ArticleBMC genomics2009
P2CS: a two-component system resource for prokaryotic signal transduction research.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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39 citing papers in PubMed.
- DiffPaSS-high-performance differentiable pairing of protein sequences using soft scores.Bioinformatics (Oxford, England) · 2024Article
- Pairing interacting protein sequences using masked language modeling.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Combining phylogeny and coevolution improves the inference of interaction partners among paralogous proteins.PLoS computational biology · 2023Article
- Correlations from structure and phylogeny combine constructively in the inference of protein partners from sequences.PLoS computational biology · 2022Article
- Regulation of gene expression by non-phosphorylated response regulators.International microbiology : the official journal of the Spanish Society for Microbiology · 2021Review
- Membrane Sensor Histidine Kinases: Insights from Structural, Ligand and Inhibitor Studies of Full-Length Proteins and Signalling Domains for Antibiotic Discovery.Molecules (Basel, Switzerland) · 2021Review
- Evolutionary history expands the range of signaling interactions in hybrid multikinase networks.Scientific reports · 2021Article
- Trivial and nontrivial error sources account for misidentification of protein partners in mutual information approaches.Scientific reports · 2021Article
- Elucidation of the Pathogenicity-Associated Regulatory Network in Xanthomonas oryzae pv. oryzae.mSystems · 2021Article
- The impact of two-component sensorial network in staphylococcal speciation.Current opinion in microbiology · 2020Review
- Phylogenetic correlations can suffice to infer protein partners from sequences.PLoS computational biology · 2019Article
- A Genome-Scale Co-Functional Network ofMolecules and cells · 2019Article
- Inferring interaction partners from protein sequences using mutual information.PLoS computational biology · 2018Article
- Sensory deprivation in Staphylococcus aureus.Nature communications · 2018Article
- The variome of pneumococcal virulence factors and regulators.BMC genomics · 2018Article
- Disruption of tetR type regulator adeN by mobile genetic element confers elevated virulence in Acinetobacter baumannii.Virulence · 2017Article
- Glucose-Specific Enzyme IIA of the Phosphoenolpyruvate:Carbohydrate Phosphotransferase System Modulates Chitin Signaling Pathways in Vibrio cholerae.Journal of bacteriology · 2017Article
- Inferring interaction partners from protein sequences.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- The essential genome of Streptococcus agalactiae.BMC genomics · 2016Article
- Two overlapping two-component systems in Xanthomonas oryzae pv. oryzae contribute to full fitness in rice by regulating virulence factors expression.Scientific reports · 2016Article
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6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWith the escalation of high throughput prokaryotic genome sequencing, there is an ever-increasing need for databases that characterise, catalogue and present data relating to particular gene sets and genomes/metagenomes. Two-component system (TCS) signal transduction pathways are the dominant mechanisms by which micro-organisms sense and respond to external as well as internal environmental changes. These systems respond to a wide range of stimuli by triggering diverse physiological adjustments, including alterations in gene expression, enzymatic reactions, or protein-protein interactions. DESCRIPTION: We present P2CS (Prokaryotic 2-Component Systems), an integrated and comprehensive database of TCS signal transduction proteins, which contains a compilation of the TCS genes within 755 completely sequenced prokaryotic genomes and 39 metagenomes. P2CS provides detailed annotation of each TCS gene including family classification, sequence features, functional domains, as well as genomic context visualization. To bypass the generic problem of gene underestimation during genome annotation, we also constituted and searched an ORFeome, which improves the recovery of TCS proteins compared to searches on the equivalent proteomes.
conclusionP2CS has been developed for computational analysis of the modular TCSs of prokaryotic genomes and metagenomes. It provides a complete overview of information on TCSs, including predicted candidate proteins and probable proteins, which need further curation/validation. The database can be browsed and queried with a user-friendly web interface at http://www.p2cs.org/.
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