idp1 (SPAC6G10.08)


Gene Standard Nameidp1 Characterisation Statusbiological_role_inferred
Systematic IDSPAC6G10.08 Feature Typeprotein coding
Synonyms Name Description
Productisocitrate dehydrogenase Idp1 (predicted) Product Size439aa, 49.48 kDa
Genomic Location Chromosome I, 3231335-3232976 (1642nt); CDS:3231536-3232855 (1320nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
isocitrate dehydrogenase (NADP+) activity1
Annotation ExtensionEvidenceWith/FromReference
magnesium ion binding45
Annotation ExtensionEvidenceWith/FromReference
NAD binding23
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
glutamate biosynthetic process8
Annotation ExtensionEvidenceWith/FromReference
isocitrate metabolic process3
Annotation ExtensionEvidenceWith/FromReference
NADPH regeneration4
Annotation ExtensionEvidenceWith/FromReference
tricarboxylic acid cycle16
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4209
Annotation ExtensionEvidenceWith/FromReference
mitochondrion761
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
viable vegetative cell populationidp1ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
viable vegetative cell with normal cell morphologyidp1ΔNull3094
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3231335..3232976
mRNA3231335..3232976
5' UTR3231335..3231535PMID:21511999
CDS3231536..3232855
3' UTR3232856..3232976AU007332
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
PF00180 Pfam IPR024084 Isopropylmalate dehydrogenase-like domain 37 427 5
PS00470 Prosite Patterns IPR019818 Isocitrate/isopropylmalate dehydrogenase, conserved site 302 321 5
PTHR11822 HMMPANTHER IPR004790 Isocitrate dehydrogenase NADP-dependent 15 439 1
3.40.718.10 Gene3D IPR024084 Isopropylmalate dehydrogenase-like domain 34 434 5
SSF53659 SuperFamily 32 434 5
PIRSF000108 PIRSF IPR004790 Isocitrate dehydrogenase NADP-dependent 14 438 1
TIGR00127 tigrfam IPR004790 Isocitrate dehydrogenase NADP-dependent 33 435 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.71 Da
Charge 14.00
Isoelectric point 9.38
Molecular weight 49.48 kDa
Number of residues 439
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
130892during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
133541during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
123487during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
125464during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
123752during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
37620.97during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
22767.82during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
13during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
1.8during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
cancercancer_census142
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999433
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4603
conserved in eukaryotes4514
conserved in bacteria1001
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withamk2AMP-activated protein kinase beta subunit Amk2 Negative GeneticPMID:22681890
negative genetic interaction witharp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
positive genetic interaction withcgi121EKC/KEOPS complex subunit Cgi121 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withckb2CK2 family regulatory subunit Ckb2 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withcpd1tRNA (m1A) methyltransferase complex catalytic subunit Cpd1 Positive GeneticPMID:22681890
negative genetic interaction withcph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
negative genetic interaction withcsn1COP9/signalosome complex subunit Csn1 Negative GeneticPMID:22681890
negative genetic interaction withcsn3COP9/signalosome complex subunit Csn3 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcsn4COP9/signalosome complex subunit Csn4 Negative GeneticPMID:22681890
negative genetic interaction withcsn71COP9/signalosome complex subunit 7a (predicted) Negative GeneticPMID:22681890
positive genetic interaction withcut14condensin complex subunit Cut14 Positive GeneticPMID:22681890
negative genetic interaction withcwf20complexed with Cdc5 protein Cwf20 Negative GeneticPMID:22681890
negative genetic interaction withcwf5RNA-binding protein Cwf5 Negative GeneticPMID:22681890
positive genetic interaction withcxr1mRNA processing factor Positive GeneticPMID:22681890
negative genetic interaction withdak1dihydroxyacetone kinase Dak1 Negative GeneticPMID:22681890
negative genetic interaction withdsc1Golgi Dsc E3 ligase complex subunit Dsc1 Negative GeneticPMID:21504829
negative genetic interaction withelp2elongator complex subunit Elp2 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withemp70EMP70 family endosomal transport protein Emp70 Positive GeneticPMID:22681890
positive genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
negative genetic interaction withgcn5SAGA complex histone acetyltransferase catalytic subunit Gcn5 Negative GeneticPMID:22681890
positive genetic interaction withint6eIF3e subunit Int6 Positive GeneticPMID:22681890
negative genetic interaction withiqw1WD repeat protein, Iqw1 Negative GeneticPMID:22681890
positive genetic interaction withiwr1RNA polymerase II nuclear import protein Iwr1 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withkin1microtubule affinity-regulating kinase Kin1 Negative GeneticPMID:22681890
negative genetic interaction withmkh1MEK kinase (MEKK) Mkh1 Negative GeneticPMID:22681890
positive genetic interaction withmlh1MutL family protein Mlh1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withmug58GLYK family kinase of unknown specificity (predicted) Positive GeneticPMID:22681890
positive genetic interaction withnap1nucleosome assembly protein Nap1 Positive GeneticPMID:22681890
negative genetic interaction withngg1SAGA complex subunit Ngg1 Negative GeneticPMID:22681890
negative genetic interaction withnop10snoRNP pseudouridylase box H/ACA snoRNP complex protein (predicted) Negative GeneticPMID:22681890
