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Protein

Malate dehydrogenase 2, peroxisomal

Gene

PMDH2

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

Functioni

Catalyzes a reversible NAD-dependent dehydrogenase reaction involved in central metabolism and redox homeostasis between organelle compartments (Probable). Peroxisomal NAD-dependent malate dehydrogenase involved in fatty acid beta-oxidation. Reoxidizes NADH from the beta-oxidation and provides NAD for the conversion of fatty acyl-CoA to acetyl-CoA. Does not participate directly in the glyoxylate cycle (PubMed:17376163, PubMed:19812894). Required for maintenance of photosynthetic rates under photorespiratory conditions, and carbon flow during photorespiration. Supplies NADH reductant to the peroxisomal hydroxypyruvate reductase (HPR), which reduces hydroxypyruvate into glycerate in the photorespiratory cycle (PubMed:18685043).1 Publication3 Publications

Catalytic activityi

(S)-malate + NAD+ = oxaloacetate + NADH.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei75NADBy similarity1
Binding sitei122SubstrateBy similarity1
Binding sitei128SubstrateBy similarity1
Binding sitei135NADBy similarity1
Binding sitei160SubstrateBy similarity1
Binding sitei194SubstrateBy similarity1
Active sitei218Proton acceptorBy similarity1
Binding sitei269NADBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi49 – 55NADBy similarity7
Nucleotide bindingi158 – 160NADBy similarity3

GO - Molecular functioni

GO - Biological processi

  • glyoxylate cycle Source: UniProtKB-KW
  • malate metabolic process Source: InterPro
  • regulation of fatty acid beta-oxidation Source: UniProtKB
  • regulation of photorespiration Source: UniProtKB
  • tricarboxylic acid cycle Source: UniProtKB-KW

Keywordsi

Molecular functionOxidoreductase
Biological processGlyoxylate bypass, Tricarboxylic acid cycle
LigandNAD

Enzyme and pathway databases

BioCyciARA:AT5G09660-MONOMER
MetaCyc:AT5G09660-MONOMER
ReactomeiR-ATH-70263 Gluconeogenesis
R-ATH-71403 Citric acid cycle (TCA cycle)

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase 2, peroxisomalCurated (EC:1.1.1.37)
Alternative name(s):
Microbody NAD-dependent malate dehydrogenase1 Publication
Short name:
mbNAD-MDH1 Publication
Peroxisomal NAD-dependent malate dehydrogenase 2Curated
Short name:
pxNAD-MDH21 Publication
Peroxisomal malate dehydrogenase 21 Publication
Short name:
Peroxisomal MDH2Curated
Gene namesi
Name:PMDH21 Publication
Ordered Locus Names:At5g09660
ORF Names:F17I14_150, MTH16.8
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

AraportiAT5G09660

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Peroxisome

Pathology & Biotechi

Disruption phenotypei

No visible phenotype under normal growth conditions, but the double mutant plants pmdh1 and pmdh2 show seedling growth arrest 5 days after seed imbibition.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000186341 – 354Malate dehydrogenase 2, peroxisomalAdd BLAST354

Proteomic databases

PaxDbiQ9ZP05
PRIDEiQ9ZP05

Expressioni

Tissue specificityi

Expressed in rosette leaves.1 Publication

Gene expression databases

ExpressionAtlasiQ9ZP05 baseline and differential
GenevisibleiQ9ZP05 AT

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi161031 interactor.
STRINGi3702.AT5G09660.4

Structurei

3D structure databases

ProteinModelPortaliQ9ZP05
SMRiQ9ZP05
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni10 – 18Peroxisomal targeting signal PTS21 Publication9

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG1494 Eukaryota
COG0039 LUCA
HOGENOMiHOG000213792
InParanoidiQ9ZP05
KOiK00026
PhylomeDBiQ9ZP05

Family and domain databases

Gene3Di3.90.110.101 hit
InterProiView protein in InterPro
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
IPR010097 Malate_DH_type1
IPR036291 NAD(P)-bd_dom_sf
PfamiView protein in Pfam
PF02866 Ldh_1_C, 1 hit
PF00056 Ldh_1_N, 1 hit
PIRSFiPIRSF000102 Lac_mal_DH, 1 hit
SUPFAMiSSF51735 SSF51735, 1 hit
SSF56327 SSF56327, 1 hit
TIGRFAMsiTIGR01772 MDH_euk_gproteo, 1 hit
PROSITEiView protein in PROSITE
PS00068 MDH, 1 hit

Sequencei

Sequence statusi: Complete.

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: Q9ZP05-1) [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
MEFRGDANQR IARISAHLTP QMEAKNSVIG RENCRAKGGN PGFKVAILGA
60 70 80 90 100
AGGIGQSLSL LMKMNPLVSL LHLYDVVNAP GVTADVSHMD TGAVVRGFLG
110 120 130 140 150
AKQLEDALTG MDLVIIPAGI PRKPGMTRDD LFKINAGIVK TLCEGVAKCC
160 170 180 190 200
PNAIVNLISN PVNSTVPIAA EVFKKAGTYD PKKLLGVTTL DVARANTFVA
210 220 230 240 250
EVLGLDPREV DVPVVGGHAG VTILPLLSQV KPPSSFTPQE IEYLTNRIQN
260 270 280 290 300
GGTEVVEAKA GAGSATLSMA YAAAKFADAC LRGLRGDANV VECSFVASQV
310 320 330 340 350
TELAFFATKV RLGRTGAEEV YQLGPLNEYE RIGLEKAKDE LAGSIQKGVE

FIRK
Length:354
Mass (Da):37,369
Last modified:May 1, 1999 - v1
Checksum:iAC56EAC7AB025288
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti166V → I in AAL15313 (PubMed:14593172).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ131206 mRNA Translation: CAA10321.1
AB020752 Genomic DNA Translation: BAB09521.1
AL353994 Genomic DNA Translation: CAB89364.1
CP002688 Genomic DNA Translation: AED91422.1
AF428373 mRNA Translation: AAL16303.1
AY037252 mRNA Translation: AAK59853.1
AY057682 mRNA Translation: AAL15313.1
AY077653 mRNA Translation: AAL76131.1
PIRiPA0040
T49932
RefSeqiNP_196528.1, NM_121003.4 [Q9ZP05-1]
UniGeneiAt.40751
At.47611

Genome annotation databases

EnsemblPlantsiAT5G09660.1; AT5G09660.1; AT5G09660 [Q9ZP05-1]
GeneIDi830825
GrameneiAT5G09660.1; AT5G09660.1; AT5G09660 [Q9ZP05-1]
KEGGiath:AT5G09660

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiMDHX2_ARATH
AccessioniPrimary (citable) accession number: Q9ZP05
Secondary accession number(s): Q93ZA7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 1999
Last modified: April 25, 2018
This is version 150 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome