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P32419

- MDHP_YEAST

UniProt

P32419 - MDHP_YEAST

Protein

Malate dehydrogenase, peroxisomal

Gene

MDH3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 133 (01 Oct 2014)
      Sequence version 3 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    Catalytic activityi

    (S)-malate + NAD+ = oxaloacetate + NADH.PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei34 – 341NADBy similarity
    Binding sitei80 – 801SubstratePROSITE-ProRule annotation
    Binding sitei86 – 861SubstratePROSITE-ProRule annotation
    Binding sitei93 – 931NADBy similarity
    Binding sitei118 – 1181SubstratePROSITE-ProRule annotation
    Binding sitei152 – 1521SubstratePROSITE-ProRule annotation
    Active sitei187 – 1871Proton acceptorBy similarity
    Binding sitei237 – 2371NADBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi8 – 147NADBy similarity
    Nucleotide bindingi116 – 1183NADBy similarity

    GO - Molecular functioni

    1. L-malate dehydrogenase activity Source: SGD
    2. mRNA binding Source: SGD

    GO - Biological processi

    1. fatty acid beta-oxidation Source: SGD
    2. glyoxylate cycle Source: UniProtKB-KW
    3. malate metabolic process Source: InterPro
    4. NADH regeneration Source: SGD
    5. tricarboxylic acid cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Glyoxylate bypass, Tricarboxylic acid cycle

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BioCyciYEAST:YDL078C-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Malate dehydrogenase, peroxisomal (EC:1.1.1.37)
    Gene namesi
    Name:MDH3
    Ordered Locus Names:YDL078C
    ORF Names:D2468
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome IV

    Organism-specific databases

    SGDiS000002236. MDH3.

    Subcellular locationi

    GO - Cellular componenti

    1. peroxisomal matrix Source: SGD
    2. peroxisome Source: SGD

    Keywords - Cellular componenti

    Peroxisome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 343342Malate dehydrogenase, peroxisomalPRO_0000113342Add
    BLAST

    Proteomic databases

    MaxQBiP32419.
    PaxDbiP32419.
    PeptideAtlasiP32419.
    PRIDEiP32419.

    2D gel databases

    UCD-2DPAGEP32419.

    Expressioni

    Gene expression databases

    GenevestigatoriP32419.

    Interactioni

    Subunit structurei

    Homodimer.

    Protein-protein interaction databases

    BioGridi31983. 63 interactions.
    DIPiDIP-6473N.
    IntActiP32419. 6 interactions.
    MINTiMINT-614591.
    STRINGi4932.YDL078C.

    Structurei

    3D structure databases

    ProteinModelPortaliP32419.
    SMRiP32419. Positions 3-337.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the LDH/MDH superfamily. MDH type 1 family.Curated

    Phylogenomic databases

    eggNOGiCOG0039.
    GeneTreeiENSGT00550000075847.
    HOGENOMiHOG000213792.
    KOiK00026.
    OMAiLGTHGVE.
    OrthoDBiEOG7GJ6Q7.

