Crystallization (Comment) | Organism |
---|---|
purified recombinant enzyme complexed with its tetrahedral reaction intermediate, X-ray diffraction structure determination and analysis | Escherichia coli |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Mg2+ | required | Escherichia coli |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
isochorismate + 2-oxoglutarate | Escherichia coli | - |
5-enolpyruvoyl-6-hydroxy-2-succinylcyclohex-3-ene-1-carboxylate + CO2 | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Escherichia coli | P17109 | - |
- |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
isochorismate + 2-oxoglutarate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO2 | proposed mechanism for formation of the tetrahedral intermediate in MenD catalysis. The strong interaction at the terminal carboxylate is proposed to restrict the rotation around C2-C2alpha so that no hydrogen bond is formed between C2alpha-OH and N4' of the cofactor throughout the reaction process. This disables the formation of the enamine intermediate and enables the formation of the tetrahedral intermediate. Modeling, overview | Escherichia coli |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
isochorismate + 2-oxoglutarate | - |
Escherichia coli | 5-enolpyruvoyl-6-hydroxy-2-succinylcyclohex-3-ene-1-carboxylate + CO2 | - |
? | |
isochorismate + 2-oxoglutarate | via a tetrahedral enamine/acyl anion intermediate, overview | Escherichia coli | 5-enolpyruvoyl-6-hydroxy-2-succinylcyclohex-3-ene-1-carboxylate + CO2 | - |
? |
Synonyms | Comment | Organism |
---|---|---|
(1R,2S,5S,6S)-2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | - |
Escherichia coli |
MenD | - |
Escherichia coli |
SEPHCHC synthase | - |
Escherichia coli |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
7 | - |
assay at | Escherichia coli |
Cofactor | Comment | Organism | Structure |
---|---|---|---|
thiamine diphosphate | ThDP-dependent enzyme | Escherichia coli |
General Information | Comment | Organism |
---|---|---|
evolution | the enzyme Men D is not significantly different from other ThDP-dependent enzymes in active-site architecture, cofactor binding, or overall three-dimensional structure, suggesting the use of the canonical enamine intermediate in its catalysis | Escherichia coli |
metabolism | MenD is a thiamine diphosphate-dependent enzyme that catalyzes a distinctive Stetterlike 1,4-addition reaction in bacterial biosynthesis of vitamin K2 | Escherichia coli |
additional information | in the covalent tetrahedral enamine intermediate, all of the bond lengths and angles of its planar thiazolium ring are comparable to those of a similar enzyme-free thiamine diphosphate adduct, complex crystal structure determination and analysis, NMR structure analysis and modeling, overview | Escherichia coli |