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P32419

- MDHP_YEAST

UniProt

P32419 - MDHP_YEAST

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Protein

Malate dehydrogenase, peroxisomal

Gene

MDH3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - 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 sitei34 – 341NADBy similarity
Binding sitei80 – 801SubstratePROSITE-ProRule annotation
Binding sitei86 – 861SubstratePROSITE-ProRule annotation
Binding sitei93 – 931NADBy similarity
Binding sitei118 – 1181SubstratePROSITE-ProRule annotation
Binding sitei152 – 1521SubstratePROSITE-ProRule annotation
Active sitei187 – 1871Proton acceptorBy similarity
Binding sitei237 – 2371NADBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi8 – 147NADBy similarity
Nucleotide bindingi116 – 1183NADBy similarity

GO - Molecular functioni

  1. L-malate dehydrogenase activity Source: SGD
  2. mRNA binding Source: SGD

GO - Biological processi

  1. fatty acid beta-oxidation Source: SGD
  2. glyoxylate cycle Source: UniProtKB-KW
  3. malate metabolic process Source: InterPro
  4. NADH regeneration Source: SGD
  5. 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

BioCyciYEAST:YDL078C-MONOMER.
ReactomeiREACT_235985. Gluconeogenesis.
REACT_245486. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase, peroxisomal (EC:1.1.1.37)
Gene namesi
Name:MDH3
Ordered Locus Names:YDL078C
ORF Names:D2468
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome IV

Organism-specific databases

SGDiS000002236. MDH3.

Subcellular locationi

GO - Cellular componenti

  1. peroxisomal matrix Source: SGD
  2. peroxisome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Peroxisome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 343342Malate dehydrogenase, peroxisomalPRO_0000113342Add
BLAST

Proteomic databases

MaxQBiP32419.
PaxDbiP32419.
PeptideAtlasiP32419.
PRIDEiP32419.

2D gel databases

UCD-2DPAGEP32419.

Expressioni

Gene expression databases

GenevestigatoriP32419.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

BioGridi31983. 64 interactions.
DIPiDIP-6473N.
IntActiP32419. 6 interactions.
MINTiMINT-614591.
STRINGi4932.YDL078C.

Structurei

3D structure databases

ProteinModelPortaliP32419.
SMRiP32419. Positions 3-337.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0039.
GeneTreeiENSGT00550000075847.
HOGENOMiHOG000213792.
InParanoidiP32419.
KOiK00026.
OMAiLGTHGVE.
OrthoDBiEOG7GJ6Q7.

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.

P32419-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVKVAILGAS GGVGQPLSLL LKLSPYVSEL ALYDIRAAEG IGKDLSHINT
60 70 80 90 100
NSSCVGYDKD SIENTLSNAQ VVLIPAGVPR KPGLTRDDLF KMNAGIVKSL
110 120 130 140 150
VTAVGKFAPN ARILVISNPV NSLVPIAVET LKKMGKFKPG NVMGVTNLDL
160 170 180 190 200
VRAETFLVDY LMLKNPKIGQ EQDKTTMHRK VTVIGGHSGE TIIPIITDKS
210 220 230 240 250
LVFQLDKQYE HFIHRVQFGG DEIVKAKQGA GSATLSMAFA GAKFAEEVLR
260 270 280 290 300
SFHNEKPETE SLSAFVYLPG LKNGKKAQQL VGDNSIEYFS LPIVLRNGSV
310 320 330 340
VSIDTSVLEK LSPREEQLVN TAVKELRKNI EKGKSFILDS SKL
Length:343
Mass (Da):37,186
Last modified:January 23, 2007 - v3
Checksum:i54725114B2CAD6A5
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti240 – 2401A → R in AAA34767. (PubMed:1447211)Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M98763 Genomic DNA. Translation: AAA34767.1.
Z74126 Genomic DNA. Translation: CAA98644.1.
BK006938 Genomic DNA. Translation: DAA11781.1.
PIRiS67614. DEBYMP.
RefSeqiNP_010205.1. NM_001180137.1.

Genome annotation databases

EnsemblFungiiYDL078C; YDL078C; YDL078C.
GeneIDi851481.
KEGGisce:YDL078C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M98763 Genomic DNA. Translation: AAA34767.1 .
Z74126 Genomic DNA. Translation: CAA98644.1 .
BK006938 Genomic DNA. Translation: DAA11781.1 .
PIRi S67614. DEBYMP.
RefSeqi NP_010205.1. NM_001180137.1.

3D structure databases

ProteinModelPortali P32419.
SMRi P32419. Positions 3-337.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 31983. 64 interactions.
DIPi DIP-6473N.
IntActi P32419. 6 interactions.
MINTi MINT-614591.
STRINGi 4932.YDL078C.

2D gel databases

UCD-2DPAGE P32419.

Proteomic databases

MaxQBi P32419.
PaxDbi P32419.
PeptideAtlasi P32419.
PRIDEi P32419.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YDL078C ; YDL078C ; YDL078C .
GeneIDi 851481.
KEGGi sce:YDL078C.

Organism-specific databases

SGDi S000002236. MDH3.

Phylogenomic databases

eggNOGi COG0039.
GeneTreei ENSGT00550000075847.
HOGENOMi HOG000213792.
InParanoidi P32419.
KOi K00026.
OMAi LGTHGVE.
OrthoDBi EOG7GJ6Q7.

Enzyme and pathway databases

BioCyci YEAST:YDL078C-MONOMER.
Reactomei REACT_235985. Gluconeogenesis.
REACT_245486. Citric acid cycle (TCA cycle).

Miscellaneous databases

NextBioi 968795.

Gene expression databases

Genevestigatori P32419.

Family and domain databases

Gene3Di 3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
InterProi 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.
IPR010097. Malate_DH_type1.
IPR016040. NAD(P)-bd_dom.
[Graphical view ]
PANTHERi PTHR11540. PTHR11540. 1 hit.
Pfami PF02866. Ldh_1_C. 1 hit.
PF00056. Ldh_1_N. 1 hit.
[Graphical view ]
PIRSFi PIRSF000102. Lac_mal_DH. 1 hit.
SUPFAMi SSF56327. SSF56327. 1 hit.
TIGRFAMsi TIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEi PS00068. MDH. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation and characterization of the yeast gene encoding the MDH3 isozyme of malate dehydrogenase."
    Steffan J.S., McAlister-Henn L.
    J. Biol. Chem. 267:24708-24715(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 2-16; 23-36 AND 153-167.
  2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
    Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
    , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
    Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiMDHP_YEAST
AccessioniPrimary (citable) accession number: P32419
Secondary accession number(s): D6VRS1, Q12689
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: January 23, 2007
Last modified: November 26, 2014
This is version 135 of the entry and version 3 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 3300 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

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

External Data

Dasty 3