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Protein

Malate dehydrogenase 1, cytoplasmic

Gene

MDH1

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.1 Publication

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei43NADBy similarity1
Binding sitei93SubstrateBy similarity1
Binding sitei99SubstrateBy similarity1
Binding sitei106NADBy similarity1
Binding sitei113NADBy similarity1
Binding sitei132SubstrateBy similarity1
Binding sitei163SubstrateBy similarity1
Active sitei188Proton acceptorBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi12 – 18NADBy similarity7
Nucleotide bindingi130 – 132NADBy similarity3

GO - Molecular functioni

GO - Biological processi

  • carbohydrate metabolic process Source: InterPro
  • malate metabolic process Source: GO_Central
  • NADH metabolic process Source: GO_Central
  • oxaloacetate metabolic process Source: GO_Central
  • response to cadmium ion Source: TAIR
  • response to cytokinin Source: TAIR
  • response to salt stress Source: TAIR
  • response to zinc ion Source: TAIR
  • tricarboxylic acid cycle Source: GO_Central

Keywordsi

Molecular functionOxidoreductase
Biological processTricarboxylic acid cycle
LigandNAD

Enzyme and pathway databases

ReactomeiR-ATH-70263 Gluconeogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase 1, cytoplasmicCurated (EC:1.1.1.37)
Alternative name(s):
Cytosolic NAD-dependent malate dehydrogenase 1Curated
Short name:
cNAD-MDH11 Publication
Cytosolic malate dehydrogenase 11 Publication
Short name:
Cytosolic MDH1Curated
Gene namesi
Name:MDH1
Ordered Locus Names:At1g04410
ORF Names:F19P19.13
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

AraportiAT1G04410
TAIRilocus:2018244 AT1G04410

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

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001134121 – 332Malate dehydrogenase 1, cytoplasmicAdd BLAST332

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki119Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiP93819
PRIDEiP93819

2D gel databases

SWISS-2DPAGEiP93819

PTM databases

iPTMnetiP93819

Expressioni

Tissue specificityi

Expressed in rosette leaves.1 Publication

Gene expression databases

ExpressionAtlasiP93819 baseline and differential
GenevisibleiP93819 AT

Interactioni

Subunit structurei

Homodimer (By similarity). Interacts with 14-3-3-like proteins GRF1 GRF3 and GRF8 (PubMed:22104211).By similarity1 Publication

Protein-protein interaction databases

BioGridi24762, 9 interactors
IntActiP93819, 4 interactors
STRINGi3702.AT1G04410.1

Structurei

Secondary structure

1332
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi6 – 11Combined sources6
Turni12 – 14Combined sources3
Helixi16 – 26Combined sources11
Turni27 – 31Combined sources5
Beta strandi37 – 42Combined sources6
Helixi45 – 47Combined sources3
Helixi48 – 60Combined sources13
Beta strandi66 – 73Combined sources8
Helixi75 – 79Combined sources5
Beta strandi83 – 87Combined sources5
Helixi99 – 120Combined sources22
Beta strandi126 – 129Combined sources4
Beta strandi131 – 133Combined sources3
Helixi134 – 144Combined sources11
Helixi150 – 152Combined sources3
Beta strandi153 – 155Combined sources3
Helixi158 – 172Combined sources15
Helixi176 – 178Combined sources3
Beta strandi183 – 186Combined sources4
Beta strandi193 – 195Combined sources3
Beta strandi200 – 203Combined sources4
Beta strandi206 – 209Combined sources4
Helixi210 – 214Combined sources5
Helixi217 – 221Combined sources5
Helixi223 – 229Combined sources7
Helixi231 – 239Combined sources9
Helixi245 – 260Combined sources16
Beta strandi268 – 273Combined sources6
Helixi277 – 279Combined sources3
Beta strandi284 – 293Combined sources10
Beta strandi296 – 299Combined sources4
Helixi307 – 330Combined sources24

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5NUEX-ray1.35A/B/C1-332[»]
5NUFX-ray1.80A/B/C1-332[»]
ProteinModelPortaliP93819
SMRiP93819
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the LDH/MDH superfamily. MDH type 2 family.Curated

Phylogenomic databases

eggNOGiKOG1496 Eukaryota
COG0039 LUCA
HOGENOMiHOG000220953
InParanoidiP93819
KOiK00025
OMAiYPDVHHC
OrthoDBiEOG09360G1U
PhylomeDBiP93819

Family and domain databases

CDDicd01336 MDH_cytoplasmic_cytosolic, 1 hit
Gene3Di3.90.110.10, 1 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
IPR011274 Malate_DH_NAD-dep_euk
IPR010945 Malate_DH_type2
IPR036291 NAD(P)-bd_dom_sf
PANTHERiPTHR23382 PTHR23382, 1 hit
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
TIGRFAMsiTIGR01759 MalateDH-SF1, 1 hit
TIGR01758 MDH_euk_cyt, 1 hit
PROSITEiView protein in PROSITE
PS00068 MDH, 1 hit

Sequencei

Sequence statusi: Complete.

P93819-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKEPVRVLV TGAAGQIGYA LVPMIARGIM LGADQPVILH MLDIPPAAEA
60 70 80 90 100
LNGVKMELID AAFPLLKGVV ATTDAVEGCT GVNVAVMVGG FPRKEGMERK
110 120 130 140 150
DVMSKNVSIY KSQAAALEKH AAPNCKVLVV ANPANTNALI LKEFAPSIPE
160 170 180 190 200
KNISCLTRLD HNRALGQISE RLSVPVSDVK NVIIWGNHSS SQYPDVNHAK
210 220 230 240 250
VQTSSGEKPV RELVKDDAWL DGEFISTVQQ RGAAIIKARK LSSALSAASS
260 270 280 290 300
ACDHIRDWVL GTPEGTFVSM GVYSDGSYSV PSGLIYSFPV TCRNGDWSIV
310 320 330
QGLPIDEVSR KKMDLTAEEL KEEKDLAYSC LS
Length:332
Mass (Da):35,571
Last modified:January 1, 1998 - v2
Checksum:iC85D11E2BDFF556D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC000104 Genomic DNA Translation: AAB70434.1
CP002684 Genomic DNA Translation: AEE27694.1
AY050374 mRNA Translation: AAK91392.1
AY065134 mRNA Translation: AAL38310.1
AY081563 mRNA Translation: AAM10125.1
AY133655 mRNA Translation: AAM91485.1
AY088023 mRNA Translation: AAM65569.1
PIRiB86176
RefSeqiNP_171936.1, NM_100321.3
UniGeneiAt.11041
At.47261

Genome annotation databases

EnsemblPlantsiAT1G04410.1; AT1G04410.1; AT1G04410
GeneIDi839527
GrameneiAT1G04410.1; AT1G04410.1; AT1G04410
KEGGiath:AT1G04410

Similar proteinsi

Entry informationi

Entry nameiMDHC1_ARATH
AccessioniPrimary (citable) accession number: P93819
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: January 1, 1998
Last modified: April 25, 2018
This is version 160 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
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Main funding by: National Institutes of Health