ArticleNucleic acids research2017
SBSPKSv2: structure-based sequence analysis of polyketide synthases and non-ribosomal peptide synthetases.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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27 citing papers in PubMed, 65 citations in OpenAlex.
- Sequence modeling tools to decode the biosynthetic diversity of the human microbiome.mSystems · 2025Review
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- Comparative Analysis of Signature Sequences from Adenylation Domains Situated within Bacterial-Origin Nonribosomal Peptide Synthetase Modules.Journal of microbiology and biotechnology · 2025Article
- Antibacterial activity and biosynthetic potential of Streptomyces sp. PBR19, isolated from forest rhizosphere soil of Assam.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Discovering type I cis-AT polyketides through computational mass spectrometry and genome mining with Seq2PKS.Nature communications · 2024Article
- Unearthing a Cryptic Biosynthetic Gene Cluster for the Piperazic Acid-Bearing Depsipeptide Diperamycin in the Ant-DwellerInternational journal of molecular sciences · 2024Article
- Genomic mining and diversity of assembly line polyketide synthases.Open biology · 2023Article
- Domain Truncation in Hispidin Synthase Orthologs from Non-Bioluminescent Fungi Does Not Lead to Hispidin Biosynthesis.International journal of molecular sciences · 2023Article
- How to Completely Squeeze a Fungus-Advanced Genome Mining Tools for Novel Bioactive Substances.Pharmaceutics · 2022Review
- Cyanobacterial Genome Sequencing, Annotation, and Bioinformatics.Methods in molecular biology (Clifton, N.J.) · 2022Article
- A Meta-Omics Analysis Unveils the Shift in Microbial Community Structures and Metabolomics Profiles in Mangrove Sediments Treated with a Selective Actinobacterial Isolation Procedure.Molecules (Basel, Switzerland) · 2021Article
- Synthaser: a CD-Search enabled Python toolkit for analysing domain architecture of fungal secondary metabolite megasynth(et)ases.Fungal biology and biotechnology · 2021Article
- Synthase-Selective Exploration of a Tunicate Microbiome by Activity-Guided Single-Cell Genomics.ACS chemical biology · 2021Article
- Screening of Antibiotic Gene Clusters in Microorganisms Isolated from Wood.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Biosynthesis of Fusapyrone Depends on the H3K9 Methyltransferase, FmKmt1, inFrontiers in fungal biology · 2021Article
- SeMPI 2.0-A Web Server for PKS and NRPS Predictions Combined with Metabolite Screening in Natural Product Databases.Metabolites · 2020Article
- Biosynthesis of depsipeptides, or Depsi: The peptides with varied generations.Protein science : a publication of the Protein Society · 2020Review
- Transcriptomic analysis of cyanobacterial alkane overproduction reveals stress-related genes and inhibitors of lipid droplet formation.Microbial genomics · 2020Article
- The Genome of the Plant-Associated Lactic Acid Bacterium Lactococcus lactis KF147 Harbors a Hybrid NRPS-PKS System Conserved in Strains of the Dental Cariogenic Streptococcus mutans.Current microbiology · 2020Article
- Evolution and Diversity of Assembly-Line Polyketide Synthases.Chemical reviews · 2019Review
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Authors and funding
9 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genome guided discovery of novel natural products has been a promising approach for identification of new bioactive compounds. SBSPKS web-server has been a valuable resource for analysis of polyketide synthase (PKS) and non-ribosomal peptide synthetase (NRPS) gene clusters. We have developed an updated version - SBSPKSv2 which is based on comprehensive analysis of sequence, structure and secondary metabolite chemical structure data from 311 experimentally characterized PKS/NRPS gene clusters with known biosynthetic products. A completely new feature of SBSPKSv2 is the inclusion of features for search in chemical space. It allows the user to compare the chemical structure of a given secondary metabolite to the chemical structures of biosynthetic intermediates and final products. For identification of catalytic domains, SBSPKS now uses profile based searches, which are computationally faster and have high sensitivity. HMM profiles have also been added for a number of new domains and motif information has been used for distinguishing condensation (C), epimerization (E) and cyclization (Cy) domains of NRPS. In summary, the new and updated SBSPKSv2 is a versatile tool for genome mining and analysis of polyketide and non-ribosomal peptide biosynthetic pathways in chemical space. The server is available at: http://www.nii.ac.in/sbspks2.html.
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