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Literature summary extracted from

  • Kaur, D.; Brennan, P.J.; Crick, D.C.
    Decaprenyl diphosphate synthesis in Mycobacterium tuberculosis (2004), J. Bacteriol., 186, 7564-7570.
    View publication on PubMedView publication on EuropePMC

Activating Compound

EC Number Activating Compound Comment Organism Structure
2.5.1.86 dithiothreitol stimulates activity Mycobacterium tuberculosis
2.5.1.86 Triton X-100 detergent stimulates activity, maximally active in presence of 0.1% Triton X-100 Mycobacterium tuberculosis
2.5.1.91 dithiothreitol
-
Mycobacterium tuberculosis
2.5.1.91 additional information stimulation by detergent Mycobacterium tuberculosis
2.5.1.91 Triton X-100 maximum activity at 0.1% Mycobacterium tuberculosis

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.5.1.86 expression in Escherichia coli Mycobacterium tuberculosis
2.5.1.91 expression in Escherichia coli Mycobacterium tuberculosis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.5.1.86 0.029
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.04
-
geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.084
-
(2E,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.089
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.29
-
(2Z,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.49
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.029
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.04
-
(2E,6E,10E)-geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.084
-
(2E,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.089
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.29
-
(2E,6Z)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.49
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
2.5.1.86 Ca2+ absolute requirement for divalent cations. Enzyme activity is optimal in the presence of 1 mM Mg2+. MnCl2 at 0.1 mM also supports the activity. CaCl2 and ZnCl2 are much less effective Mycobacterium tuberculosis
2.5.1.86 Mg2+ absolute requirement for divalent cations. Enzyme activity is optimal in the presence of 1 mM Mg2+. MnCl2 at 0.1 mM also supports the activity. CaCl2 and ZnCl2 are much less effective Mycobacterium tuberculosis
2.5.1.86 Mn2+ absolute requirement for divalent cations. Enzyme activity is optimal in the presence of 1 mM Mg2+. MnCl2 at 0.1 mM also supports the activity. CaCl2 and ZnCl2 are much less effective Mycobacterium tuberculosis
2.5.1.86 Zn2+ absolute requirement for divalent cations. Enzyme activity is optimal in the presence of 1 mM Mg2+. MnCl2 at 0.1 mM also supports the activity. CaCl2 and ZnCl2 are much less effective Mycobacterium tuberculosis
2.5.1.91 Ca2+ much less effective than Mg2+ Mycobacterium tuberculosis
2.5.1.91 Mg2+ maximum activity at 1 mM Mycobacterium tuberculosis
2.5.1.91 Mn2+ maximum activity at 0.1 mM, about 35% of the activity with Mg2+ Mycobacterium tuberculosis
2.5.1.91 additional information absolute requirement for divalent kations Mycobacterium tuberculosis
2.5.1.91 Zn2+ much less effective than Mg2+ Mycobacterium tuberculosis

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
2.5.1.86 36000
-
x * 36000, SDS-PAGE Mycobacterium tuberculosis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate Mycobacterium tuberculosis the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor, suggesting that this is the natural substrate in vivo 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate
-
?
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate Mycobacterium tuberculosis H37Rv the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor, suggesting that this is the natural substrate in vivo 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate
-
?

