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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: 5 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

Manual assertion based on experiment ini

  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)DescriptionActionsGraphical viewLength
    Binding sitei32NAD1 Publication1
    Binding sitei81SubstrateBy similarity1
    Binding sitei87SubstrateBy similarity1
    Binding sitei94NAD1 Publication1
    Binding sitei119SubstrateBy similarity1
    Binding sitei150SubstrateBy similarity1
    Active sitei172Proton acceptorBy similarity1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi7 – 12NAD1 Publication6
    Nucleotide bindingi117 – 119NAD1 Publication3

    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

    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)DescriptionActionsGraphical viewLength
    ChainiPRO_00001134801 – 294Malate dehydrogenaseAdd BLAST294

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    STRINGi224325.AF0855.

    Structurei

    Secondary structure

    1294
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi2 – 6Combined sources5
    Helixi10 – 22Combined sources13
    Beta strandi26 – 31Combined sources6
    Helixi35 – 49Combined sources15
    Helixi50 – 52Combined sources3
    Beta strandi57 – 62Combined sources6
    Helixi64 – 67Combined sources4
    Beta strandi71 – 75Combined sources5
    Beta strandi83 – 85Combined sources3
    Helixi87 – 106Combined sources20
    Beta strandi113 – 116Combined sources4
    Beta strandi118 – 120Combined sources3
    Helixi121 – 131Combined sources11
    Beta strandi138 – 141Combined sources4
    Helixi144 – 157Combined sources14
    Beta strandi161 – 163Combined sources3
    Beta strandi168 – 170Combined sources3
    Helixi180 – 182Combined sources3
    Beta strandi185 – 187Combined sources3
    Helixi191 – 199Combined sources9
    Helixi201 – 209Combined sources9
    Helixi214 – 228Combined sources15
    Beta strandi234 – 243Combined sources10
    Helixi244 – 246Combined sources3
    Beta strandi248 – 259Combined sources12
    Beta strandi262 – 265Combined sources4
    Helixi272 – 290Combined sources19
    Turni291 – 293Combined sources3

    3D structure databases

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

    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: November 2, 2016
    This is version 135 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.