Glycerol-3-phosphate dehydrogenase [NAD(+)] 2, mitochondrial precursor - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P41911 (GPD2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 129. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Glycerol-3-phosphate dehydrogenase [NAD(+)] 2, mitochondrial
EC=1.1.1.8

Gene names

Name:	GPD2
Synonyms:	GPD3
Ordered Locus Names:	YOL059W
ORF Names:	O1222

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	440 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)

Function	Catalyzes the production of glycerol under anaerobic growth conditions. Glycerol production serves as a redox sink by consuming the excess cytosolic NADH during anaerobic metabolism. Ref.6
Catalytic activity	sn-glycerol 3-phosphate + NAD⁺ = glycerone phosphate + NADH.
Subcellular location	Cytoplasm. Mitochondrion Ref.9 Ref.11 Ref.12.
Induction	By anaerobic growth conditions and other conditions leading to accumulation of cytosolic NADH. Ref.7 Ref.12
Miscellaneous	Present with 8966 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the NAD-dependent glycerol-3-phosphate dehydrogenase family.
Caution	It is uncertain whether Met-1 or Met-49 is the initiator.
Sequence caution	The sequence CAA84532.1 differs from that shown. Reason: Frameshift at position 411.

Ontologies

Keywords
Cellular component	Cytoplasm Mitochondrion
Domain	Transit peptide
Ligand	NAD
Molecular function	Oxidoreductase
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	NADH oxidation Inferred from mutant phenotype Ref.7. Source: SGD glycerol metabolic process Inferred from mutant phenotype Ref.7. Source: SGD glycerol-3-phosphate catabolic process Inferred from electronic annotation. Source: InterPro
Cellular_component	cytosol Traceable author statement PubMed 10781551. Source: SGD glycerol-3-phosphate dehydrogenase complex Inferred from electronic annotation. Source: InterPro mitochondrion Inferred from direct assay Ref.11 PubMed 16823961 PubMed 17054397. Source: SGD
Molecular_function	NAD binding Inferred from electronic annotation. Source: InterPro glycerol-3-phosphate dehydrogenase [NAD+] activity Inferred from mutant phenotype Ref.7. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Transit peptide

1 – 16

Mitochondrion Potential

Chain

17 – 440

424

Glycerol-3-phosphate dehydrogenase [NAD(+)] 2, mitochondrial

PRO_0000043410

Regions

Nucleotide binding

90 – 95

NAD By similarity

Region

359 – 360

Substrate binding By similarity

Sites

Active site

294

Proton acceptor By similarity

Binding site

178

NAD By similarity

Binding site

201

NAD; via amide nitrogen By similarity

Binding site

201

Substrate By similarity

Binding site

234

NAD; via amide nitrogen By similarity

Binding site

359

NAD By similarity

Binding site

388

NAD By similarity

Amino acid modifications

Modified residue

Phosphoserine Ref.14 Ref.16

Modified residue

Phosphoserine Ref.8 Ref.13 Ref.14 Ref.15 Ref.16

Modified residue

Phosphoserine Ref.8 Ref.13 Ref.14 Ref.15 Ref.16

Sequences

Sequence

Length

Mass (Da)

Tools

P41911 [UniParc].

Last modified October 1, 1996. Version 2.
Checksum: FA6C07034D3EC720
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FASTA

440

49,422

        10         20         30         40         50         60 
MLAVRRLTRY TFLKRTHPVL YTRRAYKILP SRSTFLRRSL LQTQLHSKMT AHTNIKQHKH 

        70         80         90        100        110        120 
CHEDHPIRRS DSAVSIVHLK RAPFKVTVIG SGNWGTTIAK VIAENTELHS HIFEPEVRMW 

       130        140        150        160        170        180 
VFDEKIGDEN LTDIINTRHQ NVKYLPNIDL PHNLVADPDL LHSIKGADIL VFNIPHQFLP 

       190        200        210        220        230        240 
NIVKQLQGHV APHVRAISCL KGFELGSKGV QLLSSYVTDE LGIQCGALSG ANLAPEVAKE 

       250        260        270        280        290        300 
HWSETTVAYQ LPKDYQGDGK DVDHKILKLL FHRPYFHVNV IDDVAGISIA GALKNVVALA 

       310        320        330        340        350        360 
CGFVEGMGWG NNASAAIQRL GLGEIIKFGR MFFPESKVET YYQESAGVAD LITTCSGGRN 

       370        380        390        400        410        420 
VKVATYMAKT GKSALEAEKE LLNGQSAQGI ITCREVHEWL QTCELTQEFP LFEAVYQIVY 

