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Protein

NAD-dependent malic enzyme 1, mitochondrial

Gene

NAD-ME1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the regulation of sugars and amino acids metabolisms during the night period.1 Publication

Catalytic activityi

(S)-malate + NAD+ = pyruvate + CO2 + NADH.2 Publications

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Divalent metal cations. Prefers magnesium or manganese.By similarity

Enzyme regulationi

Activated by oxaloacetate (OAA), 2-ketoglutarate, succinate and fumarate as homodimer and by OAA, 2-ketoglutarate, succinate, fumarate and coenzyme A (acetyl-CoA and CoA) as heterodimer NAD-MEH.2 Publications

Kineticsi

kcat is 31.1 sec(-1) for the homodimer and 39 sec(-1) for the NAD-MEH heterodimer with NAD as substrate. In the presence of coenzyme A (CoA), kcat is 40.6 sec(-1) for the NAD-MEH heterodimer with NAD as substrate.

  1. KM=0.5 mM for NAD (homodimer)2 Publications
  2. KM=0.55 mM for NAD (NAD-MEH heterodimer)2 Publications
  3. KM=3 mM for L-malate (homodimer)2 Publications
  4. KM=2.7 mM for L-malate (NAD-MEH heterodimer)2 Publications
  5. KM=0.8 mM for L-malate (NAD-MEH heterodimer in the presence of coenzyme A (CoA))2 Publications

    pH dependencei

    Optimum pH is 6.4 for homodimer and 6.5 for NAD-MEH heterodimer. In the presence of coenzyme A (CoA), optimum pH is 6.8 for NAD-MEH heterodimer.2 Publications

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei122 – 1221Required for fumarate-mediated allosteric activation
    Active sitei143 – 1431Proton donorBy similarity
    Binding sitei196 – 1961NADBy similarity
    Active sitei214 – 2141Proton acceptorBy similarity
    Metal bindingi285 – 2851Divalent metal cationBy similarity
    Metal bindingi286 – 2861Divalent metal cationBy similarity
    Metal bindingi309 – 3091Divalent metal cationBy similarity
    Binding sitei309 – 3091NADBy similarity
    Sitei309 – 3091Important for activityBy similarity
    Binding sitei464 – 4641NADBy similarity

    GO - Molecular functioni

    • ATP binding Source: TAIR
    • cobalt ion binding Source: TAIR
    • malate dehydrogenase (decarboxylating) (NAD+) activity Source: TAIR
    • NAD binding Source: InterPro
    • protein homodimerization activity Source: UniProtKB
    • zinc ion binding Source: TAIR

    GO - Biological processi

    • malate metabolic process Source: TAIR
    • response to salt stress Source: TAIR
    Complete GO annotation...

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    Metal-binding, NAD

    Enzyme and pathway databases

    BioCyciARA:AT2G13560-MONOMER.
    BRENDAi1.1.1.39. 399.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    NAD-dependent malic enzyme 1, mitochondrial (EC:1.1.1.39)
    Short name:
    AtNAD-ME1
    Short name:
    NAD-malic enzyme 1
    Gene namesi
    Name:NAD-ME1
    Ordered Locus Names:At2g13560
    ORF Names:T10F5.10
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    Proteomesi
    • UP000006548 Componenti: Chromosome 2

    Organism-specific databases

    TAIRiAT2G13560.

    Subcellular locationi

    GO - Cellular componenti

    • chloroplast Source: TAIR
    • mitochondrion Source: TAIR
    Complete GO annotation...

    Keywords - Cellular componenti

    Mitochondrion

    Pathology & Biotechi

    Disruption phenotypei

    When associated with NAD-ME2 disruption, loss of NAD-dependent malic enzyme activity associated with an altered steady-state levels of sugars and amino acids at the end of the light period.1 Publication

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi122 – 1221R → A: Impaired fumarate-mediated allosteric activation. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 3838MitochondrionSequence analysisAdd
    BLAST
    Chaini39 – 623585NAD-dependent malic enzyme 1, mitochondrialPRO_0000420147Add
    BLAST

    Proteomic databases

    PaxDbiQ9SIU0.
    PRIDEiQ9SIU0.

    Expressioni

    Tissue specificityi

    Expressed in leaves, stems, flowers, and roots (at protein level).2 Publications

    Developmental stagei

    In flowers, mostly present in sepals, stigmatic papillae, gynoecium (apical part) and filaments. Excluded from anthers (at protein level). In developing siliques, localized in the apical part and the abscission zone. In seedlings, expressed in cotyledons, hypocotyls, and root tip. Accumulates slowly in leaves as they mature, in the mesophyll and the cells that surround the vascular bundles.2 Publications

    Inductioni

    Accumulates during the night period (at protein level).1 Publication

    Gene expression databases

    GenevisibleiQ9SIU0. AT.

    Interactioni

    Subunit structurei

    Homodimer. Heterodimer of two related subunits in NAD-MEH complex. Interacts with NAD-ME2.3 Publications

    GO - Molecular functioni

    • protein homodimerization activity Source: UniProtKB

    Protein-protein interaction databases

    BioGridi1203. 2 interactions.
    STRINGi3702.AT2G13560.1.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9SIU0.
    SMRiQ9SIU0. Positions 44-619.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the malic enzymes family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiKOG1257. Eukaryota.
    COG0281. LUCA.
    HOGENOMiHOG000042486.
    InParanoidiQ9SIU0.
    KOiK00028.
    OMAiECLAAYM.
    OrthoDBiEOG093606EM.
    PhylomeDBiQ9SIU0.

