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show all sequences of 1.1.1.B61

The shikimate dehydrogenase family: functional diversity within a conserved structural and mechanistic framework

Peek, J.; Christendat, D.; Arch. Biochem. Biophys. 566, 85-99 (2015)

Data extracted from this reference:

Crystallization (Commentary)
Crystallization
Organism
crystal structure analysis, PDB IDs 2GPT, 2O7Q, and 2O7S, for the binary and ternary complexes of enzyme and substrates
Arabidopsis thaliana
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.131
-
NADP+
pH 8.8, 22°C, with shikimate
Arabidopsis thaliana
0.223
-
shikimate
pH 8.5, 22°C, with NADP+, isozyme Poptr1
Populus trichocarpa
0.346
-
shikimate
pH 8.5, 22°C, with NADP+, isozyme Poptr5
Populus trichocarpa
0.685
-
shikimate
pH 8.8, 22°C, with NADP+
Arabidopsis thaliana
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
3-dehydroshikimate + NADPH
Populus trichocarpa
-
shikimate + NADP+
-
-
r
3-dehydroshikimate + NADPH
Arabidopsis thaliana
-
shikimate + NADP+
-
-
r
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Arabidopsis thaliana
Q9SQT8
-
-
Populus trichocarpa
-
-
-
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
3-dehydroshikimate + NADPH
-
739956
Populus trichocarpa
shikimate + NADP+
-
-
-
r
3-dehydroshikimate + NADPH
-
739956
Arabidopsis thaliana
shikimate + NADP+
-
-
-
r
additional information
The bifunctional enzyme also catalyzes dehydration of 3-dehydroquinate to 3-dehydroshikimate
739956
Populus trichocarpa
?
-
-
-
-
additional information
The bifunctional enzyme also catalyzes dehydration of 3-dehydroquinate to 3-dehydroshikimate
739956
Arabidopsis thaliana
?
-
-
-
-
Subunits
Subunits
Commentary
Organism
monomer
in solution
Arabidopsis thaliana
More
the SDH domain is connected via its N-terminus to the DHQ module
Arabidopsis thaliana
Temperature Optimum [°C]
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
22
-
shikimate oxidation assay at room temperature
Arabidopsis thaliana
22
-
assay at room temperature
Populus trichocarpa
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
399
-
NADP+
pH 8.8, 22°C, with shikimate
Arabidopsis thaliana
428
-
shikimate
pH 8.8, 22°C, with NADP+
Arabidopsis thaliana
pH Optimum
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
8.5
-
assay at
Populus trichocarpa
8.8
-
shikimate oxidation assay at
Arabidopsis thaliana
Crystallization (Commentary) (protein specific)
Crystallization
Organism
crystal structure analysis, PDB IDs 2GPT, 2O7Q, and 2O7S, for the binary and ternary complexes of enzyme and substrates
Arabidopsis thaliana
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.131
-
NADP+
pH 8.8, 22°C, with shikimate
Arabidopsis thaliana
0.223
-
shikimate
pH 8.5, 22°C, with NADP+, isozyme Poptr1
Populus trichocarpa
0.346
-
shikimate
pH 8.5, 22°C, with NADP+, isozyme Poptr5
Populus trichocarpa
0.685
-
shikimate
pH 8.8, 22°C, with NADP+
Arabidopsis thaliana
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
3-dehydroshikimate + NADPH
Populus trichocarpa
-
shikimate + NADP+
-
-
r
3-dehydroshikimate + NADPH
Arabidopsis thaliana
-
shikimate + NADP+
-
-
r
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
3-dehydroshikimate + NADPH
-
739956
Populus trichocarpa
shikimate + NADP+
-
-
-
r
3-dehydroshikimate + NADPH
-
739956
Arabidopsis thaliana
shikimate + NADP+
-
-
-
r
additional information
The bifunctional enzyme also catalyzes dehydration of 3-dehydroquinate to 3-dehydroshikimate
739956
Populus trichocarpa
?
-
-
-
-
additional information
The bifunctional enzyme also catalyzes dehydration of 3-dehydroquinate to 3-dehydroshikimate
739956
Arabidopsis thaliana
?
-
-
-
-
Subunits (protein specific)
Subunits
Commentary
Organism
monomer
in solution
Arabidopsis thaliana
More
the SDH domain is connected via its N-terminus to the DHQ module
Arabidopsis thaliana
Temperature Optimum [°C] (protein specific)
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
22
-
shikimate oxidation assay at room temperature
Arabidopsis thaliana
22
-
assay at room temperature
Populus trichocarpa
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
399
-
NADP+
pH 8.8, 22°C, with shikimate
Arabidopsis thaliana
428
-
shikimate
pH 8.8, 22°C, with NADP+
Arabidopsis thaliana
pH Optimum (protein specific)
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
8.5
-
assay at
Populus trichocarpa
8.8
-
shikimate oxidation assay at
Arabidopsis thaliana
General Information
General Information
Commentary
Organism
malfunction
a contact with the shikimate C1-carboxyl is formed by the phenol hydroxyl of a tyrosine. Substitution of this residue in Arabidopsis thaliana DHQ-SDH causes a substantial reduction in turnover rate
Arabidopsis thaliana
metabolism
in plants, 3-dehydroshikimate from the shikimate pathway is thought to be the immediate precursor of gallate, a component of hydrolysable tannins. Metabolic pathways involving SDH family proteins: (A) the shikimate pathway, (B) the quinate pathway, (C) the aminoshikimate pathway, overview
Arabidopsis thaliana
metabolism
in plants, 3-dehydroshikimate from the shikimate pathway is thought to be the immediate precursor of gallate, a component of hydrolysable tannins. Metabolic pathways involving SDH family proteins: (A) the shikimate pathway. (B) the quinate pathway. (C) the aminoshikimate pathway, overview
Populus trichocarpa
additional information
in plants such as Arabidopsis thaliana and Populus trichocarpa, shikimate dehydrogenase SDH is fused to an anabolic (type I) dehydroquinate dehydratase (DHQ), forming a bifunctional protein known as the DHQ-SDH complex, cf. EC 4.2.1.10 and EC 1.1.1.25. The close proximity of domains in the DHQ-SDH complex may facilitate substrate channeling between enzyme active sites, minimizing the loss of shikimate pathway intermediates to competing processe. Crystallization of the Arabidopsis thaliana protein with shikimate bound in the SDH domain and tartrate (a component of the crystallization solution) in the DHQ domain reveals a V-shaped orientation of the domains. Addition of NADP+ to DHQ–SDH crystals already containing shikimate in the SDH domain results in the production of 3-dehydroshikimate by the SDH domain and the transfer of the compound to the DHQ active sites
