal 740 1003 2
PTHR11606:SF9 HMMPANTHER 77 1105 1
PTHR11606 HMMPANTHER 77 1105 2
3.40.192.10 Gene3D 596 736 6
3.40.50.720 Gene3D IPR016040 NAD(P)-binding domain 740 1024 100
SSF53223 SuperFamily 554 751 7
SSF51735 SuperFamily IPR016040 NAD(P)-binding domain 743 839 88
SSF51735 SuperFamily IPR016040 NAD(P)-binding domain 868 1038 88
PIRSF000184 PIRSF IPR016210 NAD-dependent glutamate dehydrogenase, eukaryotes 51 1106 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 113.66 Da
Charge 17.50
Codon Adaptation Index 0.47
Isoelectric point 7.84
Molecular weight 125.71 kDa
Number of residues 1106
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for gdh2 (SPCC132.04c)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
27806during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
31196during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
24711during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
26060during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
27878during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
3785.18during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
3038.59during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.5during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.74during 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)3092
conserved in fungi4606
conserved in eukaryotes4516
conserved in bacteria1002
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPCC132.04c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withhip4histone promoter control protein Hip4 Positive GeneticPMID:22681890
positive genetic interaction withppk16serine/threonine protein kinase Ppk16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withkin1microtubule affinity-regulating kinase Kin1 Positive GeneticPMID:22681890
positive genetic interaction withmph1dual specificity protein kinase Mph1 Positive GeneticPMID:22681890
positive genetic interaction withypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
negative genetic interaction withSPBC1861.07elongin C (predicted) Negative GeneticPMID:22681890
negative genetic interaction withxap5xap-5-like protein Negative GeneticPMID:24957674
negative genetic interaction witheso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Negative GeneticPMID:23050226
negative genetic interaction withdsc1Golgi Dsc E3 ligase complex subunit Dsc1 Negative GeneticPMID:21504829
negative genetic interaction withsre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:21504829
negative genetic interaction withSPAC19B12.11czinc finger protein, human ZNF593 ortholog Negative GeneticPMID:22681890
negative genetic interaction withdsc4Golgi Dsc E3 ligase complex subunit Dsc4 Negative GeneticPMID:21504829
External References
Database Identifier Description
NBRP SPCC132.04c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC132.04c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC132.04c BioGRID Interaction Datasets
Expression Viewer SPCC132.04c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC132.04c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC132.04c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC132.04c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC132.04c Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC132.04c Transcriptome Viewer (Bähler Lab)
GEO SPCC132.04c GEO profiles
PInt SPCC132.04c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC132.04c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC132.04c Fission yeast phenotypic data & analysis
Cyclebase SPCC132.04c.1 Cell Cycle Data
IntEnz1.4.1.2Integrated relational Enzyme database
Rhea1.4.1.2Annotated reactions database
SPD / RIKEN30/30D03Orfeome Localization Data
UniProtKB/SwissProtQ9USN5Probable NAD-specific glutamate dehydrogenase
ModBaseQ9USN5Database of comparative protein structure models
STRINGQ9USN5Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588149NAD-dependent glutamate dehydrogenase Gdh2 (predicted)
RefSeq mRNANM_001023138972h- NAD-dependent glutamate dehydrogenase Gdh2 (predicted) (gdh2), mRNA
European Nucleotide ArchiveCAB58131.1ENA Protein Mapping
MetaCycPWY-50224-aminobutanoate degradation V
MetaCycPWY-6728Methylaspartate cycle
MetaCycPWY-7126Ethylene biosynthesis IV
KEGG00220+1.4.1.2Arginine biosynthesis
KEGG00250+1.4.1.2Alanine, aspartate and glutamate metabolism
KEGG00430+1.4.1.2Taurine and hypotaurine metabolism
KEGG00910+1.4.1.2Nitrogen metabolism
UniParcUPI0000069BE7UniProt Archive

Literature for gdh2

Search: Europe PMC or PubMed

Release Version: PomBase:30_60 - 12 May 2016