Information on EC 4.2.1.12 - phosphogluconate dehydratase

Please wait a moment until all data is loaded. This message will disappear when all data is loaded.
Specify your search results
Mark a special word or phrase in this record:
Select one or more organisms in this record:
Show additional data
Do not include text mining results
Include (text mining) results (more...)
Include results (AMENDA + additional results, but less precise; more...)


The expected taxonomic range for this enzyme is: Bacteria, Eukaryota

EC NUMBER
COMMENTARY
4.2.1.12
-
RECOMMENDED NAME
GeneOntology No.
phosphogluconate dehydratase
REACTION
REACTION DIAGRAM
COMMENTARY
ORGANISM
UNIPROT ACCESSION NO.
LITERATURE
6-phospho-D-gluconate = 2-dehydro-3-deoxy-6-phospho-D-gluconate + H2O
show the reaction diagram
-
-
-
-
6-phospho-D-gluconate = 2-dehydro-3-deoxy-6-phospho-D-gluconate + H2O
show the reaction diagram
mechanism: 6-phosphogluconate is dehydrated to form enol-2-keto-3-deoxy-6-phosphogluconate, which is spontaneously ketonized
-
6-phospho-D-gluconate = 2-dehydro-3-deoxy-6-phospho-D-gluconate + H2O
show the reaction diagram
mechanism: 6-phosphogluconate is dehydrated to form enol-2-keto-3-deoxy-6-phosphogluconate, which is spontaneously ketonized
Pseudomonas fluorescens A3.12
-
-
REACTION TYPE
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
elimination
-
-
-
-
PATHWAY
KEGG Link
MetaCyc Link
Entner-Doudoroff pathway I
-
Metabolic pathways
-
Microbial metabolism in diverse environments
-
Pentose phosphate pathway
-
SYSTEMATIC NAME
IUBMB Comments
6-phospho-D-gluconate hydro-lyase (2-dehydro-3-deoxy-6-phospho-D-gluconate-forming)
-
SYNONYMS
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
6-PG dehydrase
-
-
-
-
6-phosphogluconate dehydrase
-
-
-
-
6-phosphogluconate dehydratase
-
-
-
-
6-phosphogluconate dehydratase
Q1PAG1
-
6-phosphogluconate dehydratase
Q1PAG1
-
-
6-phosphogluconate dehydratase
-
-
6-phosphogluconate dehydratase
Xanthomonas oryzae pv. oryzae KACC10859
-
-
-
6-phosphogluconate dehydrogenase
Trichosporonoides megachiliensis
-
-
6-phosphogluconate dehydrogenase
Trichosporonoides megachiliensis SN-G42
-
-
-
6-phosphogluconic dehydrase
-
-
-
-
6PGDH
Trichosporonoides megachiliensis
-
-
6PGDH
Trichosporonoides megachiliensis SN-G42
-
-
-
6PGDT
-
-
-
-
dehydratase, phosphogluconate
-
-
-
-
EDD
Xanthomonas oryzae pv. oryzae KACC10859
-
-
-
Edd protein
-
-
Edd protein
Legionella pneumophila AM511
-
-
-
gluconate 6-phosphate dehydratase
-
-
-
-
gluconate-6-phosphate dehydratase
-
-
-
-
CAS REGISTRY NUMBER
COMMENTARY
9024-33-3
-
ORGANISM
COMMENTARY
LITERATURE
SEQUENCE CODE
SEQUENCE DB
SOURCE
strain PW2, strain Lhet2, strain KLB, strain OP, strain QBP
-
-
Manually annotated by BRENDA team
strain Y1, strain Y2, strain Y6, strain S91, strain S85, strain M132
-
-
Manually annotated by BRENDA team
strain CC409
-
-
Manually annotated by BRENDA team
Bradyrhizobium japonicum CC409
strain CC409
-
-
Manually annotated by BRENDA team
6-phosphogluconate dehydratase activity is reduced during iron starvation in suf mutant
-
-
Manually annotated by BRENDA team
wild type strain constitutively synthesizes this enzyme, mutant strain inducibly forms the enzyme
-
-
Manually annotated by BRENDA team
strain AM511
-
-
Manually annotated by BRENDA team
Legionella pneumophila AM511
strain AM511
-
-
Manually annotated by BRENDA team
Methylobacillus sp. VSB-792
-
-
-
Manually annotated by BRENDA team
Methylophilus methanolovorus
-
-
-
Manually annotated by BRENDA team
Protaminobacter candidus
-
-
-
Manually annotated by BRENDA team
strain O6, rhizobacterium, wild-type and mutants of the edd gene encoding 6-phosphogluconate dehydratase
SwissProt
Manually annotated by BRENDA team
strain O6, rhizobacterium, wild-type and mutants of the edd gene encoding 6-phosphogluconate dehydratase
SwissProt
Manually annotated by BRENDA team
Pseudomonas fluorescens A3.12
