6-phosphogluconate dehydrogenase, decarboxylating

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Reviewed, UniProtKB/Swiss-Prot P00350 (6PGD_ECOLI)

Last modified December 16, 2008. Version 82. 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
EC=1.1.1.44

Gene names

Name:	gnd
Ordered Locus Names:	b2029, JW2011

Organism

Escherichia coli (strain K12) [Complete proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

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Protein attributes

Sequence length	468 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Catalytic activity	6-phospho-D-gluconate + NADP(+) = D-ribulose 5-phosphate + CO(2) + NADPH.
Pathway	Carbohydrate degradation; pentose phosphate pathway; D-ribulose 5-phosphate from D-glucose 6-phosphate (oxidative stage): step 3/3.
Sequence similarities	Belongs to the 6-phosphogluconate dehydrogenase family.

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Ontologies

Keywords
Biological process	Gluconate utilization Pentose shunt
Ligand	NADP
Molecular function	Oxidoreductase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	D-gluconate metabolic process Inferred from electronic annotation. Source: UniProtKB-KW oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW pentose-phosphate shunt Inferred from electronic annotation. Source: InterPro
Molecular function	NADP binding Inferred from electronic annotation. Source: InterPro phosphogluconate dehydrogenase (decarboxylating) activity Inferred from electronic annotation. Source: InterPro protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct	Notes
nadE	P18843	1	EBI-907049,EBI-548960

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 468

468

6-phosphogluconate dehydrogenase, decarboxylating

PRO_0000090037

Natural variations

Natural variant

S → L in strain: ECOR 70.

Natural variant

F → Y in strain: ECOR 70.

Natural variant

T → Q in strain: O7:K1 / VW187.

Natural variant

V → D in strain: ECOR 10.

Natural variant

Y → F in strain: ECOR 10.

Natural variant

102

N → K in strain: ECOR 65.

Natural variant

117

A → S in strain: ECOR 70.

Natural variant

123 – 125

IGT → YRY in strain: O7:K1 / VW187.

Natural variant

170

V → F in strain: ECOR 10.

Natural variant

175

A → S in strain: ECOR 45.

Natural variant

209

N → S in strain: ECOR 68.

Natural variant

211

T → S in strain: ECOR 10 and ECOR 69.

Natural variant

216

A → T in strain: ECOR 67.

Natural variant

294

D → E in strain: ECOR 70.

Natural variant

308

A → G in strain: ECOR 68.

Natural variant

313

D → N in strain: ECOR 67.

Natural variant

315

A → G in strain: ECOR 70.

Natural variant

325

L → Q in strain: ECOR 69.

Natural variant

330

I → S in strain: ECOR 10.

Natural variant

350

D → A in strain: ECOR 10 and ECOR 69.

Natural variant

369

Q → R in strain: ECOR 10.

Natural variant

422

S → A in strain: ECOR 10, ECOR 65, ECOR 68, ECOR 69 and ECOR 70.

Experimental info

Sequence conflict

306

P → R in AAA23918. Ref.1

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Sequences

Sequence

Length

Mass (Da)

Tools

P00350-1 [UniParc].

Last modified November 1, 1997. Version 2.
Checksum: 62A32C84DC596D86
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FASTA

468

51,481

        10         20         30         40         50         60 
MSKQQIGVVG MAVMGRNLAL NIESRGYTVS IFNRSREKTE EVIAENPGKK LVPYYTVKEF 

        70         80         90        100        110        120 
VESLETPRRI LLMVKAGAGT DAAIDSLKPY LDKGDIIIDG GNTFFQDTIR RNRELSAEGF 

       130        140        150        160        170        180 
NFIGTGVSGG EEGALKGPSI MPGGQKEAYE LVAPILTKIA AVAEDGEPCV TYIGADGAGH 

       190        200        210        220        230        240 
YVKMVHNGIE YGDMQLIAEA YSLLKGGLNL TNEELAQTFT EWNNGELSSY LIDITKDIFT 

       250        260        270        280        290        300 
KKDEDGNYLV DVILDEAANK GTGKWTSQSA LDLGEPLSLI TESVFARYIS SLKDQRVAAS 

       310        320        330        340        350        360 
KVLSGPQAQP AGDKAEFIEK VRRALYLGKI VSYAQGFSQL RAASEEYNWD LNYGEIAKIF 

       370        380        390        400        410        420 
RAGCIIRAQF LQKITDAYAE NPQIANLLLA PYFKQIADDY QQALRDVVAY AVQNGIPVPT 

