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Protein

Malate dehydrogenase

Gene

mdh

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the reversible oxidation of malate to oxaloacetate. Can also oxidize tartrate.1 Publication

Catalytic activityi

(S)-malate + NAD+ = oxaloacetate + NADH.1 Publication

Kineticsi

kcat is 5.7 sec(-1) for NAD-dependent malate oxidation.1 Publication

  1. KM=0.074 mM for S-malate1 Publication
  2. KM=0.63 mM for (2S,3S)-tartrate1 Publication
  3. KM=0.40 mM for (2S,3R)-tartrate1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei32 – 321NAD1 Publication
    Binding sitei81 – 811SubstrateBy similarity
    Binding sitei87 – 871SubstrateBy similarity
    Binding sitei94 – 941NAD1 Publication
    Binding sitei119 – 1191SubstrateBy similarity
    Binding sitei150 – 1501SubstrateBy similarity
    Active sitei172 – 1721Proton acceptorBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi7 – 126NAD1 Publication
    Nucleotide bindingi117 – 1193NAD1 Publication

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Tricarboxylic acid cycle

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BioCyciAFUL224325:GJBC-873-MONOMER.
    BRENDAi1.1.1.37. 414.
    1.1.1.B46. 414.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Malate dehydrogenase1 Publication (EC:1.1.1.371 Publication)
    Gene namesi
    Name:mdh
    Ordered Locus Names:AF_0855
    OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
    Taxonomic identifieri224325 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
    Proteomesi
    • UP000002199 Componenti: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 294294Malate dehydrogenasePRO_0000113480Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    STRINGi224325.AF0855.

    Structurei

    Secondary structure

    1
    294
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi2 – 65Combined sources
    Helixi10 – 2213Combined sources
    Beta strandi26 – 316Combined sources
    Helixi35 – 4915Combined sources
    Helixi50 – 523Combined sources
    Beta strandi57 – 626Combined sources
    Helixi64 – 674Combined sources
    Beta strandi71 – 755Combined sources
    Beta strandi83 – 853Combined sources
    Helixi87 – 10620Combined sources
    Beta strandi113 – 1164Combined sources
    Beta strandi118 – 1203Combined sources
    Helixi121 – 13111Combined sources
    Beta strandi138 – 1414Combined sources
    Helixi144 – 15714Combined sources
    Beta strandi161 – 1633Combined sources
    Beta strandi168 – 1703Combined sources
    Helixi180 – 1823Combined sources
    Beta strandi185 – 1873Combined sources
    Helixi191 – 1999Combined sources
    Helixi201 – 2099Combined sources
    Helixi214 – 22815Combined sources
    Beta strandi234 – 24310Combined sources
    Helixi244 – 2463Combined sources
    Beta strandi248 – 25912Combined sources
    Beta strandi262 – 2654Combined sources
    Helixi272 – 29019Combined sources
    Turni291 – 2933Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2X0IX-ray2.90A1-294[»]
    2X0JX-ray2.79A1-294[»]
    ProteinModelPortaliO08349.
    SMRiO08349. Positions 1-294.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO08349.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the LDH/MDH superfamily.Curated

    Phylogenomic databases

    eggNOGiarCOG00246. Archaea.
    COG0039. LUCA.
    KOiK00024.
    OMAiMDLMQTA.

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProiIPR001557. L-lactate/malate_DH.
    IPR018177. L-lactate_DH_AS.
    IPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    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.
    PRINTSiPR00086. LLDHDRGNASE.
    SUPFAMiSSF51735. SSF51735. 1 hit.
    SSF56327. SSF56327. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O08349-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MKLGFVGAGR VGSTSAFTCL LNLDVDEIAL VDIAEDLAVG EAMDLAHAAA
    60 70 80 90 100
    GIDKYPKIVG GADYSLLKGS EIIVVTAGLA RKPGMTRLDL AHKNAGIIKD
    110 120 130 140 150
    IAKKIVENAP ESKILVVTNP MDVMTYIMWK ESGKPRNEVF GMGNQLDSQR
    160 170 180 190 200
    LKERLYNAGA RNIRRAWIIG EHGDSMFVAK SLADFDGEVD WEAVENDVRF
    210 220 230 240 250
    VAAEVIKRKG ATIFGPAVAI YRMVKAVVED TGEIIPTSMI LQGEYGIENV
    260 270 280 290
    AVGVPAKLGK NGAEVADIKL SDEEIEKLRN SAKILRERLE ELGY
    Length:294
    Mass (Da):31,874
    Last modified:July 1, 1997 - v1
    Checksum:i90389DBC189B944F
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Z85985 Genomic DNA. Translation: CAB06654.1.
    AE000782 Genomic DNA. Translation: AAB90384.1.
    PIRiG69356.
    RefSeqiWP_010878358.1. NC_000917.1.

    Genome annotation databases

    EnsemblBacteriaiAAB90384; AAB90384; AF_0855.
    GeneIDi24794453.
    KEGGiafu:AF_0855.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Z85985 Genomic DNA. Translation: CAB06654.1.
    AE000782 Genomic DNA. Translation: AAB90384.1.
    PIRiG69356.
    RefSeqiWP_010878358.1. NC_000917.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2X0IX-ray2.90A1-294[»]
    2X0JX-ray2.79A1-294[»]
    ProteinModelPortaliO08349.
    SMRiO08349. Positions 1-294.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi224325.AF0855.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAB90384; AAB90384; AF_0855.
    GeneIDi24794453.
    KEGGiafu:AF_0855.

    Phylogenomic databases

    eggNOGiarCOG00246. Archaea.
    COG0039. LUCA.
    KOiK00024.
    OMAiMDLMQTA.

    Enzyme and pathway databases

    BioCyciAFUL224325:GJBC-873-MONOMER.
    BRENDAi1.1.1.37. 414.
    1.1.1.B46. 414.

    Miscellaneous databases

    EvolutionaryTraceiO08349.

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProiIPR001557. L-lactate/malate_DH.
    IPR018177. L-lactate_DH_AS.
    IPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    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.
    PRINTSiPR00086. LLDHDRGNASE.
    SUPFAMiSSF51735. SSF51735. 1 hit.
    SSF56327. SSF56327. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiMDH_ARCFU
    AccessioniPrimary (citable) accession number: O08349
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: July 1, 1997
    Last modified: September 7, 2016
    This is version 133 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.