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Literature summary extracted from

  • Skaff, D.A.; McWhorter, W.J.; Geisbrecht, B.V.; Wyckoff, G.J.; Miziorko, H.M.
    Inhibition of bacterial (R)-5-diphosphomevalonate decarboxylase by eriochrome compounds (2015), Arch. Biochem. Biophys., 566, 1-6 .
    View publication on PubMedView publication on EuropePMC

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
4.1.1.33 molecular docking of inhibitor eriochrome black A, binds to the active site Staphylococcus epidermidis

Protein Variants

EC Number Protein Variants Comment Organism
4.1.1.33 R193T modest effects on kinetics Staphylococcus epidermidis
4.1.1.33 W153F modest effects on kinetics Staphylococcus epidermidis
4.1.1.33 W19F 130fold increase in Km for (R)-5-diphosphomevalonate, 10fold increase in Km for ATP Staphylococcus epidermidis

Inhibitors

EC Number Inhibitors Comment Organism Structure
4.1.1.33 eriochrome black A competitive with regard to (R)-5-diphosphomevalonate, inhibits both enzymatic activity and bacterial growth Staphylococcus epidermidis
4.1.1.33 Eriochrome Black T competitive with regard to (R)-5-diphosphomevalonate, inhibits both enzymatic activity and bacterial growth Staphylococcus epidermidis
4.1.1.33 Eriochrome blue black competitive with regard to (R)-5-diphosphomevalonate, inhibits both enzymatic activity and bacterial growth Staphylococcus epidermidis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
4.1.1.33 0.0093
-
 (R)-5-diphosphomevalonate wild-type, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.015
-
 ATP mutant R193T, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.0267
-
 ATP wild-type, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.027
-
 (R)-5-diphosphomevalonate mutant W153F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.038
-
 (R)-5-diphosphomevalonate mutant R193T, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.044
-
 ATP mutant W153F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.3
-
 ATP mutant W19F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 1.3
-
 (R)-5-diphosphomevalonate mutant W19F, pH 7.0, 30°C Staphylococcus epidermidis

Organism

EC Number Organism UniProt Comment Textmining
4.1.1.33 Staphylococcus epidermidis Q9FD73
-
-

Specific Activity [micromol/min/mg]

EC Number Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
4.1.1.33 1.85
-
 mutant W153F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 3
-
 mutant W19F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 8.6
-
 wild-type, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 14.4
-
 mutant R193T, pH 7.0, 30°C Staphylococcus epidermidis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4.1.1.33 ATP + (R)-5-diphosphomevalonate
-
 Staphylococcus epidermidis ADP + phosphate + isopentenyl diphosphate + CO2
-
 ?

Synonyms

EC Number Synonyms Comment Organism
4.1.1.33 MvaD
-
 Staphylococcus epidermidis

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
4.1.1.33 1.14
-
 (R)-5-diphosphomevalonate mutant W153F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 1.8
-
 (R)-5-diphosphomevalonate mutant W19F, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 5.3
-
 (R)-5-diphosphomevalonate wild-type, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 8.8
-
 (R)-5-diphosphomevalonate mutant R193T, pH 7.0, 30°C Staphylococcus epidermidis

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
4.1.1.33 0.00058
-
 eriochrome black A wild-type, substrate (R)-5-diphosphomevalonate, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.00059
-
 Eriochrome Black T wild-type, substrate ATP, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.0012
-
 Eriochrome Black T wild-type, substrate (R)-5-diphosphomevalonate, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.0018
-
 eriochrome black A wild-type, substrate ATP, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.0027
-
 Eriochrome blue black wild-type, substrate (R)-5-diphosphomevalonate, pH 7.0, 30°C Staphylococcus epidermidis
4.1.1.33 0.0068
-
 Eriochrome blue black wild-type, substrate ATP, pH 7.0, 30°C Staphylococcus epidermidis

IC50 Value

EC Number IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
4.1.1.33 0.0035
-
 wild-type, pH 7.0, 30°C Staphylococcus epidermidis Eriochrome Black T
4.1.1.33 0.0035
-
 wild-type, pH 7.0, 30°C Staphylococcus epidermidis Eriochrome blue black
4.1.1.33 0.005
-
 wild-type, pH 7.0, 30°C Staphylococcus epidermidis eriochrome black A