Fig. 2: Seq2ripp pipeline.
From: HypoRiPPAtlas as an Atlas of hypothetical natural products for mass spectrometry database search
The process of generating hypothetical RiPPs from genomes in seq2ripp involves four steps: genome2bgc, bgc2orf, orf2core and core2ripp. Genome2bgc extracts BGCs from the input genome by searching RiPP-related genes. Bgc2orf extracts all ORFs from each BGC and identifies the RiPP precursor ORFs. Orf2core identifies the potential cleavage site within the ORFs and produces cores. Core2ripp generates hypothetical chemical structures of the RiPP from the core and the enzymes in the BGC. For example, the colored region in each compound indicates the modification introduced by the enzyme with the corresponding color in the BGC.
