ArticlePLoS computational biology2008
Identifying cognate binding pairs among a large set of paralogs: the case of PE/PPE proteins of Mycobacterium tuberculosis.
Article in PLoS computational biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 44 citations in OpenAlex.
- Characterization of PPE19 as a novel mediator ofmSphere · 2025Article
- Article
- PE/PPE Proteome and ESX-5 Substrate Spectrum inInternational journal of molecular sciences · 2024Article
- Article
- Immunogenicity of PE18, PE31, and PPE26 proteins fromFrontiers in immunology · 2023Article
- The rate and role of pseudogenes of theMicrobial genomics · 2022Article
- TheInternational journal of molecular sciences · 2022Review
- Role of the PE/PPE Family in Host-Pathogen Interactions and Prospects for Anti-Tuberculosis Vaccine and Diagnostic Tool Design.Frontiers in cellular and infection microbiology · 2020Review
- Structural basis of the PE-PPE protein interaction inThe Journal of biological chemistry · 2017Article
- Bioinformatics Identification of Drug Resistance-Associated Gene Pairs in Mycobacterium tuberculosis.International journal of molecular sciences · 2016Article
- Genomics Study ofEvolutionary bioinformatics online · 2016Article
- Article
- Structure of a PE-PPE-EspG complex from Mycobacterium tuberculosis reveals molecular specificity of ESX protein secretion.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Article
- Generation and screening of a comprehensive Mycobacterium avium subsp. paratuberculosis transposon mutant bank.Frontiers in cellular and infection microbiology · 2014Article
- Article
- General secretion signal for the mycobacterial type VII secretion pathway.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- The Mycobacterium tuberculosis PE proteins Rv0285 and Rv1386 modulate innate immunity and mediate bacillary survival in macrophages.PloS one · 2012Article
- Conserved Pro-Glu (PE) and Pro-Pro-Glu (PPE) protein domains target LipY lipases of pathogenic mycobacteria to the cell surface via the ESX-5 pathway.The Journal of biological chemistry · 2011Article
- The TB Structural Genomics Consortium: a decade of progress.Tuberculosis (Edinburgh, Scotland) · 2011Review
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Authors and funding
3 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We consider the problem of how to detect cognate pairs of proteins that bind when each belongs to a large family of paralogs. To illustrate the problem, we have undertaken a genomewide analysis of interactions of members of the PE and PPE protein families of Mycobacterium tuberculosis. Our computational method uses structural information, operon organization, and protein coevolution to infer the interaction of PE and PPE proteins. Some 289 PE/PPE complexes were predicted out of a possible 5,590 PE/PPE pairs genomewide. Thirty-five of these predicted complexes were also found to have correlated mRNA expression, providing additional evidence for these interactions. We show that our method is applicable to other protein families, by analyzing interactions of the Esx family of proteins. Our resulting set of predictions is a starting point for genomewide experimental interaction screens of the PE and PPE families, and our method may be generally useful for detecting interactions of proteins within families having many paralogs.
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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.