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Protein

Malate dehydrogenase 1, peroxisomal

Gene

PMDH1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript 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: TAIR
  • regulation of photorespiration Source: TAIR
  • tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glyoxylate bypass, Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciARA:AT2G22780-MONOMER.
MetaCyc:AT2G22780-MONOMER.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase 1, peroxisomalCurated (EC:1.1.1.37)
Alternative name(s):
Peroxisomal NAD-dependent malate dehydrogenase 1Curated
Short name:
pxNAD-MDH11 Publication
Peroxisomal malate dehydrogenase 11 Publication
Short name:
Peroxisomal MDH1Curated
Gene namesi
Name:PMDH11 Publication
Ordered Locus Names:At2g22780
ORF Names:T30L20.4
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

TAIRiAT2G22780.

Subcellular locationi

GO - Cellular componenti

  • chloroplast Source: TAIR
  • glyoxysome Source: UniProtKB-SubCell
  • peroxisome Source: TAIR
Complete GO annotation...

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_00000186351 – 354Malate dehydrogenase 1, peroxisomalAdd BLAST354

Proteomic databases

PaxDbiO82399.
PRIDEiO82399.

Expressioni

Tissue specificityi

Expressed in rosette leaves at low levels.1 Publication

Gene expression databases

ExpressionAtlasiO82399. baseline and differential.
GenevisibleiO82399. AT.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi2161. 2 interactors.
IntActiO82399. 1 interactor.
STRINGi3702.AT2G22780.1.

Structurei

3D structure databases

ProteinModelPortaliO82399.
SMRiO82399.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni6 – 14Peroxisomal targeting signal PTS21 Publication9

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiO82399.
KOiK00026.
OMAiPKKLMGV.
OrthoDBiEOG09360DTC.
PhylomeDBiO82399.

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.

O82399-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDPNQRIARI SAHLNPPNLH NQIADGSGLN RVACRAKGGS PGFKVAILGA
60 70 80 90 100
AGGIGQPLAM LMKMNPLVSV LHLYDVANAP GVTADISHMD TSAVVRGFLG
110 120 130 140 150
QPQLEEALTG MDLVIIPAGV PRKPGMTRDD LFNINAGIVR TLSEAIAKCC
160 170 180 190 200
PKAIVNIISN PVNSTVPIAA EVFKKAGTFD PKKLMGVTML DVVRANTFVA
210 220 230 240 250
EVMSLDPREV EVPVVGGHAG VTILPLLSQV KPPCSFTQKE IEYLTDRIQN
260 270 280 290 300
GGTEVVEAKA GAGSATLSMA YAAVEFADAC LRGLRGDANI VECAYVASHV
310 320 330 340 350
TELPFFASKV RLGRCGIDEV YGLGPLNEYE RMGLEKAKKE LSVSIHKGVT

FAKK
Length:354
Mass (Da):37,466
Last modified:November 1, 1998 - v1
Checksum:i715CDC22B4448629
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC005617 Genomic DNA. Translation: AAC63589.1.
CP002685 Genomic DNA. Translation: AEC07353.1.
AF428346 mRNA. Translation: AAL16276.1.
BT003009 mRNA. Translation: AAO23574.1.
PIRiG84616.
RefSeqiNP_179863.1. NM_127843.5.
UniGeneiAt.13158.

Genome annotation databases

EnsemblPlantsiAT2G22780.1; AT2G22780.1; AT2G22780.
GeneIDi816808.
GrameneiAT2G22780.1; AT2G22780.1; AT2G22780.
KEGGiath:AT2G22780.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC005617 Genomic DNA. Translation: AAC63589.1.
CP002685 Genomic DNA. Translation: AEC07353.1.
AF428346 mRNA. Translation: AAL16276.1.
BT003009 mRNA. Translation: AAO23574.1.
PIRiG84616.
RefSeqiNP_179863.1. NM_127843.5.
UniGeneiAt.13158.

3D structure databases

ProteinModelPortaliO82399.
SMRiO82399.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi2161. 2 interactors.
IntActiO82399. 1 interactor.
STRINGi3702.AT2G22780.1.

Proteomic databases

PaxDbiO82399.
PRIDEiO82399.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G22780.1; AT2G22780.1; AT2G22780.
GeneIDi816808.
GrameneiAT2G22780.1; AT2G22780.1; AT2G22780.
KEGGiath:AT2G22780.

Organism-specific databases

TAIRiAT2G22780.

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiO82399.
KOiK00026.
OMAiPKKLMGV.
OrthoDBiEOG09360DTC.
PhylomeDBiO82399.

Enzyme and pathway databases

BioCyciARA:AT2G22780-MONOMER.
MetaCyc:AT2G22780-MONOMER.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Miscellaneous databases

PROiO82399.

Gene expression databases

ExpressionAtlasiO82399. baseline and differential.
GenevisibleiO82399. 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 nameiMDHX1_ARATH
AccessioniPrimary (citable) accession number: O82399
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1998
Last modified: November 30, 2016
This is version 135 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.