A3.12
-
-
Manually annotated by BRENDA team
Pseudomonas mildenbergii
-
-
-
Manually annotated by BRENDA team
strain ATCC 12633
-
-
Manually annotated by BRENDA team
strain RL3001
-
-
Manually annotated by BRENDA team
Rhizobium lupini RL3001
strain RL3001
-
-
Manually annotated by BRENDA team
cowpea rhizobia
-
-
Manually annotated by BRENDA team
strain BICC606 (Arachis hypogaea), strain BICC607 (Dolichos lablab); strain BICC609 (Cassia sophhera); strain BICC610 (Sesbania bispinosa); strain BICC613 (Tephrosia purpurea); strain BICC614 (Clitoria ternatea); strain Ca181 (Cicer arietinum), strain BICC611 (Desmodium gangeticum); strain U8 (Vigna radiata var. Mungo)
-
-
Manually annotated by BRENDA team
Rhizobium sp. BICC609
strain BICC609 (Cassia sophhera)
-
-
Manually annotated by BRENDA team
Rhizobium sp. BICC610
strain BICC610 (Sesbania bispinosa)
-
-
Manually annotated by BRENDA team
Rhizobium sp. BICC613
strain BICC613 (Tephrosia purpurea)
-
-
Manually annotated by BRENDA team
Rhizobium sp. BICC614
strain BICC614 (Clitoria ternatea)
-
-
Manually annotated by BRENDA team
Rhizobium sp. U8
strain U8 (Vigna radiata var. Mungo)
-
-
Manually annotated by BRENDA team
Trichosporonoides megachiliensis
strain SN-G42 and 124A
-
-
Manually annotated by BRENDA team
Trichosporonoides megachiliensis SN-G42
strain SN-G42 and 124A
-
-
Manually annotated by BRENDA team
strain KACC10859
-
-
Manually annotated by BRENDA team
Xanthomonas oryzae pv. oryzae KACC10859
strain KACC10859
-
-
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
malfunction
-
inactivation of 6-phosphogluconate dehydratase gene does increase intracellular D-glucose 6-phosphate and xanthan production
malfunction
Xanthomonas oryzae pv. oryzae KACC10859
-
inactivation of 6-phosphogluconate dehydratase gene does increase intracellular D-glucose 6-phosphate and xanthan production
-
physiological function
Trichosporonoides megachiliensis
-
part of pentose phosphate pathway
physiological function
Trichosporonoides megachiliensis SN-G42
-
part of pentose phosphate pathway
-
SUBSTRATE
PRODUCT                      
REACTION DIAGRAM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
(Substrate)
LITERATURE
(Substrate)
COMMENTARY
(Product)
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
-
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
ir
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
-
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Pseudomonas mildenbergii
-
-
-
-
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Methylobacillus glycogenes, Methylobacillus sp., Protaminobacter candidus, Methylophilus methanolovorus
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
Entner-Doudoroff pathway
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
mutants deficient of 6-phosphogluconate dehydratase grow on succinate but not on glucose, role of 6-phosphogluconate dehydratase in metabolism during root colonisation and induction of systemic resistance
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Rhizobium leguminosarum SU391
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Pseudomonas fluorescens A3.12
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Xanthomonas oryzae pv. oryzae KACC10859
-
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Rhizobium sp. BICC610, Rhizobium sp. BICC613, Rhizobium phaseoli CC365, Rhizobium sp. BICC609, Rhizobium lupini RL3001
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Methylobacillus sp. VSB-792
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Legionella pneumophila AM511
-
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
Sinorhizobium meliloti SU216, Rhizobium sp. BICC614, Rhizobium sp. U8, Bradyrhizobium japonicum CC409, Rhizobium leguminosarum CC224, Mesorhizobium loti NZP2213
-
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
Entner-Doudoroff pathway
-
-
?
