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P56574

- IDHP_RAT

UniProt

P56574 - IDHP_RAT

Protein

Isocitrate dehydrogenase [NADP], mitochondrial

Gene

Idh2

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 94 (01 Oct 2014)
      Sequence version 2 (12 Dec 2006)
      Previous versions | rss
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    Functioni

    Plays a role in intermediary metabolism and energy production. It may tightly associate or interact with the pyruvate dehydrogenase complex By similarity.By similarity

    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 sitei117 – 1171SubstrateBy similarity
    Binding sitei122 – 1221NADPBy similarity
    Binding sitei149 – 1491SubstrateBy similarity
    Binding sitei172 – 1721SubstrateBy similarity
    Sitei179 – 1791Critical for catalysisBy similarity
    Sitei251 – 2511Critical for catalysisBy similarity
    Metal bindingi291 – 2911Magnesium or manganeseBy similarity
    Binding sitei299 – 2991NADPBy similarity
    Metal bindingi314 – 3141Magnesium or manganeseBy similarity
    Binding sitei367 – 3671NADP; via amide nitrogen and carbonyl oxygenBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi115 – 1173NADPBy similarity
    Nucleotide bindingi349 – 3546NADPBy similarity

    GO - Molecular functioni

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

    GO - Biological processi

    1. 2-oxoglutarate metabolic process Source: UniProtKB
    2. glyoxylate cycle Source: UniProtKB-KW
    3. isocitrate metabolic process Source: UniProtKB
    4. tricarboxylic acid cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Glyoxylate bypass, Tricarboxylic acid cycle

    Keywords - Ligandi

    Magnesium, Manganese, Metal-binding, NADP

    Enzyme and pathway databases

    ReactomeiREACT_216424. Citric acid cycle (TCA cycle).
    SABIO-RKP56574.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Isocitrate dehydrogenase [NADP], mitochondrial (EC:1.1.1.42)
    Short name:
    IDH
    Alternative name(s):
    ICD-M
    IDP
    NADP(+)-specific ICDH
    Oxalosuccinate decarboxylase
    Gene namesi
    Name:Idh2
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Chromosome 1

    Organism-specific databases

    RGDi1597139. Idh2.

    Subcellular locationi

    Mitochondrion 1 Publication

    GO - Cellular componenti

    1. mitochondrial inner membrane Source: Ensembl

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 3939MitochondrionBy similarityAdd
    BLAST
    Chaini40 – 452413Isocitrate dehydrogenase [NADP], mitochondrialPRO_0000083581Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei45 – 451N6-acetyllysineBy similarity
    Modified residuei48 – 481N6-acetyllysineBy similarity
    Modified residuei67 – 671N6-acetyllysineBy similarity
    Modified residuei69 – 691N6-acetyllysineBy similarity
    Modified residuei80 – 801N6-acetyllysine; alternateBy similarity
    Modified residuei80 – 801N6-succinyllysine; alternateBy similarity
    Modified residuei106 – 1061N6-acetyllysine; alternateBy similarity
    Modified residuei106 – 1061N6-succinyllysine; alternateBy similarity
    Modified residuei155 – 1551N6-acetyllysineBy similarity
    Modified residuei166 – 1661N6-acetyllysine; alternateBy similarity
    Modified residuei166 – 1661N6-succinyllysine; alternateBy similarity
    Modified residuei180 – 1801N6-acetyllysine; alternateBy similarity
    Modified residuei180 – 1801N6-succinyllysine; alternateBy similarity
    Modified residuei193 – 1931N6-acetyllysine; alternateBy similarity
    Modified residuei193 – 1931N6-succinyllysine; alternateBy similarity
    Modified residuei199 – 1991N6-acetyllysineBy similarity
    Modified residuei256 – 2561N6-acetyllysine; alternateBy similarity
    Modified residuei256 – 2561N6-succinyllysine; alternateBy similarity
    Modified residuei263 – 2631N6-acetyllysineBy similarity
    Modified residuei272 – 2721N6-acetyllysineBy similarity
    Modified residuei275 – 2751N6-acetyllysineBy similarity
    Modified residuei280 – 2801N6-acetyllysineBy similarity
    Modified residuei282 – 2821N6-acetyllysine; alternateBy similarity
    Modified residuei282 – 2821N6-succinyllysine; alternateBy similarity
    Modified residuei384 – 3841N6-acetyllysine; alternateBy similarity
    Modified residuei384 – 3841N6-succinyllysine; alternateBy similarity
    Modified residuei400 – 4001N6-acetyllysineBy similarity
    Modified residuei413 – 4131N6-acetyllysineBy similarity
    Modified residuei442 – 4421N6-acetyllysineBy similarity

    Post-translational modificationi

    Acetylation at Lys-413 dramatically reduces catalytic activity. Deacetylated by SIRT3 By similarity.By similarity

    Keywords - PTMi

    Acetylation

    Proteomic databases

    PaxDbiP56574.
    PRIDEiP56574.

    PTM databases

    PhosphoSiteiP56574.

    Expressioni

    Gene expression databases

    GenevestigatoriP56574.

