ArticleJournal of industrial microbiology & biotechnology2013
Databases of the thiotemplate modular systems (CSDB) and their in silico recombinants (r-CSDB).
Article in Journal of industrial microbiology & biotechnology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 22 citations in OpenAlex.
- Genomic mining and diversity of assembly line polyketide synthases.Open biology · 2023Article
- Phylogenetic classification of natural product biosynthetic gene clusters based on regulatory mechanisms.Frontiers in microbiology · 2023Article
- Acyltransferases as Tools for Polyketide Synthase Engineering.Antibiotics (Basel, Switzerland) · 2018Review
- The secondary metabolite bioinformatics portal: Computational tools to facilitate synthetic biology of secondary metabolite production.Synthetic and systems biotechnology · 2016Review
- Computational approaches to natural product discovery.Nature chemical biology · 2015Article
- Article
- A roadmap for natural product discovery based on large-scale genomics and metabolomics.Nature chemical biology · 2014Article
- Predicting substrate specificity of adenylation domains of nonribosomal peptide synthetases and other protein properties by latent semantic indexing.Journal of industrial microbiology & biotechnology · 2014Article
- Evolutionary concepts in natural products discovery: what actinomycetes have taught us.Journal of industrial microbiology & biotechnology · 2014Review
Corrections and comments
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Authors and funding
8 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Modular biosynthetic clusters are responsible for the synthesis of many important pharmaceutical products. They include polyketide synthases (PKS clusters), non-ribosomal synthetases (NRPS clusters), and mixed clusters (containing both PKS and NRPS modules). The ClustScan database (CSDB) contains highly annotated descriptions of 170 clusters. The database has a hierarchical organization, which allows easy extraction of DNA and protein sequences of polypeptides, modules, and domains as well as an organization of the annotation so as to be able to predict the product chemistry to view it or export it in a standard SMILES format. The recombinant ClustScan database contains information about predicted recombinants between PKS clusters. The recombinants are generated by modeling homologous recombination and are associated with annotation and prediction of product chemistry automatically generated by the model. The database contains over 20,000 recombinants and is a resource for in silico approaches to detecting promising new compounds. Methods are available to construct the corresponding recombinants in the laboratory.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.