| MRE |
Open access web server |
Many choices |
Verified KEGG reactions |
Boltzmann factor |
Fraction of conversions via normalized Boltzmann weights |
Required metabolites, EC numbers for enzymes, genes for foreign enzymes, reaction free energy, competing native reactions |
– |
| FMM |
Open access web server |
Many choices |
KEGG reactions |
No |
Number of reaction steps |
EC numbers for enzymes, availability of each enzyme in various host organisms, suggestion for foreign enzymes |
(13) |
| PHT |
Open access web server |
Many choices |
KEGG reactions |
No |
Number of reaction steps |
EC numbers for enzymes, local and global compound similarities for each reaction step |
(14) |
| XTMS |
Open access web server |
E. coli |
Predicted reactions |
Favorability |
Gene scores, reaction steps, toxicity, yield, Gibbs energy |
Source compound for the retrosynthesis path, predicted reactions with EC numbers, genes for foreign enzymes, toxicity, production yield |
(9) |
| Metabolic tinker |
Open access web server |
No host |
RHEA reactions |
Directionality, favorability |
Net favorability |
Possible reactions for each chemical transformation step and net favorability |
(8) |
| PathPred |
Open access web server |
No host |
Predicted reactions |
No |
Chemical similarity |
Final compound of biodegradation, predicted intermediates and reactions, confidence for each predicted reaction |
(7) |
| DESHARKY |
Free download |
E. coli |
KEGG reactions |
No |
Growth rate |
Source or target compound, EC numbers for enzymes, genes for some foreign enzymes, growth rate reduction measures |
(10) |
| BNICE |
Closed access |
No host |
Predicted reactions |
No |
No pathway ranking |
3-level EC number for each predicted chemical transformation |
(6) |