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
mutants deficient of 6-phosphogluconate dehydratase grow on succinate but not on glucose, role of 6-phosphogluconate dehydratase in metabolism during root colonisation and induction of systemic resistance
-
-
?
6-phospho-D-gluconate
?
show the reaction diagram
Pseudomonas putida, Pelomonas saccharophila, Pseudomonas mildenbergii
-
-
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
key enzyme in the Entner-Doudoroff pathway
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
key enzyme of the pentose phosphate pathway and the Entner-Doudoroff pathway
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
the enzyme is significantly induced at all stages of growth assayed
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
Rhizobium leguminosarum SU391, Rhizobium sp. BICC610, Rhizobium sp. BICC613, Rhizobium phaseoli CC365, Rhizobium sp. BICC609, Rhizobium lupini RL3001, Sinorhizobium meliloti SU216, Rhizobium sp. BICC614, Rhizobium sp. U8, Bradyrhizobium japonicum CC409, Rhizobium leguminosarum CC224, Mesorhizobium loti NZP2213
-
enzyme of the Entner-Doudoroff pathway
-
-
-
additional information
?
-
-
multicopy plasmid suppression of stationary phase chaperone toxicity in E. coli by phosphogluconate dehydratase and the N-terminus of DnaK
-
-
-
NATURAL SUBSTRATES
NATURAL PRODUCTS
REACTION DIAGRAM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
(Substrate)
LITERATURE
(Substrate)
COMMENTARY
(Product)
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
Entner-Doudoroff pathway
-
-
?
6-phospho-D-gluconate
?
show the reaction diagram
Pseudomonas putida, Pelomonas saccharophila, Pseudomonas mildenbergii
-
-
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
key enzyme in the Entner-Doudoroff pathway
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
key enzyme of the pentose phosphate pathway and the Entner-Doudoroff pathway
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
-
the enzyme is significantly induced at all stages of growth assayed
-
-
-
6-phospho-D-gluconate
?
show the reaction diagram
Rhizobium leguminosarum SU391, Rhizobium sp. BICC610, Rhizobium sp. BICC613, Rhizobium phaseoli CC365, Rhizobium sp. BICC609, Rhizobium lupini RL3001, Sinorhizobium meliloti SU216, Rhizobium sp. BICC614, Rhizobium sp. U8, Bradyrhizobium japonicum CC409, Rhizobium leguminosarum CC224, Mesorhizobium loti NZP2213
-
enzyme of the Entner-Doudoroff pathway
-
-
-
6-phospho-D-gluconate
6-phospho-2-dehydro-3-deoxy-D-gluconate + H2O
show the reaction diagram
-, Q1PAG1
Entner-Doudoroff pathway
-
-
?
additional information
?
-
-
multicopy plasmid suppression of stationary phase chaperone toxicity in E. coli by phosphogluconate dehydratase and the N-terminus of DnaK
-
-
-
METALS and IONS
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
Fe2+
-
completely inactive in absence of divalent metal ion, Fe2+ is most effective
Iron
-
enzyme contains 3.0 iron atoms per 63000 Da subunit
Iron
-
active site includes an Fe4S4 cluster; contains 4 Fe per 63000 Da subunit
Iron
-
enzyme contains iron-sulfur clusters
Iron
-
Fe-S protein. 6-Phosphogluconate dehydratase activity is reduced during iron starvation in suf mutant. The de novo synthesis of the 4Fe-4S cluster in phosphogluconate dehydratase is impaired in the sufABCDSE mutant strain under iron starvation conditions
Mg2+
-
completely inactive in absence of divalent metal ion, 45% of the activation by Fe2+
Mn2+
-
the enzyme contains one Mn2+ per subunit, which is essential for activity, may be involved in binding of the substrate
Mn2+
-
completely inactive in absence of divalent metal ion, 70% of the activation by Fe2+
INHIBITORS
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
IMAGE
glycerophosphates
-
most strongly inhibited by the D-alpha-isomer which structurally corresponds to half of the substrate molecule