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Protein-protein interaction databases

    BioGridi262802. 1 interaction.
    IntActiP56574. 1 interaction.
    MINTiMINT-1794004.
    STRINGi10116.ENSRNOP00000019059.

    Structurei

    3D structure databases

    ProteinModelPortaliP56574.
    SMRiP56574. Positions 40-452.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni134 – 1407Substrate bindingBy similarity

    Sequence similaritiesi

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0538.
    GeneTreeiENSGT00390000012547.
    HOGENOMiHOG000019858.
    HOVERGENiHBG006119.
    InParanoidiP56574.
    KOiK00031.
    OMAiCFQYAIG.
    OrthoDBiEOG7QNVKS.
    PhylomeDBiP56574.
    TreeFamiTF300428.

    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.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P56574-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAGYLRAVSS LCRASGSTRT WAPAALNVPS WPEQPRRHYA EKRIKVEKPV    50
    VEMDGDEMTR IIWQFIKEKL ILPHVDVQLK YFDLGLPNRD QTNDQVTIDS 100
    ALATQKYSVA VKCATITPDE ARVEEFKLKK MWKSPNGTIR NILGGTVFRE 150
    PIICKNIPRL VPGWTKPITI GRHAHGDQYK ATDFVVDRAG MFKLVFTPKD 200
    GSGAKEWEVY NFPAGGVGMG MYNTDESISG FAHSCFQYSI QKKWPLYLST 250
    KNTIMKAYDG RFKDIFQEIF DKHYKTDFDK NKIWYEHRLI DDMVAQVLKS 300
    SGGFVWACKN YDGDVQSDIL AQGFGSLGLM TSVLVCPDGK TIEAEAAHGT 350
    VTRHYREHQK GRPTSTNPIA SIFAWTRGLE HRGKLDGNQD LIRFAQTLEK 400
    VCVQTVESGA MTKDLAGCIH GLSNVKLNEH FLNTTDFLDT IKSNLDRALG 450
    KQ 452
    Length:452
    Mass (Da):50,967
    Last modified:December 12, 2006 - v2
    Checksum:i2466E1CC2C2CE9D1
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti49 – 491P → K AA sequence 1 PublicationCurated
    Sequence conflicti52 – 521E → V AA sequence 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC076398 mRNA. Translation: AAH76398.1.
    RefSeqiNP_001014183.1. NM_001014161.1.
    UniGeneiRn.3490.

    Genome annotation databases

    EnsembliENSRNOT00000019059; ENSRNOP00000019059; ENSRNOG00000013949.
    GeneIDi361596.
    KEGGirno:361596.
    UCSCiRGD:1597139. rat.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC076398 mRNA. Translation: AAH76398.1 .
    RefSeqi NP_001014183.1. NM_001014161.1.
    UniGenei Rn.3490.

    3D structure databases

    ProteinModelPortali P56574.
    SMRi P56574. Positions 40-452.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 262802. 1 interaction.
    IntActi P56574. 1 interaction.
    MINTi MINT-1794004.
    STRINGi 10116.ENSRNOP00000019059.

    PTM databases

    PhosphoSitei P56574.

    Proteomic databases

    PaxDbi P56574.
    PRIDEi P56574.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000019059 ; ENSRNOP00000019059 ; ENSRNOG00000013949 .
    GeneIDi 361596.
    KEGGi rno:361596.
    UCSCi RGD:1597139. rat.

    Organism-specific databases

    CTDi 3418.
    RGDi 1597139. Idh2.

    Phylogenomic databases

    eggNOGi COG0538.
    GeneTreei ENSGT00390000012547.
    HOGENOMi HOG000019858.
    HOVERGENi HBG006119.
    InParanoidi P56574.
    KOi K00031.
    OMAi CFQYAIG.
    OrthoDBi EOG7QNVKS.
    PhylomeDBi P56574.
    TreeFami TF300428.

    Enzyme and pathway databases

    Reactomei REACT_216424. Citric acid cycle (TCA cycle).
    SABIO-RK P56574.

    Miscellaneous databases

    NextBioi 676849.
    PROi P56574.

    Gene expression databases

    Genevestigatori P56574.

    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

    1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Kidney.
    2. Cited for: PROTEIN SEQUENCE OF 40-52, SUBCELLULAR LOCATION.
      Strain: Wistar.
      Tissue: Heart.
    3. Lubec G., Chen W.-Q.
      Submitted (APR-2007) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 61-67; 70-89; 113-122; 141-149; 181-188; 244-251; 262-272; 289-299; 341-353 AND 414-426, IDENTIFICATION BY MASS SPECTROMETRY.
      Strain: Sprague-Dawley.
      Tissue: Hippocampus.

    Entry informationi

    Entry nameiIDHP_RAT
    AccessioniPrimary (citable) accession number: P56574
    Secondary accession number(s): Q6DGF1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: December 12, 2006
    Last modified: October 1, 2014
    This is version 94 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    On the 2D-gel the determined pI of this protein (spot P8) is: 9.0, its MW is: 42 kDa.

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3