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Table 3 Rough estimates of \(k_{{cat}}\) values and corresponding GPR information

From: Integration of enzyme constraints in a genome-scale metabolic model of Aspergillus niger improves phenotype predictions

Reaction

EC number

Protein id

kcat from databases (1/h)

Estimated kcat (1/h)

CPAD5P[c] → CO2[c] + H2O[c] + IGP[c]

EC:4.1.1.48

A2QRH6

576.00

3549.02

ADP[c] + RTHIO[c] → DADP[c] + H2O[c] + OTHIO[c]

EC:1.17.4.1

A2QHU5

9.70

11.81

ADP[c] + RTHIO[c] → DADP[c] + H2O[c] + OTHIO[c]

EC:1.17.4.1

A2R480

9.70

12.23

FDP[c] → T3P1[c] + T3P2[c]

EC:4.1.2.13

A2QDL0

21,888.00

123,382.29

AMPm[m] + ATPm[m] → 2 ADPm[m]

EC:2.7.4.10

A2QPN9

179,998.56

4,211,945.08

0.024 C120ACP[c] + 0.013 C140ACP[c] + 0.012 C141ACP[c] + 0.002 C150ACP[c] + 0.154 C160ACP[c] + 0.02 C161ACP[c] + 0.008 C162ACP[c] + 0.002 C170ACP[c] + 0.026 C180ACP[c] + 0.374 C181ACP[c] + 0.327 C182ACP[c] + 0.032 C183ACP[c] + 0.006 C200ACP[c] + MAGLYP[c] → ACP[c] + DAGLYP[c]

EC:2.3.1.20

A2R157

3312.00

16,234.56

  1. The metabolite with [c] presents metabolites in the cytoplasm and [m] in the mitochondria. GSMM also contains compartment information of some metabolites and reactions, which is available in the submitted Additional file 1