Literature DB >> 22300050

A closer look into G protein coupled receptor activation: X-ray crystallography and long-scale molecular dynamics simulations.

S Vanni1, U Rothlisberger.   

Abstract

G protein coupled receptors (GPCRs) are a large eukaryotic protein family of transmembrane receptors that react to a signal coming from the extracellular environment to generate an intracellular response through the activation of a signal transduction pathway mediated by a heterotrimeric G protein. Their diversity, dictated by the multiplicity of stimuli to which they respond and by the variety of intracellular signalling pathways they activate, make them one of the most prominent families of validated pharmacological targets in biomedicine. In recent years, major breakthroughs in structure determination of GPCRs have given new stimuli to the exploration of the biology of these proteins, providing a structural basis to understand the molecular origin of GPCR mechanisms of action. Based on the information coming from these structural studies, a number of recent in silico investigations used molecular dynamics (MD) simulations to contribute to our knowledge of GPCRs. In this review, we will focus on investigations that, taking advantage of the tremendous progress in both hardware and software, made testable hypotheses that have been validated by subsequent structural studies. These stateof- the-art molecular simulations highlight the potential of microsecond MD simulations as a valuable tool in GPCR structural biology and biophysics.

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Year:  2012        PMID: 22300050     DOI: 10.2174/092986712799320493

Source DB:  PubMed          Journal:  Curr Med Chem        ISSN: 0929-8673            Impact factor:   4.530


  12 in total

1.  In silico study of the structurally similar ORL1 receptor agonist and antagonist pairs reveal possible mechanism of receptor activation.

Authors:  Milan Senćanski; Ljiljana Dosen-Mićović
Journal:  Protein J       Date:  2014-06       Impact factor: 2.371

2.  Accelerated structure-based design of chemically diverse allosteric modulators of a muscarinic G protein-coupled receptor.

Authors:  Yinglong Miao; Dahlia Anne Goldfeld; Ee Von Moo; Patrick M Sexton; Arthur Christopoulos; J Andrew McCammon; Celine Valant
Journal:  Proc Natl Acad Sci U S A       Date:  2016-09-06       Impact factor: 11.205

3.  A High-Throughput Drug Screening Strategy for Detecting Rhodopsin P23H Mutant Rescue and Degradation.

Authors:  Yuanyuan Chen; Hong Tang; William Seibel; Ruben Papoian; Xiaoyu Li; Nevin A Lambert; Krzysztof Palczewski
Journal:  Invest Ophthalmol Vis Sci       Date:  2015-04       Impact factor: 4.799

4.  Multiscale design of coarse-grained elastic network-based potentials for the μ opioid receptor.

Authors:  Mathieu Fossépré; Laurence Leherte; Aatto Laaksonen; Daniel P Vercauteren
Journal:  J Mol Model       Date:  2016-08-26       Impact factor: 1.810

5.  G Protein-Coupled Estrogen Receptor (GPER) Agonist Dual Binding Mode Analyses toward Understanding of its Activation Mechanism: A Comparative Homology Modeling Approach.

Authors:  Christopher K Arnatt; Yan Zhang
Journal:  Mol Inform       Date:  2013-07       Impact factor: 3.353

Review 6.  Computational approaches for modeling GPCR dimerization.

Authors:  Xuan-Yu Meng; Mihaly Mezei; Meng Cui
Journal:  Curr Pharm Biotechnol       Date:  2014       Impact factor: 2.837

Review 7.  Recent advances in computational studies of GPCR-G protein interactions.

Authors:  Jinan Wang; Yinglong Miao
Journal:  Adv Protein Chem Struct Biol       Date:  2019-01-03       Impact factor: 3.507

8.  Mechanism of the G-protein mimetic nanobody binding to a muscarinic G-protein-coupled receptor.

Authors:  Yinglong Miao; J Andrew McCammon
Journal:  Proc Natl Acad Sci U S A       Date:  2018-03-05       Impact factor: 11.205

9.  Free energy landscape of G-protein coupled receptors, explored by accelerated molecular dynamics.

Authors:  Yinglong Miao; Sara E Nichols; J Andrew McCammon
Journal:  Phys Chem Chem Phys       Date:  2014-01-21       Impact factor: 3.676

Review 10.  G-protein coupled receptors: advances in simulation and drug discovery.

Authors:  Yinglong Miao; J Andrew McCammon
Journal:  Curr Opin Struct Biol       Date:  2016-06-22       Impact factor: 6.809

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