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Q7XDC8

- MDHC_ORYSJ

UniProt

Q7XDC8 - MDHC_ORYSJ

Protein

Malate dehydrogenase, cytoplasmic

Gene

Os10g0478200

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 84 (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 sitei93 – 931Substrate carboxylPROSITE-ProRule annotation
    Binding sitei99 – 991Substrate carboxylPROSITE-ProRule annotation
    Binding sitei106 – 1061NADBy similarity
    Binding sitei113 – 1131NADBy similarity
    Binding sitei132 – 1321SubstratePROSITE-ProRule annotation
    Binding sitei163 – 1631Substrate carboxylPROSITE-ProRule annotation
    Active sitei188 – 1881Proton acceptorBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi12 – 187NADBy similarity
    Nucleotide bindingi130 – 1323NADBy similarity

    GO - Molecular functioni

    1. L-malate dehydrogenase activity Source: UniProtKB-EC

    GO - Biological processi

    1. cellular carbohydrate metabolic process Source: InterPro
    2. malate metabolic process Source: InterPro
    3. response to cadmium ion Source: EnsemblPlants/Gramene
    4. response to salt stress Source: EnsemblPlants/Gramene
    5. response to zinc ion Source: EnsemblPlants/Gramene
    6. tricarboxylic acid cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Tricarboxylic acid cycle

    Keywords - Ligandi

    NAD

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Malate dehydrogenase, cytoplasmic (EC:1.1.1.37)
    Alternative name(s):
    PP37
    Gene namesi
    Ordered Locus Names:Os10g0478200, LOC_Os10g33800
    ORF Names:OSJNBa0055P24.3
    OrganismiOryza sativa subsp. japonica (Rice)
    Taxonomic identifieri39947 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
    ProteomesiUP000000763: Chromosome 10

    Organism-specific databases

    GrameneiQ7XDC8.

    Subcellular locationi

    Cytoplasm By similarity

    GO - Cellular componenti

    1. apoplast Source: EnsemblPlants/Gramene
    2. chloroplast stroma Source: EnsemblPlants/Gramene
    3. cytosol Source: EnsemblPlants/Gramene
    4. nucleus Source: EnsemblPlants/Gramene
    5. plasma membrane Source: EnsemblPlants/Gramene
    6. plasmodesma Source: EnsemblPlants/Gramene
    7. vacuolar membrane Source: EnsemblPlants/Gramene

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 332331Malate dehydrogenase, cytoplasmicPRO_0000113418Add
    BLAST

    Post-translational modificationi

    Phosphorylated after gibberellin treatment.1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    PaxDbiQ7XDC8.
    PRIDEiQ7XDC8.

    Expressioni

    Tissue specificityi

    Highly expressed in young panicles and immature seeds. Weakly expressed in roots and leaves. Expressed in stem and sheath (at protein level).2 Publications

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliQ7XDC8.
    SMRiQ7XDC8. Positions 4-332.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the LDH/MDH superfamily. MDH type 2 family.Curated

    Phylogenomic databases

    eggNOGiCOG0039.
    HOGENOMiHOG000220953.
    KOiK00025.
    OMAiNCLIASK.

    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.
    IPR011274. Malate_DH_NAD-dep_euk.
    IPR010945. Malate_DH_type2.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PANTHERiPTHR23382. PTHR23382. 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.
    TIGRFAMsiTIGR01759. MalateDH-SF1. 1 hit.
    TIGR01758. MDH_euk_cyt. 1 hit.
    PROSITEiPS00068. MDH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q7XDC8-1 [UniParc]FASTAAdd to Basket

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    MAKEPMRVLV TGAAGQIGYA LVPMIARGVM LGADQPVILH MLDIPPATES    50
    LNGLKMELVD AAFPLLKGIV ATTDVVEACT GVNVAVMVGG FPRKEGMERK 100
    DVMSKNVSIY KSQASALEAH AAPNCKVLVV ANPANTNALI LKEFAPSIPE 150
    KNITCLTRLD HNRALGQISE KLNVQVTDVK NAIIWGNHSS TQYPDVNHAT 200
    VKTPSGEKPV RELVADDEWL NTEFISTVQQ RGAAIIKARK QSSALSAASS 250
    ACDHIRDWVL GTPEGTFVSM GVYSDGSYGV PAGLIYSFPV TCSGGEWTIV 300
    QGLPIDEFSR KKMDATAQEL SEEKTLAYSC LN 332
    Length:332
    Mass (Da):35,569
    Last modified:January 23, 2007 - v3
    Checksum:iEB1E3187DCC4DF42
    GO

    Sequence cautioni

    The sequence ABG66141.1 differs from that shown. Reason: Erroneous gene model prediction.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF353203 mRNA. Translation: AAK26431.1.
    AC037425 Genomic DNA. Translation: AAG13573.1.
    DP000086 Genomic DNA. Translation: AAP54283.1.
    DP000086 Genomic DNA. Translation: ABG66141.1. Sequence problems.
    AP008216 Genomic DNA. Translation: BAF26774.1.
    RefSeqiNP_001064860.1. NM_001071395.1.
    UniGeneiOs.21850.