Organism

EC Number Organism UniProt Comment Textmining
2.5.1.86 Mycobacterium tuberculosis P9WFF7
-
-
2.5.1.86 Mycobacterium tuberculosis H37Rv P9WFF7
-
-
2.5.1.91 Mycobacterium tuberculosis
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.5.1.86
-
Mycobacterium tuberculosis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.5.1.86 (2E,6E)-farnesyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate + nonaprenyl diphosphate + octaprenyl diphosphate the relative amounts of both decaprenyl diphosphate and octaprenyl diphosphate are greater than that of nonaprenyl diphosphate. Shorter chain length also produced. As the concentration of (2Z,6E)-farnesyl diphosphate is increased in the assays, there is an increase in the amount of the shorter products synthesized relative to decaprenyl diphosphate ?
2.5.1.86 (2E,6E)-farnesyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis H37Rv diphosphate + decaprenyl diphosphate + nonaprenyl diphosphate + octaprenyl diphosphate the relative amounts of both decaprenyl diphosphate and octaprenyl diphosphate are greater than that of nonaprenyl diphosphate. Shorter chain length also produced. As the concentration of (2Z,6E)-farnesyl diphosphate is increased in the assays, there is an increase in the amount of the shorter products synthesized relative to decaprenyl diphosphate ?
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor, suggesting that this is the natural substrate in vivo Mycobacterium tuberculosis 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate
-
?
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate (2Z,6E)-farnesyl diphosphate i.e. omega, E,Z-farnesyl diphosphate, the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor Mycobacterium tuberculosis 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate decaprenyl diphosphate is the predominant product synthesized, smaller amounts of intermediates of intermediates of shorter chain lengths also being produced. The amount of 40-carbon and 45-carbon products relative to 50-carbon products increases as the (2Z,6E)-farnesyl diphosphate concentration is increased, suggesting that the enzyme loses specificity as the substrate concentration increases ?
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor, suggesting that this is the natural substrate in vivo Mycobacterium tuberculosis H37Rv 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate
-
?
2.5.1.86 (2Z,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate (2Z,6E)-farnesyl diphosphate i.e. omega, E,Z-farnesyl diphosphate, the catalytic efficiency is greatest when (2Z,6E)-farnesyl diphosphate is used as the allylic acceptor Mycobacterium tuberculosis H37Rv 7 diphosphate + (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E)-decaprenyl diphosphate decaprenyl diphosphate is the predominant product synthesized, smaller amounts of intermediates of intermediates of shorter chain lengths also being produced. The amount of 40-carbon and 45-carbon products relative to 50-carbon products increases as the (2Z,6E)-farnesyl diphosphate concentration is increased, suggesting that the enzyme loses specificity as the substrate concentration increases ?
2.5.1.86 geranyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate + nonaprenyl diphosphate + octaprenyl diphosphate decaprenyl diphosphate, nonaprenyl diphosphate, and octaprenyl diphosphate are synthesized. The relative amounts of both decaprenyl diphosphate and octaprenyl diphosphate are greater than that of nonaprenyl diphosphate ?
2.5.1.86 geranyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis H37Rv diphosphate + decaprenyl diphosphate + nonaprenyl diphosphate + octaprenyl diphosphate decaprenyl diphosphate, nonaprenyl diphosphate, and octaprenyl diphosphate are synthesized. The relative amounts of both decaprenyl diphosphate and octaprenyl diphosphate are greater than that of nonaprenyl diphosphate ?
2.5.1.86 geranylgeranyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate + octaprenyl diphosphate + nonaprenyl diphosphate the major product synthesized is octaprenyl diphosphate, followed by nonaprenyl diphosphate, decaprenyl diphosphate, and heptaprenyl diphosphate ?
2.5.1.86 additional information the enzyme is not strictly specific for either the chain length or stereoconfiguration of the acceptor. No activity with dimethylallyl diphosphate Mycobacterium tuberculosis ?
-
?
2.5.1.86 additional information the enzyme is not strictly specific for either the chain length or stereoconfiguration of the acceptor. No activity with dimethylallyl diphosphate Mycobacterium tuberculosis H37Rv ?
-
?
2.5.1.86 neryl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate + nonaprenyl diphosphate + octaprenyl diphosphate decaprenyl diphosphate, nonaprenyl diphosphate, and octaprenyl diphosphate are synthesized. The relative amounts of both decaprenyl diphosphate and octaprenyl diphosphate are greater than that of nonaprenyl diphosphate ?
2.5.1.91 (2E,6E)-farnesyl diphosphate + 7 isopentenyl diphosphate
-
Mycobacterium tuberculosis 7 diphosphate + decaprenyl diphosphate
-
?
2.5.1.91 (2E,6E,10E)-geranylgeranyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + octaprenyl diphosphate plus, in decreasing order, nonaprenyl diphosphate, decaprenyl diphosphate, and heptaprenyl diphosphate ?
2.5.1.91 (2E,6Z)-farnesyl diphosphate + isopentenyl diphosphate highest catalytic efficiency Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate plus smaller amounts of intermediiates with shorter chain length ?
2.5.1.91 geranyl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + decaprenyl diphosphate plus some farnesyl diphosphate ?
2.5.1.91 neryl diphosphate + isopentenyl diphosphate
-
Mycobacterium tuberculosis diphosphate + nonaprenyl diphosphate plus some farnesyl diphosphate ?

Subunits

EC Number Subunits Comment Organism
2.5.1.86 ? x * 36000, SDS-PAGE Mycobacterium tuberculosis

Synonyms

EC Number Synonyms Comment Organism
2.5.1.86 Rv2361c
-
Mycobacterium tuberculosis

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.5.1.86 0.03
-
geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.06
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.07
-
(2E,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.08
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.16
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 11.5
-
(2Z,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.03
-
(2E,6E,10E)-geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.052
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.06
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.072
-
(2E,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.08
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 11.5
-
(2E,6Z)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
2.5.1.86 7.5 8.5
-
Mycobacterium tuberculosis
2.5.1.91 7.5 8.5
-
Mycobacterium tuberculosis

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
2.5.1.86 0.122
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.75
-
geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 0.899
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 5.5
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.86 39.66
-
(2Z,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.122
-
geranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.75
-
(2E,6E,10E)-geranylgeranyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.86
-
(2E,6E)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 0.89
-
isopentenyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 1.79
-
neryl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis
2.5.1.91 39.65
-
(2E,6Z)-farnesyl diphosphate pH 7.9, 37°C Mycobacterium tuberculosis