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
glutamate metabolic process25
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2315
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopygdh2ΔNullPECO:0000005, PECO:0000137PMID:236978063759
Microscopygdh2ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001Microscopygdh2ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
113361971332569

UTRs

Region Coordinates Reference
five_prime_UTR1336197..1336085PMID:21511999
three_prime_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 Bacterial NAD-glutamate dehydrogenase 463 655 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 HMMPANTHER 39 1106 2
PTHR11606:SF2 HMMPANTHER 39 1106 1
3.40.192.10 Gene3D 596 736 6
3.40.50.720 Gene3D IPR016040 NAD(P)-binding domain 740 1024 100
SSF51735 SuperFamily 868 1038 88
SSF53223 SuperFamily 554 751 7
SSF51735 SuperFamily 743 839 88
PIRSF000184 PIRSF IPR016210 Glutamate dehydrogenase, NAD-dependent 1 1106 1

View domain organization at Pfam

Protein Properties

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

Quantitative Gene Expression

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.5during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.74during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in bacteria1000
conserved in metazoa3425
conserved in vertebrates3400
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
hip4histone promoter control protein Hip4 Positive GeneticPMID:22681890
sre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:21504829
kin1microtubule affinity-regulating kinase Kin1 Positive GeneticPMID:22681890
ppk16serine/threonine protein kinase Ppk16 (predicted) Positive GeneticPMID:22681890
mph1dual specificity protein kinase Mph1 Positive GeneticPMID:22681890
dsc4Golgi Dsc E3 ligase complex subunit Dsc3 Negative GeneticPMID:21504829
dsc1Golgi Dsc E3 ligase complex subunit Dsc1 Negative GeneticPMID:21504829
SPBC1861.07elongin C (predicted) Negative GeneticPMID:22681890
xap5xap-5-like protein Negative GeneticPMID:24957674
eso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Negative GeneticPMID:23050226
ypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
SPAC19B12.11czinc finger protein, human ZNF593 ortholog Negative GeneticPMID:22681890
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)
Cyclebase SPCC132.04c Cell Cycle Data
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
SPD / RIKEN30/30D03Orfeome Localization Data
IntEnz1.4.1.2Integrated relational Enzyme database
Rhea1.4.1.2Annotated reactions database
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
UniParcUPI0000069BE7UniProt Archive

Literature for gdh2

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014