Literature DB >> 31564470

Molecular Graphics: Bridging Structural Biologists and Computer Scientists.

Xavier Martinez1, Michael Krone2, Naif Alharbi3, Alexander S Rose4, Robert S Laramee3, Sean O'Donoghue5, Marc Baaden1, Matthieu Chavent6.   

Abstract

Visualization of molecular structures is one of the most common tasks carried out by structural biologists, typically using software, such as Chimera, COOT, PyMOL, or VMD. In this Perspective article, we outline how past developments in computer graphics and data visualization have expanded the understanding of biomolecular function, and we summarize recent advances that promise to further transform structural biology. We also highlight how progress in molecular graphics has been impeded by communication barriers between two communities: the computer scientists driving these advances, and the structural and computational biologists who stand to benefit. By pointing to canonical papers and explaining technical progress underlying new graphical developments in simple terms, we aim to improve communication between these communities; this, in turn, would help shape future developments in molecular graphics.
Copyright © 2019 Elsevier Ltd. All rights reserved.

Keywords:  molecular graphics; molecular visualization

Mesh:

Year:  2019        PMID: 31564470     DOI: 10.1016/j.str.2019.09.001

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  5 in total

1.  Multiscale modelling of the extracellular matrix.

Authors:  Hua Wong; Jean-Marc Crowet; Manuel Dauchez; Sylvie Ricard-Blum; Stéphanie Baud; Nicolas Belloy
Journal:  Matrix Biol Plus       Date:  2021-12-14

2.  Design - a new way to look at old molecules.

Authors:  Davide Spalvieri; Anne-Marine Mauviel; Matthieu Lambert; Nicolas Férey; Sophie Sacquin-Mora; Matthieu Chavent; Marc Baaden
Journal:  J Integr Bioinform       Date:  2022-07-01

Review 3.  Peroxide-Mediated Oxygenation of Organic Compounds by Fungal Peroxygenases.

Authors:  Martin Hofrichter; Harald Kellner; Robert Herzog; Alexander Karich; Jan Kiebist; Katrin Scheibner; René Ullrich
Journal:  Antioxidants (Basel)       Date:  2022-01-14

4.  Engineering a High-Affinity PD-1 Peptide for Optimized Immune Cell-Mediated Tumor Therapy.

Authors:  Yilei Chen; Hongxing Huang; Yin Liu; Zhanghao Wang; Lili Wang; Quanxiao Wang; Yan Zhang; Hua Wang
Journal:  Cancer Res Treat       Date:  2021-08-03       Impact factor: 4.679

5.  Network Pharmacology Prediction and Molecular Docking-Based Strategy to Discover the Potential Pharmacological Mechanism of Huai Hua San Against Ulcerative Colitis.

Authors:  Jiaqin Liu; Jian Liu; Xiaoliang Tong; Weijun Peng; Shanshan Wei; Taoli Sun; Yikun Wang; Bikui Zhang; Wenqun Li
Journal:  Drug Des Devel Ther       Date:  2021-07-28       Impact factor: 4.162

  5 in total

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