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P53982

- IDHH_YEAST

UniProt

P53982 - IDHH_YEAST

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Protein

Isocitrate dehydrogenase [NADP]

Gene
IDP3, YNL009W, N2870
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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

Catalytic activityi

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

Cofactori

Binds 1 magnesium or manganese ion per subunit By similarity.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei77 – 771Substrate By similarity
Binding sitei82 – 821NADP By similarity
Binding sitei109 – 1091Substrate By similarity
Binding sitei132 – 1321Substrate By similarity
Sitei139 – 1391Critical for catalysis By similarity
Sitei212 – 2121Critical for catalysis By similarity
Metal bindingi252 – 2521Magnesium or manganese By similarity
Binding sitei260 – 2601NADP By similarity
Metal bindingi275 – 2751Magnesium or manganese By similarity
Binding sitei328 – 3281NADP; via amide nitrogen and carbonyl oxygen By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi75 – 773NADP By similarity
Nucleotide bindingi310 – 3156NADP By similarity

GO - Molecular functioni

  1. isocitrate dehydrogenase (NADP+) activity Source: SGD
  2. magnesium ion binding Source: InterPro
  3. NAD binding Source: InterPro

GO - Biological processi

  1. fatty acid beta-oxidation Source: SGD
  2. glyoxylate cycle Source: UniProtKB-KW
  3. isocitrate metabolic process Source: InterPro
  4. NADPH regeneration Source: SGD
  5. tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glyoxylate bypass, Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, NADP

Enzyme and pathway databases

BioCyciYEAST:YNL009W-MONOMER.
ReactomeiREACT_207320. Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate.
REACT_227890. NADPH regeneration.
SABIO-RKP53982.

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NADP] (EC:1.1.1.42)
Short name:
IDH
Alternative name(s):
IDP
NADP(+)-specific ICDH
Oxalosuccinate decarboxylase
Gene namesi
Name:IDP3
Ordered Locus Names:YNL009W
ORF Names:N2870
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XIV

Organism-specific databases

CYGDiYNL009w.
SGDiS000004954. IDP3.

Subcellular locationi

GO - Cellular componenti

  1. cytoplasm Source: SGD
  2. peroxisome Source: SGD
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 420420Isocitrate dehydrogenase [NADP]PRO_0000083588Add
BLAST

Proteomic databases

MaxQBiP53982.
PaxDbiP53982.
PeptideAtlasiP53982.
PRIDEiP53982.

Expressioni

Gene expression databases

GenevestigatoriP53982.

Interactioni

Protein-protein interaction databases

BioGridi35816. 30 interactions.
DIPiDIP-4693N.
IntActiP53982. 4 interactions.
MINTiMINT-473180.
STRINGi4932.YNL009W.

Structurei

3D structure databases

ProteinModelPortaliP53982.
SMRiP53982. Positions 2-404.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni94 – 1007Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0538.
GeneTreeiENSGT00390000012547.
HOGENOMiHOG000019858.
KOiK00031.
OMAiDESIWGF.
OrthoDBiEOG7G4QQD.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR004790. Isocitrate_DH_NADP.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PANTHERiPTHR11822. PTHR11822. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF000108. IDH_NADP. 1 hit.
TIGRFAMsiTIGR00127. nadp_idh_euk. 1 hit.
PROSITEiPS00470. IDH_IMDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53982-1 [UniParc]FASTAAdd to Basket

« Hide

MSKIKVVHPI VEMDGDEQTR VIWKLIKEKL ILPYLDVDLK YYDLSIQERD    50
RTNDQVTKDS SYATLKYGVA VKCATITPDE ARMKEFNLKE MWKSPNGTIR 100
NILGGTVFRE PIIIPKIPRL VPHWEKPIII GRHAFGDQYR ATDIKIKKAG 150
KLRLQFSSDD GKENIDLKVY EFPKSGGIAM AMFNTNDSIK GFAKASFELA 200
LKRKLPLFFT TKNTILKNYD NQFKQIFDNL FDKEYKEKFQ ALKITYEHRL 250
IDDMVAQMLK SKGGFIIAMK NYDGDVQSDI VAQGFGSLGL MTSILITPDG 300
KTFESEAAHG TVTRHFRKHQ RGEETSTNSI ASIFAWTRAI IQRGKLDNTD 350
DVIKFGNLLE KATLDTVQVG GKMTKDLALM LGKTNRSSYV TTEEFIDEVA 400
KRLQNMMLSS NEDKKGMCKL 420
Length:420
Mass (Da):47,856
Last modified:October 1, 1996 - v1
Checksum:i4094007E13FCD506
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z71285 Genomic DNA. Translation: CAA95869.1.
AY693154 Genomic DNA. Translation: AAT93173.1.
BK006947 Genomic DNA. Translation: DAA10534.1.
PIRiS62921.
RefSeqiNP_014389.3. NM_001182848.3.

Genome annotation databases

EnsemblFungiiYNL009W; YNL009W; YNL009W.
GeneIDi855723.
KEGGisce:YNL009W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z71285 Genomic DNA. Translation: CAA95869.1 .
AY693154 Genomic DNA. Translation: AAT93173.1 .
BK006947 Genomic DNA. Translation: DAA10534.1 .
PIRi S62921.
RefSeqi NP_014389.3. NM_001182848.3.

3D structure databases

ProteinModelPortali P53982.
SMRi P53982. Positions 2-404.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 35816. 30 interactions.
DIPi DIP-4693N.
IntActi P53982. 4 interactions.
MINTi MINT-473180.
STRINGi 4932.YNL009W.

Proteomic databases

MaxQBi P53982.
PaxDbi P53982.
PeptideAtlasi P53982.
PRIDEi P53982.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YNL009W ; YNL009W ; YNL009W .
GeneIDi 855723.
KEGGi sce:YNL009W.

Organism-specific databases

CYGDi YNL009w.
SGDi S000004954. IDP3.

Phylogenomic databases

eggNOGi COG0538.
GeneTreei ENSGT00390000012547.
HOGENOMi HOG000019858.
KOi K00031.
OMAi DESIWGF.
OrthoDBi EOG7G4QQD.

Enzyme and pathway databases

BioCyci YEAST:YNL009W-MONOMER.
Reactomei REACT_207320. Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate.
REACT_227890. NADPH regeneration.
SABIO-RK P53982.

Miscellaneous databases

NextBioi 980090.

Gene expression databases

Genevestigatori P53982.

Family and domain databases

Gene3Di 3.40.718.10. 1 hit.
InterProi IPR019818. IsoCit/isopropylmalate_DH_CS.
IPR004790. Isocitrate_DH_NADP.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view ]
PANTHERi PTHR11822. PTHR11822. 1 hit.
Pfami PF00180. Iso_dh. 1 hit.
[Graphical view ]
PIRSFi PIRSF000108. IDH_NADP. 1 hit.
TIGRFAMsi TIGR00127. nadp_idh_euk. 1 hit.
PROSITEi PS00470. IDH_IMDH. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications."
    Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J.
    , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J.
    Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.

Entry informationi

Entry nameiIDHH_YEAST
AccessioniPrimary (citable) accession number: P53982
Secondary accession number(s): D6W1G8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: September 3, 2014
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, 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 XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

External Data

Dasty 3

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