Application | Comment | Organism |
---|---|---|
drug development | o-succinylbenzoyl-CoA synthetase, or MenE, is an essential adenylate-forming enzyme targeted for development of antibiotics in the menaquinone biosynthesis | Bacillus subtilis |
Cloned (Comment) | Organism |
---|---|
recombinant expression of His-tagged wild-type and mutant enzymes in Escherichia coli strain BL21(DE3) | Bacillus subtilis |
Crystallization (Comment) | Organism |
---|---|
purified enzyme BsMenE, hanging drop vapor diffusion method, 1:1 mixture of a solution of protein at 10 mg/ml and a reservoir solution at pH 6.15 containing 8.1% w/v PEG 8000, 0.09 M cacodylate/HCl, 0.144 M calcium acetate, 12.6% glycerol, 0.049 M sodium phosphate monobasic, and 0.091 M dibasic potassium phosphate, a BsMenE-ATP-Mg2-complex is grown within a week in a 1:1 mixture of a solution of 10 mg/ml BsMenE protein preincubated with 3 mM ATP and 5 mM MgCl2 and a reservoir solution at pH 7.7 containing 7.2% v/v ethylene glycol, 9.9% w/v PEG 8000, 0.09 M HEPES, 3.5% v/v 2-methyl-2,4-pentanediol, and 0.01 M acetate, and a BsMenE-AMP complex grown from an 1:1 mixture of a solution of 10 mg/ml BsMenE protein preincubated with 3 mM AMP and mixed with a reservoir solution at pH 7.5 containing 0.10 M HEPES, 10% w/v PEG 6000, 5% v/v 2-methyl-2,4-pentadiol, 16°C, X-ray diffraction structure determination and analysis at 1.98-2.82 A resolution | Bacillus subtilis |
Protein Variants | Comment | Organism |
---|---|---|
G154P | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
G157P | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
additional information | mutation of the P-loop residues hydrogen-bonded to ATP reveals a crucial catalytic role of ATP-enzyme interaction | Bacillus subtilis |
R382A | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
R382K | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
T152A | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
T155A | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
T155A/T156A | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
T156A | site-directed mutagenesis, the mutant shows the same stability and circular dichroism spectra as the wild-type enzyme, but reduced catalytic activity | Bacillus subtilis |
KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
additional information | - |
additional information | single-substrate kinetics | Bacillus subtilis | |
0.024 | - |
ATP | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis | |
0.044 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis | |
0.057 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis | |
0.066 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
0.08 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
0.087 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
0.12 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
0.14 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
0.17 | - |
CoA | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
0.21 | - |
CoA | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
0.24 | - |
CoA | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis | |
0.25 | - |
CoA | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
0.26 | - |
CoA | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
0.27 | - |
CoA | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
0.28 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
0.41 | - |
CoA | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
0.88 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
2.3 | - |
ATP | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
2.7 | - |
CoA | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis | |
3 | - |
CoA | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
3.17 | - |
ATP | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
3.3 | - |
ATP | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
3.4 | - |
ATP | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
3.5 | - |
ATP | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
4.2 | - |
ATP | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
4.67 | - |
ATP | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
8.5 | - |
ATP | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Mg2+ | required | Bacillus subtilis |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
ATP + 2-succinylbenzoate + CoA | Bacillus subtilis | - |
AMP + diphosphate + 4-(2-carboxyphenyl)-4-oxobutanoyl-CoA | - |
? | |
ATP + 2-succinylbenzoate + CoA | Bacillus subtilis 168 | - |
AMP + diphosphate + 4-(2-carboxyphenyl)-4-oxobutanoyl-CoA | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Bacillus subtilis | P23971 | - |
- |
Bacillus subtilis 168 | P23971 | - |
- |
Purification (Comment) | Organism |
---|---|
recombinant His-tagged wild-type and mutant enzymes from Escherichia coli strain BL21(DE3) by nickel affinity chromatography and gel filtration | Bacillus subtilis |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
