6-phosphogluconate dehydrogenase, decarboxylating 1 - Saccharomyces cerevisiae (Baker's yeast)

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Reviewed, UniProtKB/Swiss-Prot P38720 (6PGD1_YEAST)

Last modified February 9, 2010. Version 90. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
6-phosphogluconate dehydrogenase, decarboxylating 1
EC=1.1.1.44

Gene names

Name:	GND1
Ordered Locus Names:	YHR183W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

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

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Protein attributes

Sequence length	489 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Catalytic activity	6-phospho-D-gluconate + NADP⁺ = D-ribulose 5-phosphate + CO₂ + NADPH.
Pathway	Carbohydrate degradation; pentose phosphate pathway; D-ribulose 5-phosphate from D-glucose 6-phosphate (oxidative stage): step 3/3.
Subcellular location	Cytoplasm Ref.4.
Miscellaneous	Present with 101000 molecules/cell in log phase SD medium. Ref.5
Sequence similarities	Belongs to the 6-phosphogluconate dehydrogenase family.

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Ontologies

Keywords
Biological process	Pentose shunt
Cellular component	Cytoplasm
Ligand	NADP
Molecular function	Oxidoreductase
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW pentose-phosphate shunt, oxidative branch Inferred from genetic interaction. Source: SGD response to oxidative stress Inferred from mutant phenotype. Source: SGD
Cellular component	mitochondrion Inferred from direct assay. Source: SGD
Molecular function	NADP or NADPH binding Inferred from electronic annotation. Source: InterPro phosphogluconate dehydrogenase (decarboxylating) activity Inferred from mutant phenotype. Source: SGD protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct
HSP82	P02829	1	EBI-1965,EBI-8659
PRP40	P33203	1	EBI-1965,EBI-701
RSP5	P39940	1	EBI-1965,EBI-16219
SSM4	P40318	1	EBI-1965,EBI-18208
URN1	Q06525	1	EBI-1965,EBI-35138

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 489

489

6-phosphogluconate dehydrogenase, decarboxylating 1

PRO_0000090075

Amino acid modifications

Modified residue

128

Phosphoserine Ref.6

Secondary structure

489

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P38720-1 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: 55CAE5DACDC6A00B
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FASTA

489

53,543

        10         20         30         40         50         60 
MSADFGLIGL AVMGQNLILN AADHGFTVCA YNRTQSKVDH FLANEAKGKS IIGATSIEDF 

        70         80         90        100        110        120 
ISKLKRPRKV MLLVKAGAPV DALINQIVPL LEKGDIIIDG GNSHFPDSNR RYEELKKKGI 

       130        140        150        160        170        180 
LFVGSGVSGG EEGARYGPSL MPGGSEEAWP HIKNIFQSIS AKSDGEPCCE WVGPAGAGHY 

       190        200        210        220        230        240 
VKMVHNGIEY GDMQLICEAY DIMKRLGGFT DKEISDVFAK WNNGVLDSFL VEITRDILKF 

       250        260        270        280        290        300 
DDVDGKPLVE KIMDTAGQKG TGKWTAINAL DLGMPVTLIG EAVFARCLSA LKNERIRASK 

       310        320        330        340        350        360 
VLPGPEVPKD AVKDREQFVD DLEQALYASK IISYAQGFML IREAAATYGW KLNNPAIALM 

       370        380        390        400        410        420 
WRGGCIIRSV FLGQITKAYR EEPDLENLLF NKFFADAVTK AQSGWRKSIA LATTYGIPTP 

       430        440        450        460        470        480 
AFSTALSFYD GYRSERLPAN LLQAQRDYFG AHTFRVLPEC ASDNLPVDKD IHINWTGHGG 


NVSSSTYQA

« Hide

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	Desouza M., Lobo Z., Maitra P.K. Submitted (NOV-1994) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII." Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z., Favello A., Fulton L., Gattung S., Geisel C., Kirsten J., Kucaba T., Hillier L.W., Jier M., Johnston L., Langston Y., Latreille P. Vaudin M. Science 265:2077-2082(1994) [PubMed: 8091229] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	"Protein identifications for a Saccharomyces cerevisiae protein database." Garrels J.I., Futcher B., Kobayashi R., Latter G.I., Schwender B., Volpe T., Warner J.R., McLaughlin C.S. Electrophoresis 15:1466-1486(1994) [PubMed: 7895733] [Abstract] Cited for: PROTEIN SEQUENCE OF 41-47 AND 120-131. Strain: ATCC 204508 / S288c.
[4]	"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: 14562095] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[5]	"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].
[6]	"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: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-128, MASS SPECTROMETRY.
+	Additional computationally mapped references.

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Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Z46631 Genomic DNA. Translation: CAA86600.1.
U00028 Genomic DNA. Translation: AAB68452.1.
U17155 Genomic DNA. Translation: AAA53637.1.

PIR

S46671.

RefSeq

NP_012053.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2P4Q	X-ray	2.37	A	1-489	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-6604N.

IntAct

P38720. 122 interactions.

STRING

P38720.

Proteomic databases

PeptideAtlas

P38720.

PRIDE

P38720.

Genome annotation databases

Ensembl

YHR183W; YHR183W; YHR183W; Saccharomyces cerevisiae. [Genome view]

GeneID

856589.

KEGG

sce:YHR183W.

NMPDR

fig|4932.3.peg.3222.

Organism-specific databases

CYGD

YHR183w.

SGD

S000001226. GND1.

Phylogenomic databases

eggNOG

HOGENOM

OMA

OrthoDB

PhylomeDB

P38720.

Enzyme and pathway databases

BRENDA

1.1.1.44. 250.

Gene expression databases

ArrayExpress

P38720.

Genevestigator

P38720.

GermOnline

YHR183W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR008927. 6-PGluconate_DH_C-like.
IPR006183. 6-phosphogluconate_DH.
IPR006114. 6PGDH_C.
IPR006113. 6PGDH_decarbox.
IPR006115. 6PGDH_NAD-bd.
IPR006184. 6PGdom_BS.
IPR013328. DH_multihelical.
IPR012284. Fibritin/6PGD_C-extension.
IPR016040. NAD(P)-bd_dom.
[Graphical view]

Gene3D

G3DSA:1.20.5.320. Fibritin/6PGD_C-extension. 1 hit.
G3DSA:3.40.50.720. NAD(P)-bd. 1 hit.
G3DSA:1.10.1040.10. Opine_DH. 1 hit.

Pfam

PF00393. 6PGD. 1 hit.
PF03446. NAD_binding_2. 1 hit.
[Graphical view]

PRINTS

PR00076. 6PGDHDRGNASE.

TIGRFAMs

TIGR00873. gnd. 1 hit.

PROSITE

PS00461. 6PGD. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

982464.

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Entry information

Entry name

6PGD1_YEAST

Accession

Primary (citable) accession number: P38720

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	February 9, 2010
This is version 90 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Yeast

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

Yeast chromosome VIII

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

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Amino acid modifications

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other Resources

Entry information

Relevant documents