Workflow Nodes

This tool performs retrosynthesis search for possible metabolic routes between a source molecule and a collection of sink molecules. It takes as input, files from RetroRules, source and sink compounds (can be generated as explained in SynBioCAD Utilities), and the maximal pathway length (i.e; the number of steps). Only a single source molecule is processed at this time. Using Advanced Options, you can define the maximum number of compounds to keep for a next iteration (TopX), the minimal (dmin)
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RP2paths extracts the set of pathways that lies in a metabolic space file output by the RetroPath2.0 workflow. The advanced options include a time out parameter in minutes to limit the execution time of the tool. Similar to the RetroPath2.0 node, an internal limit is set on RAM usage for this server version of the tool.

Scans for the reaction rules and makes a REST request to Selenzyme and finds the enzymatic sequences (through Uniprot ID's) of all the reactions in heterologous pathways of rpSBML files.