ATP + 2-succinylbenzoate + CoA = AMP + diphosphate + 4-(2-carboxyphenyl)-4-oxobutanoyl-CoA | the enzyme adopts an ordered bi uni uni bi ping-pong mechanism, which involves ATP as the first binding substrate and a large conformational change during the catalysis. In MenE catalysis, tight gripping interactions of the phosphate-binding loop (P-loop) with the ATP triphosphate moiety and an open-closed conformational change to form a compact adenylation active site create a new binding site for the carboxylate substrate. Analysis of the adenylation half-reaction in the domain alteration catalytic mechanism of the adenylateforming enzymes, open-closed conformational change in ATP configuration of the adenylation active site | Bacillus subtilis |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
ATP + 2-succinylbenzoate + CoA | - |
Bacillus subtilis | AMP + diphosphate + 4-(2-carboxyphenyl)-4-oxobutanoyl-CoA | - |
? | |
ATP + 2-succinylbenzoate + CoA | - |
Bacillus subtilis 168 | AMP + diphosphate + 4-(2-carboxyphenyl)-4-oxobutanoyl-CoA | - |
? |
Subunits | Comment | Organism |
---|---|---|
homodimer | - |
Bacillus subtilis |
More | structure motif sequence comparisons | Bacillus subtilis |
Synonyms | Comment | Organism |
---|---|---|
BsMenE | - |
Bacillus subtilis |
MenE | - |
Bacillus subtilis |
o-succinylbenzoyl-CoA synthetase | - |
Bacillus subtilis |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
24 | - |
assay at | Bacillus subtilis |
Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
0.045 | - |
ATP | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
0.045 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
0.05 | - |
CoA | pH 7.5, 24°C, recombinant mutant T155A/T156A | Bacillus subtilis | |
0.077 | - |
ATP | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
0.103 | - |
CoA | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
0.125 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T155A | Bacillus subtilis | |
0.135 | - |
ATP | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
0.137 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
0.145 | - |
CoA | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
0.15 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis | |
0.162 | - |
CoA | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
0.163 | - |
ATP | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
0.206 | - |
CoA | pH 7.5, 24°C, recombinant mutant T152A | Bacillus subtilis | |
0.213 | - |
ATP | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
0.213 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant T156A | Bacillus subtilis | |
0.218 | - |
ATP | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis | |
0.228 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant R382K | Bacillus subtilis | |
0.283 | - |
CoA | pH 7.5, 24°C, recombinant mutant R382A | Bacillus subtilis | |
1.65 | - |
ATP | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
2.17 | - |
CoA | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
2.17 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant G154P | Bacillus subtilis | |
3 | - |
ATP | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
4.3 | - |
CoA | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
46.67 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant mutant G157P | Bacillus subtilis | |
105 | - |
ATP | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis | |
120 | - |
2-succinylbenzoate | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis | |
121.7 | - |
CoA | pH 7.5, 24°C, recombinant wild-type enzyme | Bacillus subtilis |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
7.5 | - |
assay at | Bacillus subtilis |
Cofactor | Comment | Organism | Structure |
---|---|---|---|
ATP | binding structure and ATP-enzyme interaction analysis | Bacillus subtilis |
General Information | Comment | Organism |
---|---|---|
metabolism | o-succinylbenzoyl-CoA synthetase, or MenE, is an essential adenylate-forming enzyme in the menaquinone biosynthesis | Bacillus subtilis |
additional information | in MenE catalysis, tight gripping interactions of the phosphate-binding loop (P-loop) with the ATP triphosphate moiety and an open-closed conformational change to form a compact adenylation active site create a new binding site for the carboxylate substrate, allowing revelation of the determinants of substrate specificities and in-line alignment of the two substrates for backside nucleophilic substitution reaction by molecular modeling, overview. The ATP-enzyme interaction is suggested to play a crucial catalytic role. positioning and catalytic role of a conserved lysine residue in stabilization of the transition state, molecular docking, overview | Bacillus subtilis |
physiological function | ATP-dependent configuration of adenylation active site in o-succinylbenzoyl-CoA synthetase | Bacillus subtilis |