    Genome annotation databases

    EnsemblPlantsiOS10T0478200-01; OS10T0478200-01; OS10G0478200.
    GeneIDi4348905.
    KEGGiosa:4348905.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF353203 mRNA. Translation: AAK26431.1 .
    AC037425 Genomic DNA. Translation: AAG13573.1 .
    DP000086 Genomic DNA. Translation: AAP54283.1 .
    DP000086 Genomic DNA. Translation: ABG66141.1 . Sequence problems.
    AP008216 Genomic DNA. Translation: BAF26774.1 .
    RefSeqi NP_001064860.1. NM_001071395.1.
    UniGenei Os.21850.

    3D structure databases

    ProteinModelPortali Q7XDC8.
    SMRi Q7XDC8. Positions 4-332.
    ModBasei Search...
    MobiDBi Search...

    Proteomic databases

    PaxDbi Q7XDC8.
    PRIDEi Q7XDC8.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi OS10T0478200-01 ; OS10T0478200-01 ; OS10G0478200 .
    GeneIDi 4348905.
    KEGGi osa:4348905.

    Organism-specific databases

    Gramenei Q7XDC8.

    Phylogenomic databases

    eggNOGi COG0039.
    HOGENOMi HOG000220953.
    KOi K00025.
    OMAi NCLIASK.

    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.
    IPR011274. Malate_DH_NAD-dep_euk.
    IPR010945. Malate_DH_type2.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view ]
    PANTHERi PTHR23382. PTHR23382. 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 TIGR01759. MalateDH-SF1. 1 hit.
    TIGR01758. MDH_euk_cyt. 1 hit.
    PROSITEi PS00068. MDH. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning, characterization and prokaryotic expression of cytosolic malate dehydrogenase from Oryza sativa."
      Lin C.F., Jiang R.H., Jiang L.Z., Qian X.Y., Attia K., Yang J.S.
      DNA Seq. 15:314-318(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    2. "In-depth view of structure, activity, and evolution of rice chromosome 10."
      Yu Y., Rambo T., Currie J., Saski C., Kim H.-R., Collura K., Thompson S., Simmons J., Yang T.-J., Nah G., Patel A.J., Thurmond S., Henry D., Oates R., Palmer M., Pries G., Gibson J., Anderson H.
      , Paradkar M., Crane L., Dale J., Carver M.B., Wood T., Frisch D., Engler F., Soderlund C., Palmer L.E., Teytelman L., Nascimento L., De la Bastide M., Spiegel L., Ware D., O'Shaughnessy A., Dike S., Dedhia N., Preston R., Huang E., Ferraro K., Kuit K., Miller B., Zutavern T., Katzenberger F., Muller S., Balija V., Martienssen R.A., Stein L., Minx P., Johnson D., Cordum H., Mardis E., Cheng Z., Jiang J., Wilson R., McCombie W.R., Wing R.A., Yuan Q., Ouyang S., Liu J., Jones K.M., Gansberger K., Moffat K., Hill J., Tsitrin T., Overton L., Bera J., Kim M., Jin S., Tallon L., Ciecko A., Pai G., Van Aken S., Utterback T., Reidmuller S., Bormann J., Feldblyum T., Hsiao J., Zismann V., Blunt S., de Vazeille A.R., Shaffer T., Koo H., Suh B., Yang Q., Haas B., Peterson J., Pertea M., Volfovsky N., Wortman J., White O., Salzberg S.L., Fraser C.M., Buell C.R., Messing J., Song R., Fuks G., Llaca V., Kovchak S., Young S., Bowers J.E., Paterson A.H., Johns M.A., Mao L., Pan H., Dean R.A.
      Science 300:1566-1569(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Nipponbare.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Nipponbare.
    4. "The rice annotation project database (RAP-DB): 2008 update."
      The rice annotation project (RAP)
      Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: GENOME REANNOTATION.
      Strain: cv. Nipponbare.
    5. "Rice proteome database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003."
      Komatsu S., Kojima K., Suzuki K., Ozaki K., Higo K.
      Nucleic Acids Res. 32:D388-D392(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 2-11; 41-50; 144-153 AND 151-160, TISSUE SPECIFICITY.
      Strain: cv. Nipponbare.
      Tissue: Panicle, Sheath and Stem.
    6. "Identification of phosphoproteins regulated by gibberellin in rice leaf sheath."
      Khan M.M.K., Jan A., Karibe H., Komatsu S.
      Plant Mol. Biol. 58:27-40(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY, INDUCTION, PHOSPHORYLATION.
      Strain: cv. Nipponbare.

    Entry informationi

    Entry nameiMDHC_ORYSJ
    AccessioniPrimary (citable) accession number: Q7XDC8
    Secondary accession number(s): Q0IWZ1, Q109J3, Q9FWH5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 20, 2005
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 84 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. Oryza sativa (rice)
      Index of Oryza sativa entries and their corresponding gene designations
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3