ArticleBiophysical journal2010
Allosteric response is both conserved and variable across three CheY orthologs.
Article in Biophysical journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Multiply Perturbed Response: A Computational Protocol to Identify Cooperative Allosteric Residue Combinations Driving Protein Conformational Transitions.Bio-protocol · 2026Article
- Distinct allosteric pathways in imidazole glycerol phosphate synthase from yeast and bacteria.Biophysical journal · 2022Article
- A Coarse-Grained Methodology Identifies Intrinsic Mechanisms That Dissociate Interacting Protein Pairs.Frontiers in molecular biosciences · 2020Article
- Mutations in Antibody Fragments Modulate Allosteric Response Via Hydrogen-Bond Network Fluctuations.Biophysical journal · 2016Article
- Rigid Residue Scan Simulations Systematically Reveal Residue Entropic Roles in Protein Allostery.PLoS computational biology · 2016Article
- Rigidity Emerges during Antibody Evolution in Three Distinct Antibody Systems: Evidence from QSFR Analysis of Fab Fragments.PLoS computational biology · 2015Article
- CheY's acetylation sites responsible for generating clockwise flagellar rotation in Escherichia coli.Molecular microbiology · 2015Article
- Flexibility Correlation between Active Site Regions Is Conserved across Four AmpC β-Lactamase Enzymes.PloS one · 2015Article
- Redistribution of flexibility in stabilizing antibody fragment mutants follows Le Châtelier's principle.PloS one · 2014Article
- Thermodynamic stability and flexibility characteristics of antibody fragment complexes.Protein and peptide letters · 2014Article
- A case study comparing quantitative stability-flexibility relationships across five metallo-β-lactamases highlighting differences within NDM-1.Methods in molecular biology (Clifton, N.J.) · 2014Article
- Variations within class-A β-lactamase physiochemical properties reflect evolutionary and environmental patterns, but not antibiotic specificity.PLoS computational biology · 2013Article
- Changes in Lysozyme Flexibility upon Mutation Are Frequent, Large and Long-Ranged.PLoS computational biology · 2012Article
- Article
- Ensemble properties of network rigidity reveal allosteric mechanisms.Methods in molecular biology (Clifton, N.J.) · 2012Article
- Nonadditivity in conformational entropy upon molecular rigidification reveals a universal mechanism affecting folding cooperativity.Biophysical journal · 2011Article
- Ensemble-based methods for describing protein dynamics.Current opinion in pharmacology · 2010Review
- A signal processing method to explore similarity in protein flexibility.Advances in bioinformatics · 2010Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
A computational method to identify residues likely to initiate allosteric signals has been developed. The method is based on differences within stability and flexibility profiles between wild-type and perturbed structures as computed by a distance constraint model. Application of the approach to three bacterial chemotaxis protein Y (CheY) orthologs provides a comparison of allosteric response across protein family divergence. Interestingly, we observe a rich mixture of both conservation and variability within the identified allosteric sites. While similarity within the overall response parallels the evolutionary relationships, >50% of the best scoring putative sites are only identified in a single ortholog. These results suggest that detailed descriptions of intraprotein communication are substantially more variable than structure and function, yet do maintain some evolutionary relationships. Finally, structural clusters of large response identify four allosteric hotspots, including the β4/α4 loop known to be critical to relaying the CheY phosphorylation signal.
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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.