    Family and domain databases

    Gene3Di3.40.50.10380. 1 hit.
    3.40.50.720. 1 hit.
    InterProiIPR015884. Malic_enzyme_CS.
    IPR012301. Malic_N_dom.
    IPR012302. Malic_NAD-bd.
    IPR001891. Malic_OxRdtase.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PfamiPF00390. malic. 1 hit.
    PF03949. Malic_M. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000106. ME. 1 hit.
    PRINTSiPR00072. MALOXRDTASE.
    SMARTiSM01274. malic. 1 hit.
    SM00919. Malic_M. 1 hit.
    [Graphical view]
    SUPFAMiSSF51735. SSF51735. 1 hit.
    PROSITEiPS00331. MALIC_ENZYMES. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q9SIU0-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MGIANKLRLS SSSLSRILHR RILYSSAVRS FTTSEGHRPT IVHKQGLDIL
    60 70 80 90 100
    HDPWFNKGTA FTMTERNRLD LRGLLPPNVM DSEQQIFRFM TDLKRLEEQA
    110 120 130 140 150
    RDGPSDPNAL AKWRILNRLH DRNETMYYKV LINNIEEYAP IVYTPTVGLV
    160 170 180 190 200
    CQNYSGLFRR PRGMYFSAED RGEMMSMVYN WPAEQVDMIV VTDGSRILGL
    210 220 230 240 250
    GDLGVHGIGI AVGKLDLYVA AAGINPQRVL PVMIDVGTNN EKLRNDPMYL
    260 270 280 290 300
    GLQQRRLEDD DYIDVIDEFM EAVYTRWPHV IVQFEDFQSK WAFKLLQRYR
    310 320 330 340 350
    CTYRMFNDDV QGTAGVAIAG LLGAVRAQGR PMIDFPKMKI VVAGAGSAGI
    360 370 380 390 400
    GVLNAARKTM ARMLGNTETA FDSAQSQFWV VDAQGLITEG RENIDPEAQP
    410 420 430 440 450
    FARKTKEMER QGLKEGATLV EVVREVKPDV LLGLSAVGGL FSKEVLEAMK
    460 470 480 490 500
    GSTSTRPAIF AMSNPTKNAE CTPQDAFSIL GENMIFASGS PFKNVEFGNG
    510 520 530 540 550
    HVGHCNQGNN MYLFPGIGLG TLLSGAPIVS DGMLQAASEC LAAYMSEEEV
    560 570 580 590 600
    LEGIIYPPIS RIRDITKRIA AAVIKEAIEE DLVEGYREMD AREIQKLDEE
    610 620
    GLMEYVENNM WNPEYPTLVY KDD
    Length:623
    Mass (Da):69,656
    Last modified:May 1, 2000 - v1
    Checksum:iC4A83798797E786E
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AC007063 Genomic DNA. Translation: AAD22679.1.
    CP002685 Genomic DNA. Translation: AEC06242.1.
    AY091108 mRNA. Translation: AAM14058.1.
    BT000996 mRNA. Translation: AAN41396.1.
    PIRiE84508.
    RefSeqiNP_178980.1. NM_126936.3.
    UniGeneiAt.28033.

    Genome annotation databases

    EnsemblPlantsiAT2G13560.1; AT2G13560.1; AT2G13560.
    GeneIDi815842.
    GrameneiAT2G13560.1; AT2G13560.1; AT2G13560.
    KEGGiath:AT2G13560.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AC007063 Genomic DNA. Translation: AAD22679.1.
    CP002685 Genomic DNA. Translation: AEC06242.1.
    AY091108 mRNA. Translation: AAM14058.1.
    BT000996 mRNA. Translation: AAN41396.1.
    PIRiE84508.
    RefSeqiNP_178980.1. NM_126936.3.
    UniGeneiAt.28033.

    3D structure databases

    ProteinModelPortaliQ9SIU0.
    SMRiQ9SIU0. Positions 44-619.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi1203. 2 interactions.
    STRINGi3702.AT2G13560.1.

    Proteomic databases

    PaxDbiQ9SIU0.
    PRIDEiQ9SIU0.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblPlantsiAT2G13560.1; AT2G13560.1; AT2G13560.
    GeneIDi815842.
    GrameneiAT2G13560.1; AT2G13560.1; AT2G13560.
    KEGGiath:AT2G13560.

    Organism-specific databases

    TAIRiAT2G13560.

    Phylogenomic databases

    eggNOGiKOG1257. Eukaryota.
    COG0281. LUCA.
    HOGENOMiHOG000042486.
    InParanoidiQ9SIU0.
    KOiK00028.
    OMAiECLAAYM.
    OrthoDBiEOG093606EM.
    PhylomeDBiQ9SIU0.

    Enzyme and pathway databases

    BioCyciARA:AT2G13560-MONOMER.
    BRENDAi1.1.1.39. 399.

    Miscellaneous databases

    PROiQ9SIU0.

    Gene expression databases

    GenevisibleiQ9SIU0. AT.

    Family and domain databases

    Gene3Di3.40.50.10380. 1 hit.
    3.40.50.720. 1 hit.
    InterProiIPR015884. Malic_enzyme_CS.
    IPR012301. Malic_N_dom.
    IPR012302. Malic_NAD-bd.
    IPR001891. Malic_OxRdtase.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PfamiPF00390. malic. 1 hit.
    PF03949. Malic_M. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000106. ME. 1 hit.
    PRINTSiPR00072. MALOXRDTASE.
    SMARTiSM01274. malic. 1 hit.
    SM00919. Malic_M. 1 hit.
    [Graphical view]
    SUPFAMiSSF51735. SSF51735. 1 hit.
    PROSITEiPS00331. MALIC_ENZYMES. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiMAO1_ARATH
    AccessioniPrimary (citable) accession number: Q9SIU0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 31, 2012
    Last sequence update: May 1, 2000
    Last modified: September 7, 2016
    This is version 108 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    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.