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Protein

Isocitrate dehydrogenase [NADP] cytoplasmic

Gene

IDP2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

May function in the production of NADPH for fatty acid and sterol synthesis.

Miscellaneous

Present with 2620 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

Isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH.

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 1 Mg2+ or Mn2+ ion per subunit.By similarity

Enzyme regulationi

By catabolite repression.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei77SubstrateBy similarity1
Binding sitei82NADPBy similarity1
Binding sitei109SubstrateBy similarity1
Binding sitei132SubstrateBy similarity1
Sitei139Critical for catalysisBy similarity1
Sitei212Critical for catalysisBy similarity1
Metal bindingi252Magnesium or manganeseBy similarity1
Binding sitei260NADPBy similarity1
Metal bindingi275Magnesium or manganeseBy similarity1
Binding sitei328NADP; via amide nitrogen and carbonyl oxygenBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi75 – 77NADPBy similarity3
Nucleotide bindingi310 – 315NADPBy similarity6

GO - Molecular functioni

  • isocitrate dehydrogenase (NADP+) activity Source: SGD
  • magnesium ion binding Source: InterPro
  • NAD binding Source: InterPro

GO - Biological processi

  • glyoxylate cycle Source: UniProtKB-KW
  • isocitrate metabolic process Source: SGD
  • tricarboxylic acid cycle Source: UniProtKB-KW

Keywordsi

Molecular functionOxidoreductase
Biological processGlyoxylate bypass, Tricarboxylic acid cycle
LigandMagnesium, Manganese, Metal-binding, NADP

Enzyme and pathway databases

BioCyciMetaCyc:YLR174W-MONOMER
YEAST:YLR174W-MONOMER
BRENDAi1.1.1.42 984
ReactomeiR-SCE-2151201 Transcriptional activation of mitochondrial biogenesis
R-SCE-389542 NADPH regeneration
R-SCE-6798695 Neutrophil degranulation
R-SCE-71403 Citric acid cycle (TCA cycle)
R-SCE-9033241 Peroxisomal protein import
SABIO-RKiP41939

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NADP] cytoplasmic (EC:1.1.1.42)
Short name:
IDH
Alternative name(s):
IDP
NADP(+)-specific ICDH
Oxalosuccinate decarboxylase
Gene namesi
Name:IDP2
Ordered Locus Names:YLR174W
ORF Names:L9470.12
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR174W
SGDiS000004164 IDP2

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000835871 – 412Isocitrate dehydrogenase [NADP] cytoplasmicAdd BLAST412

Post-translational modificationi

The N-terminus is blocked.

Proteomic databases

MaxQBiP41939
PaxDbiP41939
PRIDEiP41939

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

BioGridi31445, 93 interactors
DIPiDIP-4252N
IntActiP41939, 2 interactors
STRINGi4932.YLR174W

Structurei

3D structure databases

ProteinModelPortaliP41939
SMRiP41939
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni94 – 100Substrate bindingBy similarity7

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00390000012547
HOGENOMiHOG000019858
InParanoidiP41939
KOiK00031
OMAiYLNTMDF
OrthoDBiEOG092C2D51

Family and domain databases

InterProiView protein in InterPro
IPR019818 IsoCit/isopropylmalate_DH_CS
IPR004790 Isocitrate_DH_NADP
IPR024084 IsoPropMal-DH-like_dom
PANTHERiPTHR11822 PTHR11822, 1 hit
PfamiView protein in Pfam
PF00180 Iso_dh, 1 hit
PIRSFiPIRSF000108 IDH_NADP, 1 hit
SMARTiView protein in SMART
SM01329 Iso_dh, 1 hit
TIGRFAMsiTIGR00127 nadp_idh_euk, 1 hit
PROSITEiView protein in PROSITE
PS00470 IDH_IMDH, 1 hit

Sequencei

Sequence statusi: Complete.

P41939-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKIKVANPI VEMDGDEQTR IIWHLIRDKL VLPYLDVDLK YYDLSVEYRD
60 70 80 90 100
QTNDQVTVDS ATATLKYGVA VKCATITPDE ARVEEFHLKK MWKSPNGTIR
110 120 130 140 150
NILGGTVFRE PIIIPRIPRL VPQWEKPIII GRHAFGDQYK ATDVIVPEEG
160 170 180 190 200
ELRLVYKSKS GTHDVDLKVF DYPEHGGVAM MMYNTTDSIE GFAKASFELA
210 220 230 240 250
IERKLPLYST TKNTILKKYD GKFKDVFEAM YARSYKEKFE SLGIWYEHRL
260 270 280 290 300
IDDMVAQMLK SKGGYIIAMK NYDGDVESDI VAQGFGSLGL MTSVLITPDG
310 320 330 340 350
KTFESEAAHG TVTRHFRQHQ QGKETSTNSI ASIFAWTRGI IQRGKLDNTP
360 370 380 390 400
DVVKFGQILE SATVNTVQED GIMTKDLALI LGKSERSAYV TTEEFIDAVE
410
SRLKKEFEAA AL
Length:412
Mass (Da):46,562
Last modified:October 1, 1996 - v2
Checksum:i83EB54CC56A29857
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti24 – 27HLIR → SFNQ in AAA64516 (PubMed:8068643).Curated4
Sequence conflicti68G → R in AAA64516 (PubMed:8068643).Curated1
Sequence conflicti185T → N in AAA64516 (PubMed:8068643).Curated1
Sequence conflicti232 – 239ARSYKEKF → LEVIKRSL in AAA64516 (PubMed:8068643).Curated8
Sequence conflicti267I → M in AAA64516 (PubMed:8068643).Curated1
Sequence conflicti306 – 307EA → DR in AAA64516 (PubMed:8068643).Curated2
Sequence conflicti316 – 323FRQHQQGK → LTDYDKGR in AAA64516 (PubMed:8068643).Curated8

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L26312 Genomic DNA Translation: AAA64516.1
U17246 Genomic DNA Translation: AAB67464.1
BK006945 Genomic DNA Translation: DAA09494.1
PIRiS51419
RefSeqiNP_013275.1, NM_001182061.1

Genome annotation databases

EnsemblFungiiYLR174W; YLR174W; YLR174W
GeneIDi850871
KEGGisce:YLR174W

Similar proteinsi

Entry informationi

Entry nameiIDHC_YEAST
AccessioniPrimary (citable) accession number: P41939
Secondary accession number(s): D6VYH8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: October 1, 1996
Last modified: May 23, 2018
This is version 156 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

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