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P17505

- MDHM_YEAST

UniProt

P17505 - MDHM_YEAST

Protein

Malate dehydrogenase, mitochondrial

Gene

MDH1

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 142 (01 Oct 2014)
      Sequence version 2 (01 Jun 1994)
      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 sitei50 – 501NADBy similarity
    Binding sitei99 – 991SubstratePROSITE-ProRule annotation
    Binding sitei105 – 1051SubstratePROSITE-ProRule annotation
    Binding sitei112 – 1121NADBy similarity
    Binding sitei137 – 1371SubstratePROSITE-ProRule annotation
    Binding sitei171 – 1711SubstratePROSITE-ProRule annotation
    Active sitei195 – 1951Proton acceptorBy similarity
    Binding sitei245 – 2451NADBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi24 – 307NADBy similarity
    Nucleotide bindingi135 – 1373NADBy similarity

    GO - Molecular functioni

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

    GO - Biological processi

    1. aerobic respiration Source: SGD
    2. cellular carbohydrate metabolic process Source: InterPro
    3. chronological cell aging Source: SGD
    4. malate metabolic process Source: InterPro
    5. replicative cell aging Source: SGD
    6. tricarboxylic acid cycle Source: SGD

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Tricarboxylic acid cycle

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BioCyciYEAST:YKL085W-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Malate dehydrogenase, mitochondrial (EC:1.1.1.37)
    Gene namesi
    Name:MDH1
    Ordered Locus Names:YKL085W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XI

    Organism-specific databases

    CYGDiYKL085w.
    SGDiS000001568. MDH1.

    Subcellular locationi

    Mitochondrion matrix 1 Publication

    GO - Cellular componenti

    1. mitochondrial matrix Source: SGD
    2. mitochondrion Source: SGD

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 1717Mitochondrion2 PublicationsAdd
    BLAST
    Chaini18 – 334317Malate dehydrogenase, mitochondrialPRO_0000018633Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei177 – 1771Phosphoserine1 Publication
    Modified residuei199 – 1991Phosphothreonine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiP17505.
    PaxDbiP17505.
    PeptideAtlasiP17505.
    PRIDEiP17505.

    2D gel databases

    UCD-2DPAGEP17505.

    Expressioni

    Gene expression databases

    GenevestigatoriP17505.

    Interactioni

    Subunit structurei

    Homodimer.

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    SSA2P105922EBI-10594,EBI-8603

    Protein-protein interaction databases

    BioGridi34048. 66 interactions.
    DIPiDIP-5734N.
    IntActiP17505. 8 interactions.
    MINTiMINT-697512.
    STRINGi4932.YKL085W.

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1HR9X-ray3.01O/P/Q/R2-9[»]
    ProteinModelPortaliP17505.
    SMRiP17505. Positions 19-331.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP17505.

    Family & Domainsi

    Sequence similaritiesi

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

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0039.
    GeneTreeiENSGT00390000016686.
    HOGENOMiHOG000213792.
    KOiK00026.
    OMAiISEVENT.
    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.

    P17505-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLSRVAKRAF SSTVANPYKV TVLGAGGGIG QPLSLLLKLN HKVTDLRLYD    50
    LKGAKGVATD LSHIPTNSVV KGFTPEEPDG LNNALKDTDM VLIPAGVPRK 100
    PGMTRDDLFA INASIVRDLA AATAESAPNA AILVISNPVN STVPIVAQVL 150
    KNKGVYNPKK LFGVTTLDSI RAARFISEVE NTDPTQERVN VIGGHSGITI 200
    IPLISQTNHK LMSDDKRHEL IHRIQFGGDE VVKAKNGAGS ATLSMAHAGA 250
    KFANAVLSGF KGERDVIEPS FVDSPLFKSE GIEFFASPVT LGPDGIEKIH 300
    PIGELSSEEE EMLQKCKETL KKNIEKGVNF VASK 334
    Length:334
    Mass (Da):35,650
    Last modified:June 1, 1994 - v2
    Checksum:i8645C4CDFB9857C8
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti68 – 681S → G AA sequence (PubMed:3552052)Curated
    Sequence conflicti306 – 3061S → F in AAS56240. (PubMed:17322287)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J02841 Genomic DNA. Translation: AAA34759.1.
    Z28085 Genomic DNA. Translation: CAA81923.1.
    AY557914 Genomic DNA. Translation: AAS56240.1.
    BK006944 Genomic DNA. Translation: DAA09073.1.
    PIRiA31945. DEBYMM.
    RefSeqiNP_012838.1. NM_001179651.1.