Arabidopsis thaliana
additional information
in plants such as Arabidopsis thaliana and Populus trichocarpa, shikimate dehydrogenase SDH is fused to an anabolic (type I) dehydroquinate dehydratase (DHQ), forming a bifunctional protein known as the DHQ–SDH complex, cf. EC 4.2.1.10 and EC 1.1.1.25. The close proximity of domains in the DHQ–SDH complex may facilitate substrate channeling between enzyme active sites, minimizing the loss of shikimate pathway intermediates to competing processes
Populus trichocarpa
General Information (protein specific)
General Information
Commentary
Organism
malfunction
a contact with the shikimate C1-carboxyl is formed by the phenol hydroxyl of a tyrosine. Substitution of this residue in Arabidopsis thaliana DHQ-SDH causes a substantial reduction in turnover rate
Arabidopsis thaliana
metabolism
in plants, 3-dehydroshikimate from the shikimate pathway is thought to be the immediate precursor of gallate, a component of hydrolysable tannins. Metabolic pathways involving SDH family proteins: (A) the shikimate pathway, (B) the quinate pathway, (C) the aminoshikimate pathway, overview
Arabidopsis thaliana
metabolism
in plants, 3-dehydroshikimate from the shikimate pathway is thought to be the immediate precursor of gallate, a component of hydrolysable tannins. Metabolic pathways involving SDH family proteins: (A) the shikimate pathway. (B) the quinate pathway. (C) the aminoshikimate pathway, overview
Populus trichocarpa
additional information
in plants such as Arabidopsis thaliana and Populus trichocarpa, shikimate dehydrogenase SDH is fused to an anabolic (type I) dehydroquinate dehydratase (DHQ), forming a bifunctional protein known as the DHQ-SDH complex, cf. EC 4.2.1.10 and EC 1.1.1.25. The close proximity of domains in the DHQ-SDH complex may facilitate substrate channeling between enzyme active sites, minimizing the loss of shikimate pathway intermediates to competing processe. Crystallization of the Arabidopsis thaliana protein with shikimate bound in the SDH domain and tartrate (a component of the crystallization solution) in the DHQ domain reveals a V-shaped orientation of the domains. Addition of NADP+ to DHQ–SDH crystals already containing shikimate in the SDH domain results in the production of 3-dehydroshikimate by the SDH domain and the transfer of the compound to the DHQ active sites
Arabidopsis thaliana
additional information
in plants such as Arabidopsis thaliana and Populus trichocarpa, shikimate dehydrogenase SDH is fused to an anabolic (type I) dehydroquinate dehydratase (DHQ), forming a bifunctional protein known as the DHQ–SDH complex, cf. EC 4.2.1.10 and EC 1.1.1.25. The close proximity of domains in the DHQ–SDH complex may facilitate substrate channeling between enzyme active sites, minimizing the loss of shikimate pathway intermediates to competing processes
Populus trichocarpa
Other publictions for EC 1.1.1.B61
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Temperature Optimum [°C]
Temperature Range [°C]
Temperature Stability [°C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [°C] (protein specific)
Temperature Range [°C] (protein specific)
Temperature Stability [°C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
739956
Peek
The shikimate dehydrogenase fa ...
Arabidopsis thaliana, Populus trichocarpa
Arch. Biochem. Biophys.
566
85-99
2015
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1
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4
-
-
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2
-
2
-
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-
-
-
-
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4
2
2
-
-
2
2
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1
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4
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2
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-
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4
2
2
-
-
2
2
-
-
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5
5
-
-
-
740724
Guo
Molecular characterization of ...
Populus trichocarpa, Populus trichocarpa Nisqually-1
J. Biol. Chem.
289
23846-23858
2014
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-
1
-
-
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3
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3
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2
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1
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5
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5
1
1
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1
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3
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1
3
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3
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3
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1
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5
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5
1
1
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1
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4
4
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740771
Peek
Identification of novel polyph ...
Arabidopsis thaliana
J. Biomol. Screen.
19
1090-1098
2014
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1
1
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3
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1
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5
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1
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2
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1
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1
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2
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2
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-
1
2
1
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2
3
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1
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1
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2
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1
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1
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