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Protein

Malate dehydrogenase 1, mitochondrial

Gene

At1g53240

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

Functioni

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei62 – 621NADBy similarity
Binding sitei109 – 1091SubstratePROSITE-ProRule annotation
Binding sitei115 – 1151SubstratePROSITE-ProRule annotation
Binding sitei122 – 1221NADBy similarity
Binding sitei147 – 1471SubstratePROSITE-ProRule annotation
Binding sitei181 – 1811SubstratePROSITE-ProRule annotation
Active sitei205 – 2051Proton acceptorBy similarity
Binding sitei256 – 2561NADBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi36 – 427NADBy similarity
Nucleotide bindingi145 – 1473NADBy similarity

GO - Molecular functioni

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

GO - Biological processi

  • carbohydrate metabolic process Source: InterPro
  • defense response to bacterium Source: TAIR
  • malate metabolic process Source: InterPro
  • response to cadmium ion Source: TAIR
  • response to cold Source: TAIR
  • response to salt stress Source: TAIR
  • tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciARA:AT1G53240-MONOMER.
MetaCyc:AT1G53240-MONOMER.
BRENDAi1.1.1.37. 399.
ReactomeiREACT_289406. Citric acid cycle (TCA cycle).
REACT_298151. Gluconeogenesis.

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase 1, mitochondrial (EC:1.1.1.37)
Alternative name(s):
mNAD-MDH 1
Gene namesi
Ordered Locus Names:At1g53240
ORF Names:F12M16.14
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G53240.

Subcellular locationi

GO - Cellular componenti

  • apoplast Source: TAIR
  • cell wall Source: TAIR
  • chloroplast Source: TAIR
  • mitochondrial matrix Source: UniProtKB-SubCell
  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 2222Mitochondrion1 PublicationAdd
BLAST
Chaini23 – 341319Malate dehydrogenase 1, mitochondrialPRO_0000018622Add
BLAST

Proteomic databases

PaxDbiQ9ZP06.
PRIDEiQ9ZP06.

2D gel databases

SWISS-2DPAGEQ9ZP06.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi26982. 1 interaction.
IntActiQ9ZP06. 1 interaction.
STRINGi3702.AT1G53240.1.

Structurei

3D structure databases

ProteinModelPortaliQ9ZP06.
SMRiQ9ZP06. Positions 31-338.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000213792.
InParanoidiQ9ZP06.
KOiK00026.
OMAiALCHEDI.
PhylomeDBiQ9ZP06.

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.
SUPFAMiSSF56327. 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.

Q9ZP06-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFRSMLVRSS ASAKQAVIRR SFSSGSVPER KVAILGAAGG IGQPLALLMK
60 70 80 90 100
LNPLVSSLSL YDIANTPGVA ADVGHINTRS EVVGYMGDDN LAKALEGADL
110 120 130 140 150
VIIPAGVPRK PGMTRDDLFN INAGIVKNLC TAIAKYCPHA LINMISNPVN
160 170 180 190 200
STVPIAAEIF KKAGMYDEKK LFGVTTLDVV RARTFYAGKA NVPVAEVNVP
210 220 230 240 250
VIGGHAGVTI LPLFSQATPQ ANLSSDILTA LTKRTQDGGT EVVEAKAGKG
260 270 280 290 300
SATLSMAYAG ALFADACLKG LNGVPDVIEC SYVQSTITEL PFFASKVRLG
310 320 330 340
KNGVEEVLDL GPLSDFEKEG LEALKPELKS SIEKGVKFAN Q
Length:341
Mass (Da):35,804
Last modified:May 1, 1999 - v1
Checksum:iD035C4C38785BE57
GO

Sequence cautioni

The sequence AAF69549.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti17 – 171V → A in AAM64855 (Ref. 5) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ131205 mRNA. Translation: CAA10320.1.
AC008007 Genomic DNA. Translation: AAF69549.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE32910.1.
AF324670 mRNA. Translation: AAG40021.1.
AF339684 mRNA. Translation: AAK00366.1.
AY062580 mRNA. Translation: AAL32658.1.
AY128783 mRNA. Translation: AAM91183.1.
AY087304 mRNA. Translation: AAM64855.1.
PIRiT51311.
RefSeqiNP_564625.1. NM_104202.2.
UniGeneiAt.23771.

Genome annotation databases

EnsemblPlantsiAT1G53240.1; AT1G53240.1; AT1G53240.
GeneIDi841757.
KEGGiath:AT1G53240.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ131205 mRNA. Translation: CAA10320.1.
AC008007 Genomic DNA. Translation: AAF69549.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE32910.1.
AF324670 mRNA. Translation: AAG40021.1.
AF339684 mRNA. Translation: AAK00366.1.
AY062580 mRNA. Translation: AAL32658.1.
AY128783 mRNA. Translation: AAM91183.1.
AY087304 mRNA. Translation: AAM64855.1.
PIRiT51311.
RefSeqiNP_564625.1. NM_104202.2.
UniGeneiAt.23771.

3D structure databases

ProteinModelPortaliQ9ZP06.
SMRiQ9ZP06. Positions 31-338.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi26982. 1 interaction.
IntActiQ9ZP06. 1 interaction.
STRINGi3702.AT1G53240.1.

2D gel databases

SWISS-2DPAGEQ9ZP06.

Proteomic databases

PaxDbiQ9ZP06.
PRIDEiQ9ZP06.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G53240.1; AT1G53240.1; AT1G53240.
GeneIDi841757.
KEGGiath:AT1G53240.

Organism-specific databases

GeneFarmi2023. 159.
TAIRiAT1G53240.

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000213792.
InParanoidiQ9ZP06.
KOiK00026.
OMAiALCHEDI.
PhylomeDBiQ9ZP06.

Enzyme and pathway databases

BioCyciARA:AT1G53240-MONOMER.
MetaCyc:AT1G53240-MONOMER.
BRENDAi1.1.1.37. 399.
ReactomeiREACT_289406. Citric acid cycle (TCA cycle).
REACT_298151. Gluconeogenesis.

Miscellaneous databases

PROiQ9ZP06.

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.
SUPFAMiSSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A novel, non-redox-regulated NAD-dependent malate dehydrogenase from chloroplasts of Arabidopsis thaliana L."
    Berkemeyer M., Scheibe R., Ocheretina O.
    J. Biol. Chem. 273:27927-27933(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. "Proteomic approach to identify novel mitochondrial proteins in Arabidopsis."
    Kruft V., Eubel H., Jaensch L., Werhahn W., Braun H.-P.
    Plant Physiol. 127:1694-1710(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 23-37, SUBCELLULAR LOCATION.
    Tissue: Leaf and Stem.
  7. "Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins."
    Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H.
    Plant Cell 16:241-256(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Strain: cv. Landsberg erecta.
  8. "Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks."
    Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S.
    Plant Physiol. 150:889-903(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiMDHM1_ARATH
AccessioniPrimary (citable) accession number: Q9ZP06
Secondary accession number(s): Q8LBB9, Q9MAH7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 1999
Last modified: June 24, 2015
This is version 142 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, Direct protein sequencing, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.