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Literature summary extracted from

  • Wagner, T.; Boyko, A.; Alzari, P.M.; Bunik, V.I.; Bellinzoni, M.
    Conformational transitions in the active site of mycobacterial 2-oxoglutarate dehydrogenase upon binding phosphonate analogues of 2-oxoglutarate From a Michaelis-like complex to ThDP adducts (2019), J. Struct. Biol., 208, 182-190 .
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
1.2.4.2 expressed in Escherichia coli Mycolicibacterium smegmatis

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.2.4.2 enzyme in complex with phosphono ethyl succinyl phosphonate and/or succinyl phosphonate, hanging drop vapor diffusion method, using 2% (w/v) 2-methyl-2-propanol and 47% (w/v) 2-methyl-2,4-pentanediol Mycolicibacterium smegmatis
1.2.4.2 in complex with inhibitors succinyl phosphonate, phosphono ethyl succinyl phosphonate. Crystallographic snapshots of the Michaelis-like complex, followed by the covalent adduction of the inhibitor to thiamin diphosphate, mimicking the pre-decarboxylation complex Mycolicibacterium smegmatis

Protein Variants

EC Number Protein Variants Comment Organism
1.2.4.2 E952Q in this mutant the activation of thiamine diphosphate is impaired Mycolicibacterium smegmatis

Inhibitors

EC Number Inhibitors Comment Organism Structure
1.2.4.2 phosphono ethyl succinyl phosphonate competitive inhibitor Mycolicibacterium smegmatis
1.2.4.2 succinyl phosphonate competitive inhibitor Mycolicibacterium smegmatis

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
1.2.4.2 Mg2+ 1 mM used in assay conditions Mycolicibacterium smegmatis

Organism

EC Number Organism UniProt Comment Textmining
1.2.4.2 Mycolicibacterium smegmatis A0R2B1
-
-
1.2.4.2 Mycolicibacterium smegmatis A0R2B1 cf. EC 4.1.1.71, EC 2.2.1.5 and EC 2.3.1.61
-
1.2.4.2 Mycolicibacterium smegmatis ATCC 700084 A0R2B1 cf. EC 4.1.1.71, EC 2.2.1.5 and EC 2.3.1.61
-
1.2.4.2 Mycolicibacterium smegmatis mc(2)155 A0R2B1
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.2.4.2
-
 Mycolicibacterium smegmatis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.2.4.2 2-oxoglutarate + 2,6-dichlorophenolindophenol
-
 Mycolicibacterium smegmatis ?
-
 ?
1.2.4.2 2-oxoglutarate + 2,6-dichlorophenolindophenol
-
 Mycolicibacterium smegmatis ATCC 700084 ?
-
 ?
1.2.4.2 2-oxoglutarate + 2,6-dichlorophenolindophenol
-
 Mycolicibacterium smegmatis mc(2)155 ?
-
 ?

Synonyms

EC Number Synonyms Comment Organism
1.2.4.2 Kgd thiamine diphosphate-dependent E1o component of the 2-oxoglutarate dehydrogenase complex Mycolicibacterium smegmatis
1.2.4.2 SucA
-
 Mycolicibacterium smegmatis

Cofactor

EC Number Cofactor Comment Organism Structure
1.2.4.2 thiamine diphosphate
-
 Mycolicibacterium smegmatis
1.2.4.2 thiamine diphosphate dependent on Mycolicibacterium smegmatis

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
1.2.4.2 0.043
-
 succinyl phosphonate at pH 7.0 and 26°C Mycolicibacterium smegmatis
1.2.4.2 0.043
-
 succinyl phosphonate pH 7. 26°C Mycolicibacterium smegmatis
1.2.4.2 0.88
-
 phosphono ethyl succinyl phosphonate at pH 7.0 and 26°C Mycolicibacterium smegmatis
1.2.4.2 0.88
-
 phosphono ethyl succinyl phosphonate pH 7, 26°C Mycolicibacterium smegmatis