-
O2
-
the enzyme is much less sensitive to O2 or H2O2 than to O2-
O2-
-
the O2--sensitive target site is proposed to be an iron-sulfur cluster which is readily destroyed by oxidation
H2O2
-
the enzyme is much less sensitive to O2 or H2O2 than to O2-
additional information
-, Q1PAG1
transcription of the edd gene and bacterial growth is lower if succinate is the sole carbon source, the edd mutant of Pseudomonas chlororaphis O6 fails to grow on glucose media
-
ACTIVATING COMPOUND
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
IMAGE
additional information
-, Q1PAG1
transcription of the edd gene is higher in media containing glucose than with organic acids
-
KM VALUE [mM]
KM VALUE [mM] Maximum
SUBSTRATE
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
IMAGE
0.04
-
6-phosphogluconate
-
-
0.6
-
6-phosphogluconate
-
-
SPECIFIC ACTIVITY [µmol/min/mg]
SPECIFIC ACTIVITY MAXIMUM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
4.3
-
Trichosporonoides megachiliensis
-
-
additional information
-
-
-
additional information
-
-
coupled reaction of EC 4.2.1.12 plus EC 4.1.2.14
additional information
-
-, Q1PAG1
effects of different carbon sources on expression and growth studied in wild-type bacteria and in mutans deficient of 6-phosphogluconate dehydratase, late-stage root colonisation affected, 6-phosphogluconate dehydratase involved in maintainance of Pseudomonas populations in the rhizospere
pH OPTIMUM
pH MAXIMUM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
TEMPERATURE OPTIMUM
TEMPERATURE OPTIMUM MAXIMUM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
50
-
-
coupled reaction of EC 4.2.1.12 plus EC 4.1.2.14
TEMPERATURE RANGE
TEMPERATURE MAXIMUM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
additional information
-
-
-
SOURCE TISSUE
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
SOURCE
-, Q1PAG1
rhizophere of Nicotiana tabacum Xanthi hosts the rhizobacterium Pseudomonas chlororaphis O6, effects of 6-phosphogluconate dehydratase on root colonisation and induction of systemic resistance by Pseudomonas chlororaphis 06 analyzed
Manually annotated by BRENDA team
-
rhizophere of Nicotiana tabacum Xanthi hosts the rhizobacterium Pseudomonas chlororaphis O6, effects of 6-phosphogluconate dehydratase on root colonisation and induction of systemic resistance by Pseudomonas chlororaphis 06 analyzed
-
Manually annotated by BRENDA team
PDB
SCOP
CATH
ORGANISM
Shewanella oneidensis (strain MR-1)
MOLECULAR WEIGHT
MOLECULAR WEIGHT MAXIMUM
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
130000
-
-
-
SUBUNITS
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
?
-
x * 66000, SDS-PAGE
dimer
-
2 * 63000, SDS-PAGE
GENERAL STABILITY
ORGANISM
UNIPROT ACCESSION NO.
LITERATURE
alpha-glycerophosphate stabilizes
-
Mn2+ stabilizes
-
OXIDATION STABILITY
ORGANISM
UNIPROT ACCESSION NO.
LITERATURE
F- stabilizes and blocks the efect of oxidants
-
33658
rapid inactivation under oxidizing conditions
-
33650
Purification/COMMENTARY
ORGANISM
UNIPROT ACCESSION NO.
LITERATURE
one-step procedure
-
Cloned/COMMENTARY
ORGANISM
UNIPROT ACCESSION NO.
LITERATURE
expression in Pseudomonmas aeruginosa and Pseudomonas putida
-
expressed in Escherichia coli, mutagenesis of the edd gene of Pseudomonas chlororaphis O6 encoding 6-phosphogluconate dehydratase, influence of different carbon sources on its expression and on bacterial growth analyzed
-, Q1PAG1
APPLICATION
ORGANISM
UNIPROT ACCESSION NO.
COMMENTARY
LITERATURE
synthesis
-
synthesis of 6-phospho-2-dehydro-3-deoxy-D-gluconate
industry
Trichosporonoides megachiliensis
-
production of abundant intermediates for industrially erythritol production
industry
Trichosporonoides megachiliensis SN-G42
-
production of abundant intermediates for industrially erythritol production
-