Literature DB >> 20951644

From protein folding to protein function and biomolecular binding by energy landscape theory.

Alexander Schug1, José N Onuchic.   

Abstract

Protein folding and function are inherently linked sharing a joined funneled energy landscape. In this theoretical framework, the integration of simulations, structural information, and sequence data has led to quantitatively explore, understand, and predict biomolecular binding and recognition, key processes in pharmacology, as a natural extension of the selective self-binding found in protein folding. Computer simulations based on these principles have made valuable contributions to understanding protein and RNA folding, protein-protein interactions, and protein-metabolite/RNA-metabolite interactions. Published by Elsevier Ltd.

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Year:  2010        PMID: 20951644     DOI: 10.1016/j.coph.2010.09.012

Source DB:  PubMed          Journal:  Curr Opin Pharmacol        ISSN: 1471-4892            Impact factor:   5.547


  24 in total

1.  Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis.

Authors:  Angel E Dago; Alexander Schug; Andrea Procaccini; James A Hoch; Martin Weigt; Hendrik Szurmant
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-05       Impact factor: 11.205

2.  Distributions of experimental protein structures on coarse-grained free energy landscapes.

Authors:  Kannan Sankar; Jie Liu; Yuan Wang; Robert L Jernigan
Journal:  J Chem Phys       Date:  2015-12-28       Impact factor: 3.488

3.  Quantifying the topography of the intrinsic energy landscape of flexible biomolecular recognition.

Authors:  Xiakun Chu; Linfeng Gan; Erkang Wang; Jin Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2013-06-10       Impact factor: 11.205

4.  Large-scale identification of coevolution signals across homo-oligomeric protein interfaces by direct coupling analysis.

Authors:  Guido Uguzzoni; Shalini John Lovis; Francesco Oteri; Alexander Schug; Hendrik Szurmant; Martin Weigt
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-13       Impact factor: 11.205

5.  Metabolites modulate the functional state of human uridine phosphorylase I.

Authors:  Yu-Ting Huang; Pei-Chin Yeh; Shih-Chun Lan; Pei-Fen Liu
Journal:  Protein Sci       Date:  2020-09-28       Impact factor: 6.725

6.  Assembly of the five-way junction in the ribosomal small subunit using hybrid MD-Gō simulations.

Authors:  Ke Chen; John Eargle; Jonathan Lai; Hajin Kim; Sanjaya Abeysirigunawardena; Megan Mayerle; Sarah Woodson; Taekjip Ha; Zaida Luthey-Schulten
Journal:  J Phys Chem B       Date:  2012-05-25       Impact factor: 2.991

Review 7.  Single-molecule nanometry for biological physics.

Authors:  Hajin Kim; Taekjip Ha
Journal:  Rep Prog Phys       Date:  2012-12-18

8.  Free energy landscape for the binding process of Huperzine A to acetylcholinesterase.

Authors:  Fang Bai; Yechun Xu; Jing Chen; Qiufeng Liu; Junfeng Gu; Xicheng Wang; Jianpeng Ma; Honglin Li; José N Onuchic; Hualiang Jiang
Journal:  Proc Natl Acad Sci U S A       Date:  2013-02-25       Impact factor: 11.205

9.  Can the energy gap in the protein-ligand binding energy landscape be used as a descriptor in virtual ligand screening?

Authors:  Arsen V Grigoryan; Hong Wang; Timothy J Cardozo
Journal:  PLoS One       Date:  2012-10-10       Impact factor: 3.240

10.  Kinetic Analysis of Guanidine Hydrochloride Inactivation of β-Galactosidase in the Presence of Galactose.

Authors:  Charles O Nwamba; Ferdinand C Chilaka
Journal:  Enzyme Res       Date:  2012-09-13
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