Literature DB >> 23165349

Rigidity and flexibility of biological networks.

Merse E Gáspár1, Peter Csermely.   

Abstract

The network approach became a widely used tool to understand the behaviour of complex systems in the last decade. We start from a short description of structural rigidity theory. A detailed account on the combinatorial rigidity analysis of protein structures, as well as local flexibility measures of proteins and their applications in explaining allostery and thermostability is given. We also briefly discuss the network aspects of cytoskeletal tensegrity. Finally, we show the importance of the balance between functional flexibility and rigidity in protein-protein interaction, metabolic, gene regulatory and neuronal networks. Our summary raises the possibility that the concepts of flexibility and rigidity can be generalized to all networks.

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Mesh:

Year:  2012        PMID: 23165349     DOI: 10.1093/bfgp/els023

Source DB:  PubMed          Journal:  Brief Funct Genomics        ISSN: 2041-2649            Impact factor:   4.241


  10 in total

Review 1.  Adapting to stress - chaperome networks in cancer.

Authors:  Suhasini Joshi; Tai Wang; Thaís L S Araujo; Sahil Sharma; Jeffrey L Brodsky; Gabriela Chiosis
Journal:  Nat Rev Cancer       Date:  2018-09       Impact factor: 60.716

Review 2.  Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review.

Authors:  Peter Csermely; Tamás Korcsmáros; Huba J M Kiss; Gábor London; Ruth Nussinov
Journal:  Pharmacol Ther       Date:  2013-02-04       Impact factor: 12.310

3.  Persistency and flexibility of complex brain networks underlie dual-task interference.

Authors:  Mohsen Alavash; Claus C Hilgetag; Christiane M Thiel; Carsten Gießing
Journal:  Hum Brain Mapp       Date:  2015-06-12       Impact factor: 5.038

4.  Dancing through Life: Molecular Dynamics Simulations and Network-Centric Modeling of Allosteric Mechanisms in Hsp70 and Hsp110 Chaperone Proteins.

Authors:  Gabrielle Stetz; Gennady M Verkhivker
Journal:  PLoS One       Date:  2015-11-30       Impact factor: 3.240

5.  Bow-tie architecture of gene regulatory networks in species of varying complexity.

Authors:  Gourab Ghosh Roy; Shan He; Nicholas Geard; Karin Verspoor
Journal:  J R Soc Interface       Date:  2021-06-09       Impact factor: 4.118

6.  Computational Analysis of Residue Interaction Networks and Coevolutionary Relationships in the Hsp70 Chaperones: A Community-Hopping Model of Allosteric Regulation and Communication.

Authors:  Gabrielle Stetz; Gennady M Verkhivker
Journal:  PLoS Comput Biol       Date:  2017-01-17       Impact factor: 4.475

7.  Net-Net Auto Machine Learning (AutoML) Prediction of Complex Ecosystems.

Authors:  Enrique Barreiro; Cristian R Munteanu; Maykel Cruz-Monteagudo; Alejandro Pazos; Humbert González-Díaz
Journal:  Sci Rep       Date:  2018-08-17       Impact factor: 4.379

8.  A modified amino acid network model contains similar and dissimilar weight.

Authors:  Xiong Jiao; Lifeng Yang; Meiwen An; Weiyi Chen
Journal:  Comput Math Methods Med       Date:  2013-01-02       Impact factor: 2.238

9.  Allosteric regulation of the Hsp90 dynamics and stability by client recruiter cochaperones: protein structure network modeling.

Authors:  Kristin Blacklock; Gennady M Verkhivker
Journal:  PLoS One       Date:  2014-01-20       Impact factor: 3.240

Review 10.  Heterochromatin Networks: Topology, Dynamics, and Function (a Working Hypothesis).

Authors:  Jekaterina Erenpreisa; Jekabs Krigerts; Kristine Salmina; Bogdan I Gerashchenko; Talivaldis Freivalds; Reet Kurg; Ruth Winter; Matthias Krufczik; Pawel Zayakin; Michael Hausmann; Alessandro Giuliani
Journal:  Cells       Date:  2021-06-23       Impact factor: 6.600

  10 in total

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