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Protein

Malate dehydrogenase, mitochondrial

Gene

MDH1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
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)DescriptionActionsGraphical viewLength
Binding sitei50NADBy similarity1
Binding sitei99SubstratePROSITE-ProRule annotation1
Binding sitei105SubstratePROSITE-ProRule annotation1
Binding sitei112NADBy similarity1
Binding sitei137SubstratePROSITE-ProRule annotation1
Binding sitei171SubstratePROSITE-ProRule annotation1
Active sitei195Proton acceptorBy similarity1
Binding sitei245NADBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi24 – 30NADBy similarity7
Nucleotide bindingi135 – 137NADBy similarity3

GO - Molecular functioni

  • L-malate dehydrogenase activity Source: SGD
  • mRNA binding Source: SGD

GO - Biological processi

  • aerobic respiration Source: SGD
  • carbohydrate metabolic process Source: InterPro
  • chronological cell aging Source: SGD
  • malate metabolic process Source: InterPro
  • replicative cell aging Source: SGD
  • tricarboxylic acid cycle Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciYEAST:YKL085W-MONOMER.
ReactomeiR-SCE-70263. Gluconeogenesis.
R-SCE-71403. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase, mitochondrial (EC:1.1.1.37)
Gene namesi
Name:MDH1
Ordered Locus Names:YKL085W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XI

Organism-specific databases

EuPathDBiFungiDB:YKL085W.
SGDiS000001568. MDH1.

Subcellular locationi

GO - Cellular componenti

  • mitochondrial matrix Source: SGD
  • mitochondrion Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 17Mitochondrion2 PublicationsAdd BLAST17
ChainiPRO_000001863318 – 334Malate dehydrogenase, mitochondrialAdd BLAST317

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei177PhosphoserineCombined sources1
Modified residuei199PhosphothreonineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP17505.
PRIDEiP17505.
TopDownProteomicsiP17505.

2D gel databases

UCD-2DPAGEP17505.

PTM databases

iPTMnetiP17505.

Interactioni

Subunit structurei

Homodimer.

Binary interactionsi

WithEntry#Exp.IntActNotes
SSA2P105922EBI-10594,EBI-8603

Protein-protein interaction databases

BioGridi34048. 69 interactors.
DIPiDIP-5734N.
IntActiP17505. 9 interactors.
MINTiMINT-697512.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1HR9X-ray3.01O/P/Q/R2-9[»]
ProteinModelPortaliP17505.
SMRiP17505.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP17505.

Family & Domainsi

Sequence similaritiesi

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

Keywords - Domaini

Transit peptide

Phylogenomic databases

GeneTreeiENSGT00390000016686.
HOGENOMiHOG000213792.
InParanoidiP17505.
KOiK00026.
OMAiHPVGKIT.
OrthoDBiEOG092C34N7.

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.

Sequence processingi: The displayed sequence is further processed into a mature form.

P17505-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLSRVAKRAF SSTVANPYKV TVLGAGGGIG QPLSLLLKLN HKVTDLRLYD
60 70 80 90 100
LKGAKGVATD LSHIPTNSVV KGFTPEEPDG LNNALKDTDM VLIPAGVPRK
110 120 130 140 150
PGMTRDDLFA INASIVRDLA AATAESAPNA AILVISNPVN STVPIVAQVL
160 170 180 190 200
KNKGVYNPKK LFGVTTLDSI RAARFISEVE NTDPTQERVN VIGGHSGITI
210 220 230 240 250
IPLISQTNHK LMSDDKRHEL IHRIQFGGDE VVKAKNGAGS ATLSMAHAGA
260 270 280 290 300
KFANAVLSGF KGERDVIEPS FVDSPLFKSE GIEFFASPVT LGPDGIEKIH
310 320 330
PIGELSSEEE EMLQKCKETL KKNIEKGVNF VASK
Length:334
Mass (Da):35,650
Last modified:June 1, 1994 - v2
Checksum:i8645C4CDFB9857C8
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti68S → G AA sequence (PubMed:3552052).Curated1
Sequence conflicti306S → F in AAS56240 (PubMed:17322287).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02841 Genomic DNA. Translation: AAA34759.1.
Z28085 Genomic DNA. Translation: CAA81923.1.
AY557914 Genomic DNA. Translation: AAS56240.1.
BK006944 Genomic DNA. Translation: DAA09073.1.
PIRiA31945. DEBYMM.
RefSeqiNP_012838.1. NM_001179651.1.

Genome annotation databases

EnsemblFungiiYKL085W; YKL085W; YKL085W.
GeneIDi853777.
KEGGisce:YKL085W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02841 Genomic DNA. Translation: AAA34759.1.
Z28085 Genomic DNA. Translation: CAA81923.1.
AY557914 Genomic DNA. Translation: AAS56240.1.
BK006944 Genomic DNA. Translation: DAA09073.1.
PIRiA31945. DEBYMM.
RefSeqiNP_012838.1. NM_001179651.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1HR9X-ray3.01O/P/Q/R2-9[»]
ProteinModelPortaliP17505.
SMRiP17505.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34048. 69 interactors.
DIPiDIP-5734N.
IntActiP17505. 9 interactors.
MINTiMINT-697512.

PTM databases

iPTMnetiP17505.

2D gel databases

UCD-2DPAGEP17505.

Proteomic databases

MaxQBiP17505.
PRIDEiP17505.
TopDownProteomicsiP17505.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYKL085W; YKL085W; YKL085W.
GeneIDi853777.
KEGGisce:YKL085W.

Organism-specific databases

EuPathDBiFungiDB:YKL085W.
SGDiS000001568. MDH1.

Phylogenomic databases

GeneTreeiENSGT00390000016686.
HOGENOMiHOG000213792.
InParanoidiP17505.
KOiK00026.
OMAiHPVGKIT.
OrthoDBiEOG092C34N7.

Enzyme and pathway databases

BioCyciYEAST:YKL085W-MONOMER.
ReactomeiR-SCE-70263. Gluconeogenesis.
R-SCE-71403. Citric acid cycle (TCA cycle).

Miscellaneous databases

EvolutionaryTraceiP17505.
PROiP17505.

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 nameiMDHM_YEAST
AccessioniPrimary (citable) accession number: P17505
Secondary accession number(s): D6VXK3, E9P8U0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: June 1, 1994
Last modified: November 2, 2016
This is version 164 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Yeast contains at least 3 malate dehydrogenase isoenzymes: a mitochondrial (MDH1), a cytoplasmic (MDH2) and a peroxisomal (MDH3).
Present with 28100 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XI
    Yeast (Saccharomyces cerevisiae) chromosome XI: entries and gene names

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.