P32419 (MDHP_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Malate dehydrogenase, peroxisomal
EC=1.1.1.37

Gene names

Name:	MDH3
Ordered Locus Names:	YDL078C
ORF Names:	D2468

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	343 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Catalytic activity	(S)-malate + NAD+ = oxaloacetate + NADH.
Subunit structure	Homodimer.
Subcellular location	Peroxisome.
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. Ref.4
Sequence similarities	Belongs to the LDH/MDH superfamily. MDH type 1 family.

Ontologies

Keywords
Biological process	Glyoxylate bypass Tricarboxylic acid cycle
Cellular component	Peroxisome
Ligand	NAD
Molecular function	Oxidoreductase
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	NADH regeneration Traceable author statement. Source: SGD fatty acid beta-oxidation Traceable author statement. Source: SGD glyoxylate cycle Traceable author statement. Source: SGD malate metabolic process Traceable author statement. Source: SGD tricarboxylic acid cycle Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	peroxisome Inferred from direct assay Ref.1. Source: SGD
Molecular function	L-malate dehydrogenase activity Inferred from mutant phenotype. Source: SGD mRNA binding Inferred from direct assay. Source: SGD nucleotide binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed Ref.1
	Chain	2 – 343	342	Malate dehydrogenase, peroxisomal		PRO_0000113342
Regions
	Nucleotide binding	8 – 14	7	NAD By similarity
	Nucleotide binding	116 – 118	3	NAD By similarity
Sites
	Active site	187	1	Proton acceptor By similarity
	Binding site	34	1	NAD By similarity
	Binding site	80	1	Substrate By similarity
	Binding site	86	1	Substrate By similarity
	Binding site	93	1	NAD By similarity
	Binding site	118	1	Substrate By similarity
	Binding site	152	1	Substrate By similarity
	Binding site	237	1	NAD By similarity
Experimental info
	Sequence conflict	240	1	A → R in AAA34767. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P32419 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 54725114B2CAD6A5	FASTA	343	37,186
	10 20 30 40 50 60 MVKVAILGAS GGVGQPLSLL LKLSPYVSEL ALYDIRAAEG IGKDLSHINT NSSCVGYDKD 70 80 90 100 110 120 SIENTLSNAQ VVLIPAGVPR KPGLTRDDLF KMNAGIVKSL VTAVGKFAPN ARILVISNPV 130 140 150 160 170 180 NSLVPIAVET LKKMGKFKPG NVMGVTNLDL VRAETFLVDY LMLKNPKIGQ EQDKTTMHRK 190 200 210 220 230 240 VTVIGGHSGE TIIPIITDKS LVFQLDKQYE HFIHRVQFGG DEIVKAKQGA GSATLSMAFA 250 260 270 280 290 300 GAKFAEEVLR SFHNEKPETE SLSAFVYLPG LKNGKKAQQL VGDNSIEYFS LPIVLRNGSV 310 320 330 340 VSIDTSVLEK LSPREEQLVN TAVKELRKNI EKGKSFILDS SKL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 1447211] [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: 9169867] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M98763 Genomic DNA. Translation: AAA34767.1. Z74126 Genomic DNA. Translation: CAA98644.1. BK006938 Genomic DNA. Translation: DAA11781.1.
PIR	DEBYMP. S67614.
RefSeq	NP_010205.1. NM_001180137.1.
3D structure databases
ProteinModelPortal	P32419.
SMR	P32419. Positions 2-338.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-6473N.
IntAct	P32419. 7 interactions.
MINT	MINT-614591.
STRING	P32419.
2D gel databases
UCD-2DPAGE	P32419.
Proteomic databases
PeptideAtlas	P32419.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YDL078C; YDL078C; YDL078C.
GeneID	851481.
KEGG	sce:YDL078C.
NMPDR	fig|4932.3.peg.945.
Organism-specific databases
SGD	S000002236. MDH3.
Phylogenomic databases
eggNOG	fuNOG05363.
GeneTree	EFGT00050000003854.
HOGENOM	HBG566126.
OMA	HINTNSS.
OrthoDB	EOG4ZW8KT.
Gene expression databases
ArrayExpress	P32419.
Genevestigator	P32419.
GermOnline	YDL078C. Saccharomyces cerevisiae.
Family and domain databases
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. IPR010097. Malate_DH_type1. IPR016040. NAD(P)-bd_dom. [Graphical view]
Gene3D	G3DSA:3.90.110.10. lact_mal_DH. 1 hit. G3DSA:3.40.50.720. NAD(P)-bd. 1 hit.
KO	K00026.
PANTHER	PTHR11540:SF1. MDH_euk_g_bac. 1 hit.
Pfam	PF02866. Ldh_1_C. 1 hit. PF00056. Ldh_1_N. 1 hit. [Graphical view]
PIRSF	PIRSF000102. Lac_mal_DH. 1 hit.
SUPFAM	SSF56327. Lactate_DH/Glyco_hydro_4_C. 1 hit.
TIGRFAMs	TIGR01772. MDH_euk_gproteo. 1 hit.
PROSITE	PS00068. MDH. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	968795.

Entry information

Entry name

MDHP_YEAST

Accession

Primary (citable) accession number: P32419
Secondary accession number(s): D6VRS1, Q12689

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1993
Last sequence update:	January 23, 2007
Last modified:	December 14, 2011
This is version 113 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program