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProiIPR001557. L-lactate/malate_DH.
    IPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    IPR001252. Malate_DH_AS.
    IPR010097. Malate_DH_type1.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PANTHERiPTHR11540. PTHR11540. 1 hit.
    PfamiPF02866. Ldh_1_C. 1 hit.
    PF00056. Ldh_1_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000102. Lac_mal_DH. 1 hit.
    SUPFAMiSSF56327. SSF56327. 1 hit.
    TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
    PROSITEiPS00068. MDH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P32419-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVKVAILGAS GGVGQPLSLL LKLSPYVSEL ALYDIRAAEG IGKDLSHINT    50
    NSSCVGYDKD SIENTLSNAQ VVLIPAGVPR KPGLTRDDLF KMNAGIVKSL 100
    VTAVGKFAPN ARILVISNPV NSLVPIAVET LKKMGKFKPG NVMGVTNLDL 150
    VRAETFLVDY LMLKNPKIGQ EQDKTTMHRK VTVIGGHSGE TIIPIITDKS 200
    LVFQLDKQYE HFIHRVQFGG DEIVKAKQGA GSATLSMAFA GAKFAEEVLR 250
    SFHNEKPETE SLSAFVYLPG LKNGKKAQQL VGDNSIEYFS LPIVLRNGSV 300
    VSIDTSVLEK LSPREEQLVN TAVKELRKNI EKGKSFILDS SKL 343
    Length:343
    Mass (Da):37,186
    Last modified:January 23, 2007 - v3
    Checksum:i54725114B2CAD6A5
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti240 – 2401A → R in AAA34767. (PubMed:1447211)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M98763 Genomic DNA. Translation: AAA34767.1.
    Z74126 Genomic DNA. Translation: CAA98644.1.
    BK006938 Genomic DNA. Translation: DAA11781.1.
    PIRiS67614. DEBYMP.
    RefSeqiNP_010205.1. NM_001180137.1.

    Genome annotation databases

    EnsemblFungiiYDL078C; YDL078C; YDL078C.
    GeneIDi851481.
    KEGGisce:YDL078C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M98763 Genomic DNA. Translation: AAA34767.1 .
    Z74126 Genomic DNA. Translation: CAA98644.1 .
    BK006938 Genomic DNA. Translation: DAA11781.1 .
    PIRi S67614. DEBYMP.
    RefSeqi NP_010205.1. NM_001180137.1.

    3D structure databases

    ProteinModelPortali P32419.
    SMRi P32419. Positions 3-337.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31983. 63 interactions.
    DIPi DIP-6473N.
    IntActi P32419. 6 interactions.
    MINTi MINT-614591.
    STRINGi 4932.YDL078C.

    2D gel databases

    UCD-2DPAGE P32419.

    Proteomic databases

    MaxQBi P32419.
    PaxDbi P32419.
    PeptideAtlasi P32419.
    PRIDEi P32419.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YDL078C ; YDL078C ; YDL078C .
    GeneIDi 851481.
    KEGGi sce:YDL078C.

    Organism-specific databases

    SGDi S000002236. MDH3.

    Phylogenomic databases

    eggNOGi COG0039.
    GeneTreei ENSGT00550000075847.
    HOGENOMi HOG000213792.
    KOi K00026.
    OMAi LGTHGVE.
    OrthoDBi EOG7GJ6Q7.

    Enzyme and pathway databases

    BioCyci YEAST:YDL078C-MONOMER.

    Miscellaneous databases

    NextBioi 968795.

    Gene expression databases

    Genevestigatori P32419.

    Family and domain databases

    Gene3Di 3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProi IPR001557. L-lactate/malate_DH.
    IPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    IPR001252. Malate_DH_AS.
    IPR010097. Malate_DH_type1.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view ]
    PANTHERi PTHR11540. PTHR11540. 1 hit.
    Pfami PF02866. Ldh_1_C. 1 hit.
    PF00056. Ldh_1_N. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000102. Lac_mal_DH. 1 hit.
    SUPFAMi SSF56327. SSF56327. 1 hit.
    TIGRFAMsi TIGR01772. MDH_euk_gproteo. 1 hit.
    PROSITEi PS00068. MDH. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Isolation and characterization of the yeast gene encoding the MDH3 isozyme of malate dehydrogenase."
      Steffan J.S., McAlister-Henn L.
      J. Biol. Chem. 267:24708-24715(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 2-16; 23-36 AND 153-167.
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
      Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
      , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
      Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiMDHP_YEAST
    AccessioniPrimary (citable) accession number: P32419
    Secondary accession number(s): D6VRS1, Q12689
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1993
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 133 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Yeast contains at least 3 malate dehydrogenase isoenzymes: a mitochondrial (MDH1), a cytoplasmic (MDH2) and a peroxisomal (MDH3).
    Present with 3300 molecules/cell in log phase SD medium.1 Publication

    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 IV
      Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

    External Data

    Dasty 3