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Literature summary for 4.1.1.33 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)

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

Protein Variants

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

Inhibitors

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

KM Value [mM]

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

Organism

Organism UniProt Comment Textmining
Staphylococcus epidermidis Q9FD73
-
-

Specific Activity [micromol/min/mg]

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

Substrates and Products (Substrate)

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

Synonyms

Synonyms Comment Organism
MvaD
-
Staphylococcus epidermidis

Turnover Number [1/s]

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

Ki Value [mM]

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

IC50 Value

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