positive genetic interaction withnrm1MBF complex corepressor Nrm1 Positive GeneticPMID:22681890
negative genetic interaction withpab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
negative genetic interaction withpac10prefoldin subunit 3 Pac10 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withpar1protein phosphatase regulatory subunit Par1 Positive GeneticPMID:22681890
positive genetic interaction withpef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Positive GeneticPMID:22681890
negative genetic interaction withpek1MAP kinase kinase Pek1 Negative GeneticPMID:22681890
negative genetic interaction withphp5CCAAT-binding factor complex subunit Php5 Negative GeneticPMID:22681890
negative genetic interaction withpmk1MAP kinase Pmk1 Negative GeneticPMID:22681890
negative genetic interaction withpom1DYRK family protein kinase Pom1 Negative GeneticPMID:22681890
negative genetic interaction withprp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
positive genetic interaction withprz1calcineurin responsive transcription factor Prz1 Positive GeneticPMID:22681890
positive genetic interaction withrem1meiosis-specific cyclin Rem1 Positive GeneticPMID:22681890
negative genetic interaction withres1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
negative genetic interaction withrok1ATP-dependent RNA helicase Rok1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withrpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
negative genetic interaction withrpb9DNA-directed RNA polymerase II complex subunit Rpb9 Negative GeneticPMID:22681890
negative genetic interaction withrsv2transcription factor Rsv2 Negative GeneticPMID:22681890
negative genetic interaction withrxt2histone deacetylase complex subunit Rxt2 Negative GeneticPMID:22681890
negative genetic interaction withsap114U2 snRNP subunit Sap114 Negative GeneticPMID:22681890
negative genetic interaction withsnf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
negative genetic interaction withSPAC19B12.11czinc finger protein, human ZNF593 ortholog Negative GeneticPMID:22681890
positive genetic interaction withSPBC18H10.05WD repeat protein, human WDR44 family Positive GeneticPMID:22681890
negative genetic interaction withSPBC21C3.03ABC1 kinase family protein Negative GeneticPMID:22681890
negative genetic interaction withSPBC8D2.16cDUF171 family protein Negative GeneticPMID:22681890
positive genetic interaction withSPBP4H10.16cphosphatase activator (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
negative genetic interaction withSPCC550.11karyopherin (predicted) Negative GeneticPMID:22681890
negative genetic interaction withspt2non-specific DNA binding protein Spt2 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withsqs1R3H and G-patch domain Sqs1(predicted) Positive GeneticPMID:22681890
positive genetic interaction withsrb11cyclin CycC, Srb mediator subunit Srb11 Positive GeneticPMID:22681890
negative genetic interaction withsrp1SR family protein, human SRFS2 ortholog Srp1 Negative GeneticPMID:22681890
negative genetic interaction withsty1MAP kinase Sty1 Negative GeneticPMID:22681890
negative genetic interaction withsum2G2/M transition checkpoint protein Sum2 Negative GeneticPMID:22681890
negative genetic interaction withtma23ribosome biogenesis protein Tma23 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withtrm10tRNA m(1)G methyltransferase Trm10 Negative GeneticPMID:22681890
negative genetic interaction withuap2U2 snRNP-associated protein Uap2 Negative GeneticPMID:22681890
negative genetic interaction withusp102U1 snRNP-associated protein Usp102 Negative GeneticPMID:22681890
negative genetic interaction withxap5xap-5-like protein Negative GeneticPMID:24957674
positive genetic interaction withypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Positive GeneticPMID:22681890
positive genetic interaction withypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC6G10.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC6G10.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC6G10.08 BioGRID Interaction Datasets
Expression Viewer SPAC6G10.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC6G10.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC6G10.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC6G10.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC6G10.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC6G10.08 Transcriptome Viewer (Bähler Lab)
GEO SPAC6G10.08 GEO profiles
PInt SPAC6G10.08 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC6G10.08 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC6G10.08 Fission yeast phenotypic data & analysis
Cyclebase SPAC6G10.08.1 Cell Cycle Data
IntEnz1.1.1.42Integrated relational Enzyme database
Rhea1.1.1.42Annotated reactions database
SPD / RIKEN20/20A10Orfeome Localization Data
KEGGMAP00720KEGG Pathway Database
KEGGMAP00020KEGG Pathway Database
KEGGMAP00480KEGG Pathway Database
UniProtKB/SwissProtO14254Probable isocitrate dehydrogenase [NADP], mitochondrial
ModBaseO14254Database of comparative protein structure models
STRINGO14254Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594105isocitrate dehydrogenase Idp1 (predicted)
RefSeq mRNANM_001019529972h- isocitrate dehydrogenase Idp1 (predicted) (idp1), mRNA
European Nucleotide ArchiveCAB11294.2ENA Protein Mapping
MetaCycPWY-5913TCA cycle VI (obligate autotrophs)
MetaCycPWY-6549Glutamine biosynthesis III
MetaCycPWY-6728Methylaspartate cycle
MetaCycPWY-6969TCA cycle V (2-oxoglutarate:ferredoxin oxidoreductase)
MetaCycPWY-7124Ethylene biosynthesis V
MetaCycPWY-7254TCA cycle VII (acetate-producers)
MetaCycPWY-7268NAD/NADP-NADH/NADPH cytosolic interconversion (yeast)
KEGG_Enzyme00020+1.1.1.42Citrate cycle (TCA cycle)
KEGG_Enzyme00480+1.1.1.42Glutathione metabolism
KEGG_Enzyme00720+1.1.1.42Carbon fixation pathways in prokaryotes
UniParcUPI000228F450UniProt Archive

Literature for idp1

Search: Europe PMC or PubMed

Release Version: PomBase:26_52 - 11 May 2015