Literature DB >> 24915882

Correlated motions are a fundamental property of β-sheets.

R Bryn Fenwick1, Laura Orellana1, Santi Esteban-Martín2, Modesto Orozco3, Xavier Salvatella4.   

Abstract

Correlated motions in proteins can mediate fundamental biochemical processes such as signal transduction and allostery. The mechanisms that underlie these processes remain largely unknown due mainly to limitations in their direct detection. Here, based on a detailed analysis of protein structures deposited in the protein data bank, as well as on state-of-the art molecular simulations, we provide general evidence for the transfer of structural information by correlated backbone motions, mediated by hydrogen bonds, across β-sheets. We also show that the observed local and long-range correlated motions are mediated by the collective motions of β-sheets and investigate their role in large-scale conformational changes. Correlated motions represent a fundamental property of β-sheets that contributes to protein function.

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Year:  2014        PMID: 24915882     DOI: 10.1038/ncomms5070

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   14.919


  31 in total

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Authors:  Ryan L Melvin; Jiajie Xiao; Ryan C Godwin; Kenneth S Berenhaut; Freddie R Salsbury
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2.  Conformational variation of an extreme drug resistant mutant of HIV protease.

Authors:  Chen-Hsiang Shen; Yu-Chung Chang; Johnson Agniswamy; Robert W Harrison; Irene T Weber
Journal:  J Mol Graph Model       Date:  2015-09-08       Impact factor: 2.518

3.  Quantifying Allosteric Communication via Both Concerted Structural Changes and Conformational Disorder with CARDS.

Authors:  Sukrit Singh; Gregory R Bowman
Journal:  J Chem Theory Comput       Date:  2017-03-22       Impact factor: 6.006

4.  Inter-Active Site Communication Mediated by the Dimer Interface β-Sheet in the Half-the-Sites Enzyme, Thymidylate Synthase.

Authors:  Paul J Sapienza; Konstantin I Popov; David D Mowrey; Bradley T Falk; Nikolay V Dokholyan; Andrew L Lee
Journal:  Biochemistry       Date:  2019-07-18       Impact factor: 3.162

5.  Engineering Pak1 Allosteric Switches.

Authors:  Onur Dagliyan; Andrei V Karginov; Sho Yagishita; Madeline E Gale; Hui Wang; Celine DerMardirossian; Claire M Wells; Nikolay V Dokholyan; Haruo Kasai; Klaus M Hahn
Journal:  ACS Synth Biol       Date:  2017-04-06       Impact factor: 5.110

6.  Nanosecond Dynamics Regulate the MIF-Induced Activity of CD74.

Authors:  Georgios Pantouris; Junming Ho; Dilip Shah; Mansoor Ali Syed; Lin Leng; Vineet Bhandari; Richard Bucala; Victor S Batista; J Patrick Loria; Elias J Lolis
Journal:  Angew Chem Int Ed Engl       Date:  2018-05-09       Impact factor: 15.336

7.  Regulation of MIF Enzymatic Activity by an Allosteric Site at the Central Solvent Channel.

Authors:  Georgios Pantouris; Leepakshi Khurana; Anthony Ma; Erin Skeens; Krystle Reiss; Victor S Batista; George P Lisi; Elias J Lolis
Journal:  Cell Chem Biol       Date:  2020-05-19       Impact factor: 8.116

8.  The RAS-Binding Domain of Human BRAF Protein Serine/Threonine Kinase Exhibits Allosteric Conformational Changes upon Binding HRAS.

Authors:  James M Aramini; Sergey M Vorobiev; Lynda M Tuberty; Haleema Janjua; Elliot T Campbell; Jayaraman Seetharaman; Min Su; Yuanpeng J Huang; Thomas B Acton; Rong Xiao; Liang Tong; Gaetano T Montelione
Journal:  Structure       Date:  2015-07-09       Impact factor: 5.006

9.  Na+-binding modes involved in thrombin's allosteric response as revealed by molecular dynamics simulations, correlation networks and Markov modeling.

Authors:  Jiajie Xiao; Freddie R Salsbury
Journal:  Phys Chem Chem Phys       Date:  2019-02-20       Impact factor: 3.676

10.  Structural analyses of the Group A flavin-dependent monooxygenase PieE reveal a sliding FAD cofactor conformation bridging OUT and IN conformations.

Authors:  Mahder S Manenda; Marie-Ève Picard; Liping Zhang; Normand Cyr; Xiaojun Zhu; Julie Barma; John M Pascal; Manon Couture; Changsheng Zhang; Rong Shi
Journal:  J Biol Chem       Date:  2020-02-28       Impact factor: 5.157

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