    Genome annotation databases

    EnsemblFungiiYKL085W; YKL085W; YKL085W.
    GeneIDi853777.
    KEGGisce:YKL085W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J02841 Genomic DNA. Translation: AAA34759.1 .
    Z28085 Genomic DNA. Translation: CAA81923.1 .
    AY557914 Genomic DNA. Translation: AAS56240.1 .
    BK006944 Genomic DNA. Translation: DAA09073.1 .
    PIRi A31945. DEBYMM.
    RefSeqi NP_012838.1. NM_001179651.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1HR9 X-ray 3.01 O/P/Q/R 2-9 [» ]
    ProteinModelPortali P17505.
    SMRi P17505. Positions 19-331.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 34048. 66 interactions.
    DIPi DIP-5734N.
    IntActi P17505. 8 interactions.
    MINTi MINT-697512.
    STRINGi 4932.YKL085W.

    2D gel databases

    UCD-2DPAGE P17505.

    Proteomic databases

    MaxQBi P17505.
    PaxDbi P17505.
    PeptideAtlasi P17505.
    PRIDEi P17505.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YKL085W ; YKL085W ; YKL085W .
    GeneIDi 853777.
    KEGGi sce:YKL085W.

    Organism-specific databases

    CYGDi YKL085w.
    SGDi S000001568. MDH1.

    Phylogenomic databases

    eggNOGi COG0039.
    GeneTreei ENSGT00390000016686.
    HOGENOMi HOG000213792.
    KOi K00026.
    OMAi ISEVENT.
    OrthoDBi EOG7GJ6Q7.

    Enzyme and pathway databases

    BioCyci YEAST:YKL085W-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P17505.
    NextBioi 974888.
    PROi P17505.

    Gene expression databases

    Genevestigatori P17505.

    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. "Gene sequence and primary structure of mitochondrial malate dehydrogenase from Saccharomyces cerevisiae."
      Thompson L.M., Sutherland P., Steffan J.S., McAlister-Henn L.
      Biochemistry 27:8393-8400(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 18-33.
      Strain: S173-6B.
    2. "Complete DNA sequence of yeast chromosome XI."
      Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V., Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M., Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L., Daignan-Fornier B., del Rey F., Dion C.
      , Domdey H., Duesterhoeft A., Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H., Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L., Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M., Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H., Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J., Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H., Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J., Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S., Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F., Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R., Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W., Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M., Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C., Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H., Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L., van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C., Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G., Zimmermann J., Haasemann M., Becker I., Mewes H.-W.
      Nature 369:371-378(1994) [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: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. "Purification procedure and N-terminal amino acid sequence of yeast malate dehydrogenase isoenzymes."
      Kopetzki E., Entian K.-D., Lottspeich F., Mecke D.
      Biochim. Biophys. Acta 912:398-403(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 18-73.
    6. "Yeast mitochondrial dehydrogenases are associated in a supramolecular complex."
      Grandier-Vazeille X., Bathany K., Chaignepain S., Camougrand N., Manon S., Schmitter J.-M.
      Biochemistry 40:9758-9769(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 55-62, SUBCELLULAR LOCATION.
      Strain: ATCC 201238 / W303-1B.
    7. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    8. "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase."
      Reinders J., Wagner K., Zahedi R.P., Stojanovski D., Eyrich B., van der Laan M., Rehling P., Sickmann A., Pfanner N., Meisinger C.
      Mol. Cell. Proteomics 6:1896-1906(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-177, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Strain: ATCC 76625 / YPH499.
    9. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
      Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
      Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-199, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiMDHM_YEAST
    AccessioniPrimary (citable) accession number: P17505
    Secondary accession number(s): D6VXK3, E9P8U0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 1, 1990
    Last sequence update: June 1, 1994
    Last modified: October 1, 2014
    This is version 142 of the entry and version 2 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 28100 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

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

    External Data

    Dasty 3