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Protein

Malate dehydrogenase, cytoplasmic 1

Gene

MDH1

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 sitei93 – 931SubstratePROSITE-ProRule annotation
Binding sitei99 – 991SubstratePROSITE-ProRule annotation
Binding sitei106 – 1061NADBy similarity
Binding sitei113 – 1131NADBy similarity
Binding sitei132 – 1321SubstratePROSITE-ProRule annotation
Binding sitei163 – 1631SubstratePROSITE-ProRule annotation
Active sitei188 – 1881Proton acceptorBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi12 – 187NADBy similarity
Nucleotide bindingi130 – 1323NADBy similarity

GO - Molecular functioni

GO - Biological processi

  • carbohydrate metabolic process Source: InterPro
  • malate metabolic process Source: InterPro
  • 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: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

ReactomeiREACT_298151. Gluconeogenesis.

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase, cytoplasmic 1 (EC:1.1.1.37)
Gene namesi
Name:MDH1
Ordered Locus Names:At1g04410
ORF Names:F19P19.13
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G04410.

Subcellular locationi

GO - Cellular componenti

  • apoplast Source: TAIR
  • chloroplast Source: TAIR
  • chloroplast stroma Source: TAIR
  • membrane Source: TAIR
  • nucleus Source: TAIR
  • plasma membrane Source: TAIR
  • plasmodesma Source: TAIR
  • vacuolar membrane Source: TAIR
  • vacuole Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 332332Malate dehydrogenase, cytoplasmic 1PRO_0000113412Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Cross-linki119 – 119Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication

Post-translational modificationi

Ubiquitinated.1 Publication

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiP93819.
PRIDEiP93819.

2D gel databases

SWISS-2DPAGEP93819.

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 interactions.
IntActiP93819. 4 interactions.
STRINGi3702.AT1G04410.1.

Structurei

3D structure databases

ProteinModelPortaliP93819.
SMRiP93819. Positions 4-332.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000220953.
InParanoidiP93819.
KOiK00025.
OMAiWNNDVFL.
PhylomeDBiP93819.

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.
IPR011274. Malate_DH_NAD-dep_euk.
IPR010945. Malate_DH_type2.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR23382. PTHR23382. 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.
TIGRFAMsiTIGR01759. MalateDH-SF1. 1 hit.
TIGR01758. MDH_euk_cyt. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]

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_100321.2.
UniGeneiAt.11041.
At.47261.

Genome annotation databases

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

Cross-referencesi

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_100321.2.
UniGeneiAt.11041.
At.47261.

3D structure databases

ProteinModelPortaliP93819.
SMRiP93819. Positions 4-332.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi24762. 9 interactions.
IntActiP93819. 4 interactions.
STRINGi3702.AT1G04410.1.

2D gel databases

SWISS-2DPAGEP93819.

Proteomic databases

PaxDbiP93819.
PRIDEiP93819.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

TAIRiAT1G04410.

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000220953.
InParanoidiP93819.
KOiK00025.
OMAiWNNDVFL.
PhylomeDBiP93819.

Enzyme and pathway databases

ReactomeiREACT_298151. Gluconeogenesis.

Miscellaneous databases

PROiP93819.

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.
IPR011274. Malate_DH_NAD-dep_euk.
IPR010945. Malate_DH_type2.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR23382. PTHR23382. 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.
TIGRFAMsiTIGR01759. MalateDH-SF1. 1 hit.
TIGR01758. MDH_euk_cyt. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "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.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "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.
  4. "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].
  5. "Tandem affinity purification and mass spectrometric analysis of ubiquitylated proteins in Arabidopsis."
    Saracco S.A., Hansson M., Scalf M., Walker J.M., Smith L.M., Vierstra R.D.
    Plant J. 59:344-358(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-119.
  6. "Determining novel functions of Arabidopsis 14-3-3 proteins in central metabolic processes."
    Diaz C., Kusano M., Sulpice R., Araki M., Redestig H., Saito K., Stitt M., Shin R.
    BMC Syst. Biol. 5:192-192(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH GRF1; GRF3 AND GRF8.

Entry informationi

Entry nameiMDHC1_ARATH
AccessioniPrimary (citable) accession number: P93819
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: January 1, 1998
Last modified: July 22, 2015
This is version 140 of the entry and version 2 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

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.