Literature DB >> 29120734

Laboratory evolution of protein conformational dynamics.

Eleanor C Campbell1, Galen J Correy1, Peter D Mabbitt1, Ashley M Buckle2, Nobuhiko Tokuriki3, Colin J Jackson4.   

Abstract

This review focuses on recent work that has begun to establish specific functional roles for protein conformational dynamics, specifically how the conformational landscapes that proteins can sample can evolve under laboratory based evolutionary selection. We discuss recent technical advances in computational and biophysical chemistry, which have provided us with new ways to dissect evolutionary processes. Finally, we offer some perspectives on the emerging view of conformational dynamics and evolution, and the challenges that we face in rationally engineering conformational dynamics.
Copyright © 2017 Elsevier Ltd. All rights reserved.

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Year:  2017        PMID: 29120734     DOI: 10.1016/j.sbi.2017.09.005

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  21 in total

1.  Evolutionary repurposing of a sulfatase: A new Michaelis complex leads to efficient transition state charge offset.

Authors:  Charlotte M Miton; Stefanie Jonas; Gerhard Fischer; Fernanda Duarte; Mark F Mohamed; Bert van Loo; Bálint Kintses; Shina C L Kamerlin; Nobuhiko Tokuriki; Marko Hyvönen; Florian Hollfelder
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-16       Impact factor: 11.205

Review 2.  Adaptability and specificity: how do proteins balance opposing needs to achieve function?

Authors:  Bentley Wingert; James Krieger; Hongchun Li; Ivet Bahar
Journal:  Curr Opin Struct Biol       Date:  2020-10-11       Impact factor: 6.809

3.  Optimization of the Turnover in Artificial Enzymes via Directed Evolution Results in the Coupling of Protein Dynamics to Chemistry.

Authors:  Joseph W Schafer; Ioanna Zoi; Dimitri Antoniou; Steven D Schwartz
Journal:  J Am Chem Soc       Date:  2019-06-24       Impact factor: 15.419

4.  Evolution of dynamical networks enhances catalysis in a designer enzyme.

Authors:  H Adrian Bunzel; J L Ross Anderson; Donald Hilvert; Vickery L Arcus; Marc W van der Kamp; Adrian J Mulholland
Journal:  Nat Chem       Date:  2021-08-19       Impact factor: 24.427

5.  Natural Evolution Provides Strong Hints about Laboratory Evolution of Designer Enzymes.

Authors:  Wen Jun Xie; Arieh Warshel
Journal:  Proc Natl Acad Sci U S A       Date:  2022-07-28       Impact factor: 12.779

6.  Harnessing Deep Learning for Optimization of Lennard-Jones Parameters for the Polarizable Classical Drude Oscillator Force Field.

Authors:  Payal Chatterjee; Mert Y Sengul; Anmol Kumar; Alexander D MacKerell
Journal:  J Chem Theory Comput       Date:  2022-04-01       Impact factor: 6.578

7.  Quantitative mapping of binding specificity landscapes for homologous targets by using a high-throughput method.

Authors:  Lidan Aharon; Shay-Lee Aharoni; Evette S Radisky; Niv Papo
Journal:  Biochem J       Date:  2020-05-15       Impact factor: 3.857

Review 8.  A Minireview on Temperature Dependent Protein Conformational Sampling.

Authors:  Ming Dong
Journal:  Protein J       Date:  2021-06-28       Impact factor: 2.371

9.  Comprehensive exploration of the translocation, stability and substrate recognition requirements in VIM-2 lactamase.

Authors:  John Z Chen; Douglas M Fowler; Nobuhiko Tokuriki
Journal:  Elife       Date:  2020-06-08       Impact factor: 8.140

Review 10.  Evolutionary Divergent Suppressor Mutations in Conformational Diseases.

Authors:  Noel Mesa-Torres; Isabel Betancor-Fernández; Elisa Oppici; Barbara Cellini; Eduardo Salido; Angel L Pey
Journal:  Genes (Basel)       Date:  2018-07-13       Impact factor: 4.096

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