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Protein

6-phosphogluconate dehydrogenase, decarboxylating

Gene

gnd

Organism
Staphylococcus epidermidis (strain ATCC 12228)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO2, with concomitant reduction of NADP to NADPH.By similarity

Catalytic activityi

6-phospho-D-gluconate + NADP+ = D-ribulose 5-phosphate + CO2 + NADPH.

Pathwayi: pentose phosphate pathway

This protein is involved in step 3 of the subpathway that synthesizes D-ribulose 5-phosphate from D-glucose 6-phosphate (oxidative stage).
Proteins known to be involved in the 3 steps of the subpathway in this organism are:
  1. Glucose-6-phosphate 1-dehydrogenase (zwf)
  2. no protein annotated in this organism
  3. 6-phosphogluconate dehydrogenase, decarboxylating (gnd)
This subpathway is part of the pathway pentose phosphate pathway, which is itself part of Carbohydrate degradation.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-ribulose 5-phosphate from D-glucose 6-phosphate (oxidative stage), the pathway pentose phosphate pathway and in Carbohydrate degradation.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei101NADPBy similarity1
Binding sitei101SubstrateBy similarity1
Active sitei182Proton acceptorBy similarity1
Active sitei189Proton donorBy similarity1
Binding sitei190SubstrateBy similarity1
Binding sitei259Substrate; via amide nitrogenBy similarity1
Binding sitei286SubstrateBy similarity1
Binding sitei444Substrate; shared with dimeric partnerBy similarity1
Binding sitei450Substrate; shared with dimeric partnerBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi9 – 14NADPBy similarity6
Nucleotide bindingi32 – 34NADPBy similarity3
Nucleotide bindingi73 – 75NADPBy similarity3

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processGluconate utilization, Pentose shunt
LigandNADP

Enzyme and pathway databases

BioCyciSEPI176280:G1G05-1198-MONOMER
UniPathwayiUPA00115; UER00410

Names & Taxonomyi

Protein namesi
Recommended name:
6-phosphogluconate dehydrogenase, decarboxylating (EC:1.1.1.44)
Gene namesi
Name:gnd
Ordered Locus Names:SE_1192
OrganismiStaphylococcus epidermidis (strain ATCC 12228)
Taxonomic identifieri176280 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000900581 – 4686-phosphogluconate dehydrogenase, decarboxylatingAdd BLAST468

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi176280.SE1192

Structurei

3D structure databases

ProteinModelPortaliQ8CP47
SMRiQ8CP47
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni127 – 129Substrate bindingBy similarity3
Regioni185 – 186Substrate bindingBy similarity2

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0362 LUCA
KOiK00033
OMAiNSHYPDS

Family and domain databases

Gene3Di1.10.1040.10, 1 hit
InterProiView protein in InterPro
IPR008927 6-PGluconate_DH-like_C_sf
IPR013328 6PGD_dom2
IPR006114 6PGDH_C
IPR006113 6PGDH_Gnd/GntZ
IPR006115 6PGDH_NADP-bd
IPR006184 6PGdom_BS
IPR036291 NAD(P)-bd_dom_sf
IPR006183 Pgluconate_DH
PfamiView protein in Pfam
PF00393 6PGD, 1 hit
PF03446 NAD_binding_2, 1 hit
PIRSFiPIRSF000109 6PGD, 1 hit
PRINTSiPR00076 6PGDHDRGNASE
SMARTiView protein in SMART
SM01350 6PGD, 1 hit
SUPFAMiSSF48179 SSF48179, 1 hit
SSF51735 SSF51735, 1 hit
TIGRFAMsiTIGR00873 gnd, 1 hit
PROSITEiView protein in PROSITE
PS00461 6PGD, 1 hit

Sequencei

Sequence statusi: Complete.

Q8CP47-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQQIGVVGL AVMGKNLAWN IESRGYSVSV YNRSRQKTDE MVKESPGREI
60 70 80 90 100
YPTYSLEEFV ESLEKPRKIL LMVKAGPATD ATIDGLLPLL DDDDILIDGG
110 120 130 140 150
NTNYQDTIRR NKALAESSIN FIGMGVSGGE IGALTGPSLM PGGQKDAYNK
160 170 180 190 200
VSDILDAIAA KAQDGASCVT YIGPNGAGHY VKMVHNGIEY ADMQLIAESY
210 220 230 240 250
AMMKDLLGMS HKEISQTFKE WNAGELESYL IEITGDIFNK LDDDNEALVE
260 270 280 290 300
KILDTAGQKG TGKWTSINAL ELGVPLTIIT ESVFARFISS IKEERVTASK
310 320 330 340 350
SLKGPKAHFE GDKKTFLEKI RKALYMSKIC SYAQGFAQMR KASEDNEWNL
360 370 380 390 400
KLGELAMIWR EGCIIRAQFL QKIKDAYDNN ENLQNLLLDP YFKNIVMEYQ
410 420 430 440 450
DALREVVATS VYNGVPTPGF SASINYYDSY RSEDLPANLI QAQRDYFGAH
460
TYERKDREGI FHTQWVEE
Length:468
Mass (Da):52,234
Last modified:March 1, 2003 - v1
Checksum:iA4738F224237494E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE015929 Genomic DNA Translation: AAO04791.1
RefSeqiNP_764747.1, NC_004461.1
WP_002440000.1, NC_004461.1

Genome annotation databases

EnsemblBacteriaiAAO04791; AAO04791; SE_1192
GeneIDi1057829
KEGGisep:SE1192
PATRICifig|176280.10.peg.1162

Similar proteinsi

Entry informationi

Entry namei6PGD_STAES
AccessioniPrimary (citable) accession number: Q8CP47
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 28, 2003
Last sequence update: March 1, 2003
Last modified: May 23, 2018
This is version 102 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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