       430        440 
NNVRMEDLPE MIEELDIDDE

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and characterization of GPD2, a second gene encoding sn-glycerol 3-phosphate dehydrogenase (NAD+) in Saccharomyces cerevisiae, and its comparison with GPD1." Eriksson P., Andre L., Ansell R., Blomberg A., Adler L. Mol. Microbiol. 17:95-107(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Analysis of a 26 kb region on the left arm of yeast chromosome XV." Mannhaupt G., Vetter I., Schwarzlose C., Mitzel S., Feldmann H. Yeast 12:67-76(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 90843 / S288c / FY73.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XV." Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D. Kleine K. Nature 387:98-102(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 90843 / S288c / FY73.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[6]	"Physiological response to anaerobicity of glycerol-3-phosphate dehydrogenase mutants of Saccharomyces cerevisiae." Bjoerkqvist S., Ansell R., Adler L., Liden G. Appl. Environ. Microbiol. 63:128-132(1997) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[7]	"The two isoenzymes for yeast NAD+-dependent glycerol 3-phosphate dehydrogenase encoded by GPD1 and GPD2 have distinct roles in osmoadaptation and redox regulation." Ansell R., Granath K., Hohmann S., Thevelein J.M., Adler L. EMBO J. 16:2179-2187(1997) [PubMed] [Europe PMC] [Abstract] Cited for: INDUCTION.
[8]	"Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae." Ficarro S.B., McCleland M.L., Stukenberg P.T., Burke D.J., Ross M.M., Shabanowitz J., Hunt D.F., White F.M. Nat. Biotechnol. 20:301-305(2002) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-72 AND SER-75, MASS SPECTROMETRY. Strain: 2124.
[9]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[10]	"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] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[11]	"The proteome of Saccharomyces cerevisiae mitochondria." Sickmann A., Reinders J., Wagner Y., Joppich C., Zahedi R.P., Meyer H.E., Schoenfisch B., Perschil I., Chacinska A., Guiard B., Rehling P., Pfanner N., Meisinger C. Proc. Natl. Acad. Sci. U.S.A. 100:13207-13212(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY. Strain: ATCC 76625 / YPH499.
[12]	"Distinct intracellular localization of Gpd1p and Gpd2p, the two yeast isoforms of NAD+-dependent glycerol-3-phosphate dehydrogenase, explains their different contributions to redox-driven glycerol production." Valadi A., Granath K., Gustafsson L., Adler L. J. Biol. Chem. 279:39677-39685(2004) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, INDUCTION.
[13]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-72 AND SER-75, MASS SPECTROMETRY. Strain: ADR376.
[14]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-70; SER-72 AND SER-75, MASS SPECTROMETRY.
[15]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-72 AND SER-75, MASS SPECTROMETRY.
[16]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-70; SER-72 AND SER-75, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z35169 Genomic DNA. Translation: CAA84532.1. Sequence problems. X91067 Genomic DNA. Translation: CAA62526.1. Z74801 Genomic DNA. Translation: CAA99068.1. AY558560 Genomic DNA. Translation: AAS56886.1. BK006948 Genomic DNA. Translation: DAA10724.1.
PIR	S61719.
RefSeq	NP_014582.1. NM_001183314.1.
3D structure databases
ProteinModelPortal	P41911.
SMR	P41911. Positions 83-434.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1348N.
IntAct	P41911. 6 interactions.
MINT	MINT-411876.
STRING	4932.YOL059W.
Proteomic databases
PaxDb	P41911.
PeptideAtlas	P41911.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YOL059W; YOL059W; YOL059W.
GeneID	854095.
KEGG	sce:YOL059W.
Organism-specific databases
CYGD	YOL059w.
SGD	S000005420. GPD2.
Phylogenomic databases
eggNOG	COG0240.
GeneTree	ENSGT00390000003114.
HOGENOM	HOG000246855.
KO	K00006.
OMA	AVHEIST.
OrthoDB	EOG4FBN2Q.
Gene expression databases
Genevestigator	P41911.
GermOnline	YOL059W. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	1.10.1040.10. 1 hit. 3.40.50.720. 1 hit.
InterPro	IPR008927. 6-PGluconate_DH_C-like. IPR013328. DH_multihelical. IPR006168. G3P_DH_NAD-dep. IPR006109. G3P_DH_NAD-dep_C. IPR017751. G3P_DH_NAD-dep_euk. IPR011128. G3P_DH_NAD-dep_N. IPR016040. NAD(P)-bd_dom. [Graphical view]
PANTHER	PTHR11728. PTHR11728. 1 hit.
Pfam	PF07479. NAD_Gly3P_dh_C. 1 hit. PF01210. NAD_Gly3P_dh_N. 1 hit. [Graphical view]
PRINTS	PR00077. GPDHDRGNASE.
SUPFAM	SSF48179. 6DGDH_C_like. 1 hit.
TIGRFAMs	TIGR03376. glycerol3P_DH. 1 hit.
PROSITE	PS00957. NAD_G3PDH. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	975758.

Entry information

Entry name

GPD2_YEAST

Accession

Primary (citable) accession number: P41911
Secondary accession number(s): D6W208, P50905

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	October 1, 1996
Last modified:	May 1, 2013
This is version 129 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XV

Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Amino acid modifications

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents