Literature DB >> 28282168

Critical Fluctuations in the Native State of Proteins.

Qian-Yuan Tang1, Yang-Yang Zhang1, Jun Wang1, Wei Wang1, Dante R Chialvo2.   

Abstract

Based on protein structural ensembles determined by nuclear magnetic resonance, we study the position fluctuations of residues by calculating distance-dependent correlations and conducting finite-size scaling analysis. The fluctuations exhibit high susceptibility and long-range correlations up to the protein sizes. The scaling relations between the correlations or susceptibility and protein sizes resemble those in other physical and biological systems near their critical points. These results indicate that, at the native states, motions of each residue are felt by every other one in the protein. We also find that proteins with larger susceptibility are more frequently observed in nature. Overall, our results suggest that the protein's native state is critical.

Mesh:

Substances:

Year:  2017        PMID: 28282168     DOI: 10.1103/PhysRevLett.118.088102

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  8 in total

1.  Critical phenomena in the temperature-pressure-crowding phase diagram of a protein.

Authors:  Andrei G Gasic; Mayank M Boob; Maxim B Prigozhin; Dirar Homouz; Anna Jean Wirth; Caleb M Daugherty; Martin Gruebele; Margaret S Cheung
Journal:  Phys Rev X       Date:  2019-11-18       Impact factor: 15.762

2.  Temperature evolution of Trp-cage folding pathways: An analysis by dividing the probability flux field into stream tubes.

Authors:  Vladimir A Andryushchenko; Sergei F Chekmarev
Journal:  J Biol Phys       Date:  2017-10-05       Impact factor: 1.365

3.  Why Ubiquitin Has Not Evolved.

Authors:  Douglas C Allan; James C Phillips
Journal:  Int J Mol Sci       Date:  2017-09-16       Impact factor: 5.923

4.  The scale-free nature of protein sequence space.

Authors:  Patrick C F Buchholz; Catharina Zeil; Jürgen Pleiss
Journal:  PLoS One       Date:  2018-08-01       Impact factor: 3.240

5.  Long-range correlation in protein dynamics: Confirmation by structural data and normal mode analysis.

Authors:  Qian-Yuan Tang; Kunihiko Kaneko
Journal:  PLoS Comput Biol       Date:  2020-02-13       Impact factor: 4.475

6.  Scale-Free Dynamics in Animal Groups and Brain Networks.

Authors:  Tiago L Ribeiro; Dante R Chialvo; Dietmar Plenz
Journal:  Front Syst Neurosci       Date:  2021-01-20

7.  The Statistical Trends of Protein Evolution: A Lesson from AlphaFold Database.

Authors:  Qian-Yuan Tang; Weitong Ren; Jun Wang; Kunihiko Kaneko
Journal:  Mol Biol Evol       Date:  2022-10-07       Impact factor: 8.800

8.  Universal dynamics of mitochondrial networks: a finite-size scaling analysis.

Authors:  Nahuel Zamponi; Emiliano Zamponi; Sergio A Cannas; Dante R Chialvo
Journal:  Sci Rep       Date:  2022-10-12       Impact factor: 4.996

  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.