BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins.

ABSTRACT: Interest in secondary metabolites such as RiPPs (ribosomally synthesized and posttranslationally modified peptides) is increasing worldwide. To facilitate the research in this field we have updated our mining web server. BAGEL4 is faster than its predecessor and is now fully independent from ORF-calling. Gene clusters of interest are discovered using the core-peptide database and/or through HMM motifs that are present in associated context genes. The databases used for mining have been updated and extended with literature references and links to UniProt and NCBI. Additionally, we have included automated promoter and terminator prediction and the option to upload RNA expression data, which can be displayed along with the identified clusters. Further improvements include the annotation of th

SUBMITTER: van Heel AJ 

PROVIDER: S-EPMC6030817 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature