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Protein

Malate dehydrogenase 2, mitochondrial

Gene

At3g15020

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

Functioni

Catalyzes a reversible NAD-dependent dehydrogenase reaction involved in central metabolism and redox homeostasis between organelle compartments (Probable). Required for carbon dioxide and energy partitioning in leaves. May limit photorespiration during the dark phase (PubMed:20876337, PubMed:27208265). Can convert 2-ketoglutarate to L-2-hydroxyglutarate in vitro (PubMed:26203119).1 Publication3 Publications

Catalytic activityi

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

Kineticsi

  1. KM=1.02 mM for oxaloacetate1 Publication
  2. KM=7 mM for 2-ketoglutarate1 Publication
  1. Vmax=0.67 mmol/min/mg enzyme toward oxaloacetate (at pH 7.4)1 Publication
  2. Vmax=0.02 mmol/min/mg enzyme toward malate (at pH 7.4)1 Publication
  3. Vmax=0.08 mmol/min/mg enzyme toward 2-ketoglutarate (at pH 7.4)1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei62NADBy similarity1
Binding sitei109SubstrateBy similarity1
Binding sitei115SubstrateBy similarity1
Binding sitei122NADBy similarity1
Binding sitei147SubstrateBy similarity1
Binding sitei181SubstrateBy similarity1
Active sitei205Proton acceptorBy similarity1
Binding sitei256NADBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi36 – 42NADBy similarity7
Nucleotide bindingi145 – 147NADBy similarity3

GO - Molecular functioni

  • copper ion binding Source: TAIR
  • L-malate dehydrogenase activity Source: TAIR

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. 399.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase 2, mitochondrialCurated (EC:1.1.1.371 Publication)
Alternative name(s):
Mitochondrial MDH21 Publication
Short name:
mMDH11 Publication
Mitochondrial NAD-dependent malate dehydrogenase 2Curated
Short name:
mNAD-MDH 2Curated
Short name:
mtNAD-MDH21 Publication
Gene namesi
Ordered Locus Names:At3g15020
ORF Names:K15M2.16
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G15020.

Subcellular locationi

GO - Cellular componenti

  • apoplast Source: TAIR
  • membrane Source: TAIR
  • mitochondrial matrix Source: UniProtKB-SubCell
  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

Pathology & Biotechi

Disruption phenotypei

No visible phenotype under normal growth conditions, but the double mutant plants mmdh1 and mmdh2 have decreased germination rate, grow slowly, are small, have increased photorespiration and die before producing seeds.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 22MitochondrionBy similarityAdd BLAST22
ChainiPRO_000022414823 – 341Malate dehydrogenase 2, mitochondrialAdd BLAST319

Proteomic databases

PaxDbiQ9LKA3.
PRIDEiQ9LKA3.

PTM databases

iPTMnetiQ9LKA3.

Expressioni

Tissue specificityi

Expressed in rosette leaves at low levels.1 Publication

Gene expression databases

ExpressionAtlasiQ9LKA3. baseline and differential.
GenevisibleiQ9LKA3. AT.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi6065. 1 interactor.
STRINGi3702.AT3G15020.1.

Structurei

3D structure databases

ProteinModelPortaliQ9LKA3.
SMRiQ9LKA3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiQ9LKA3.
KOiK00026.
OMAiPHALVNV.
OrthoDBiEOG09360H2H.
PhylomeDBiQ9LKA3.

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.
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. 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.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q9LKA3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MFRSMIVRSA SPVKQGLLRR GFASESVPDR KVVILGAAGG IGQPLSLLMK
60 70 80 90 100
LNPLVSSLSL YDIANTPGVA ADVGHINTRS QVSGYMGDDD LGKALEGADL
110 120 130 140 150
VIIPAGVPRK PGMTRDDLFN INAGIVKNLS IAIAKYCPQA LVNMISNPVN
160 170 180 190 200
STVPIAAEIF KKAGTYDEKK LFGVTTLDVV RARTFYAGKS DVNVAEVNVP
210 220 230 240 250
VVGGHAGITI LPLFSQASPQ ANLSDDLIRA LTKRTQDGGT EVVEAKAGKG
260 270 280 290 300
SATLSMAYAG ALFADACLKG LNGVPNVVEC SFVQSTITEL PFFASKVRLG
310 320 330 340
KNGVEEVLDL GPLSDFEKEG LEALKAELKS SIEKGIKFAN Q
Length:341
Mass (Da):35,875
Last modified:October 1, 2000 - v1
Checksum:i38364CAE36712AE1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP000370 Genomic DNA. Translation: BAA97065.1.
CP002686 Genomic DNA. Translation: AEE75604.1.
AY045592 mRNA. Translation: AAK73950.1.
AY093788 mRNA. Translation: AAM10404.1.
RefSeqiNP_188120.1. NM_112364.4. [Q9LKA3-1]
UniGeneiAt.6661.
At.75599.

Genome annotation databases

EnsemblPlantsiAT3G15020.1; AT3G15020.1; AT3G15020. [Q9LKA3-1]
GeneIDi820731.
GrameneiAT3G15020.1; AT3G15020.1; AT3G15020.
KEGGiath:AT3G15020.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP000370 Genomic DNA. Translation: BAA97065.1.
CP002686 Genomic DNA. Translation: AEE75604.1.
AY045592 mRNA. Translation: AAK73950.1.
AY093788 mRNA. Translation: AAM10404.1.
RefSeqiNP_188120.1. NM_112364.4. [Q9LKA3-1]
UniGeneiAt.6661.
At.75599.

3D structure databases

ProteinModelPortaliQ9LKA3.
SMRiQ9LKA3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi6065. 1 interactor.
STRINGi3702.AT3G15020.1.

PTM databases

iPTMnetiQ9LKA3.

Proteomic databases

PaxDbiQ9LKA3.
PRIDEiQ9LKA3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G15020.1; AT3G15020.1; AT3G15020. [Q9LKA3-1]
GeneIDi820731.
GrameneiAT3G15020.1; AT3G15020.1; AT3G15020.
KEGGiath:AT3G15020.

Organism-specific databases

TAIRiAT3G15020.

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiQ9LKA3.
KOiK00026.
OMAiPHALVNV.
OrthoDBiEOG09360H2H.
PhylomeDBiQ9LKA3.

Enzyme and pathway databases

BRENDAi1.1.1.37. 399.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Miscellaneous databases

PROiQ9LKA3.

Gene expression databases

ExpressionAtlasiQ9LKA3. baseline and differential.
GenevisibleiQ9LKA3. AT.

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.
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiMDHM2_ARATH
AccessioniPrimary (citable) accession number: Q9LKA3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 21, 2006
Last sequence update: October 1, 2000
Last modified: November 30, 2016
This is version 125 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.