       430        440        450        460 
FSAAVAYYDS YRAAVLPANL IQAQRDYFGA HTYKRIDKEG VFHTEWLD

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"DNA sequence of the Escherichia coli gene, gnd, for 6-phosphogluconate dehydrogenase." Nasoff M.S., Baker H.V. II, Wolf R.E. Jr. Gene 27:253-264(1984) [PubMed: 6329905] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Nucleotide sequences of the gnd genes from nine natural isolates of Escherichia coli: evidence of intragenic recombination as a contributing factor in the evolution of the polymorphic gnd locus." Bisercic M., Feutrier J.Y., Reeves P.R. J. Bacteriol. 173:3894-3900(1991) [PubMed: 2050640] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ECOR 10.
[3]	"Recombination in Escherichia coli and the definition of biological species." Dykhuizen D.E., Green L. J. Bacteriol. 173:7257-7268(1991) [PubMed: 1938920] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ECOR 45, ECOR 65, ECOR 67, ECOR 68, ECOR 69 and ECOR 70.
[4]	"A 460-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 40.1-50.0 min region on the linkage map." Itoh T., Aiba H., Baba T., Fujita K., Hayashi K., Inada T., Isono K., Kasai H., Kimura S., Kitakawa M., Kitagawa M., Makino K., Miki T., Mizobuchi K., Mori H., Mori T., Motomura K., Nakade S. Horiuchi T. DNA Res. 3:379-392(1996) [PubMed: 9097040] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[6]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[7]	"Fitness effects of a deletion mutation increasing transcription of the 6-phosphogluconate dehydrogenase gene in Escherichia coli." Miller R.D., Dykhuizen D.E., Hartl D.L. Mol. Biol. Evol. 5:691-703(1988) [PubMed: 2464736] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-125.
[8]	"Comparative nucleotide sequence analysis of growth-rate-regulated gnd alleles from natural isolates of Escherichia coli and from Salmonella typhimurium LT-2." Barcak G.J., Wolf R.E. Jr. J. Bacteriol. 170:372-379(1988) [PubMed: 3275621] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-125.
[9]	"Identification, expression, and DNA sequence of the GDP-mannose biosynthesis genes encoded by the O7 rfb gene cluster of strain VW187 (Escherichia coli O7:K1)." Marolda C.L., Valvano M.A. J. Bacteriol. 175:148-158(1993) [PubMed: 7677991] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-125. Strain: O7:K1 / VW187.

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Cross-references

Sequence databases
	K02072 Genomic DNA. Translation: AAA23918.1. M63821 Genomic DNA. Translation: AAA24488.1. M64326 Genomic DNA. Translation: AAA24204.1. M64327 Genomic DNA. Translation: AAA24205.1. M64328 Genomic DNA. Translation: AAA24206.1. M64329 Genomic DNA. Translation: AAA24207.1. M64330 Genomic DNA. Translation: AAA24208.1. M64331 Genomic DNA. Translation: AAA24209.1. U00096 Genomic DNA. Translation: AAC75090.1. AP009048 Genomic DNA. Translation: BAA15869.1. M23181 Genomic DNA. Translation: AAA23924.1. M18956 Genomic DNA. Translation: AAA23919.1. M18957 Genomic DNA. Translation: AAA23920.1. M18960 Genomic DNA. Translation: AAA23922.1. AF125322 Genomic DNA. Translation: AAC27540.1.
PIR	DEECGC. D64968. I62463. I62465.
RefSeq	AP_002630.1. NP_416533.1.
3D structure databases
HSSP	HSSP built from PDB template 2PGD based on UniProtKB P00349.
ModBase	Search...
Protein-protein interaction databases
IntAct	P00350. 5 interactions.
2-D gel databases
ECO2DBASE	C042.6. 6TH EDITION.
Genome annotation databases
GeneID	946554.
GenomeReviews	Gene locus JW2011 in contig AP009048_GR. Gene locus b2029 in contig U00096_GR.
KEGG	ecj:JW2011. eco:b2029.
Organism-specific databases
EchoBASE	EB0406.
EcoGene	EG10411. gnd.
CMR	Search...
Enzyme and pathway databases
BioCyc	EcoCyc:6PGLUCONDEHYDROG-MON. MetaCyc:6PGLUCONDEHYDROG-MON.
Family and domain databases
InterPro	IPR006183. 6-phosphogluconate_DHase. IPR006114. 6PGDH_C. IPR006113. 6PGDH_decarbox. IPR006115. 6PGDH_NAD-bd. IPR006184. 6PGdom_BS. IPR013328. DHase_multihelical. IPR012284. Fibritin/6PGD_C-extension. IPR016040. NAD(P)-bd. [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...

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Entry information

Entry name

6PGD_ECOLI

Accession

Primary (citable) accession number: P00350
Secondary accession number(s): P78080

Q79DT3

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	November 1, 1997
Last modified:	December 16, 2008
This is version 82 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Keywords

Gene Ontology (GO)

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Natural variations

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

2-D gel databases

Genome annotation databases

Organism-specific databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents