Literature DB >> 30009769

Perspectives on Structural Molecular Biology Visualization: From Past to Present.

Arthur J Olson1.   

Abstract

Visualization has been a key technology in the progress of structural molecular biology for as long as the field has existed. This perspective describes the nature of the visualization process in structural studies, how it has evolved over the years, and its relationship to the changes in technology that have supported and driven it. It focuses on how technical advances have changed the way we look at and interact with molecular structure, and how structural biology has fostered and challenged that technology.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  molecular graphics; molecular modeling; structural molecular biology; visualization

Mesh：

Substances：

Year:  2018        PMID： 30009769      PMCID： PMC6186497          DOI： 10.1016/j.jmb.2018.07.009

Source DB:  PubMed          Journal:  J Mol Biol        ISSN： 0022-2836            Impact factor:   5.469


  55 in total

Review 1.  An inventory of the bacterial macromolecular components and their spatial organization.

Authors:  Agnès Vendeville; Damien Larivière; Eric Fourmentin
Journal:  FEMS Microbiol Rev       Date:  2010-10-22       Impact factor: 16.408

2.  MegaMol--A Prototyping Framework for Particle-Based Visualization.

Authors:  Sebastian Grottel; Michael Krone; Christoph Muller; Guido Reina; Thomas Ertl
Journal:  IEEE Trans Vis Comput Graph       Date:  2015-02       Impact factor: 4.579

3.  Coarse-grained, foldable, physical model of the polypeptide chain.

Authors:  Promita Chakraborty; Ronald N Zuckermann
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-29       Impact factor: 11.205

4.  Biomolecules in the computer: Jmol to the rescue.

Authors:  Angel Herráez
Journal:  Biochem Mol Biol Educ       Date:  2006-07       Impact factor: 1.160

5.  The NIH 3D Print Exchange: A Public Resource for Bioscientific and Biomedical 3D Prints.

Authors:  Meghan F Coakley; Darrell E Hurt; Nick Weber; Makazi Mtingwa; Erin C Fincher; Vsevelod Alekseyev; David T Chen; Alvin Yun; Metasebia Gizaw; Jeremy Swan; Terry S Yoo; Yentram Huyen
Journal:  3D Print Addit Manuf       Date:  2014-09-01       Impact factor: 5.449

6.  Chameleon: Dynamic Color Mapping for Multi-Scale Structural Biology Models.

Authors:  Nicholas Waldin; Mathieu Le Muzic; Manuela Waldner; Eduard Gröller; David Goodsell; Autin Ludovic; Ivan Viola
Journal:  Eurographics Workshop Vis Comput Biomed       Date:  2016-09

7.  Instant Construction and Visualization of Crowded Biological Environments.

Authors:  Tobias Klein; Ludovic Autin; Barbora Kozlikova; David S Goodsell; Arthur Olson; M Eduard Groller; Ivan Viola
Journal:  IEEE Trans Vis Comput Graph       Date:  2017-08-29       Impact factor: 4.579

8.  Predicting protein structures with a multiplayer online game.

Authors:  Seth Cooper; Firas Khatib; Adrien Treuille; Janos Barbero; Jeehyung Lee; Michael Beenen; Andrew Leaver-Fay; David Baker; Zoran Popović; Foldit Players
Journal:  Nature       Date:  2010-08-05       Impact factor: 49.962

9.  Lattice Models of Bacterial Nucleoids.

Authors:  David S Goodsell; Ludovic Autin; Arthur J Olson
Journal:  J Phys Chem B       Date:  2018-01-25       Impact factor: 2.991

10.  MMTF-An efficient file format for the transmission, visualization, and analysis of macromolecular structures.

Authors:  Anthony R Bradley; Alexander S Rose; Antonín Pavelka; Yana Valasatava; Jose M Duarte; Andreas Prlić; Peter W Rose
Journal:  PLoS Comput Biol       Date:  2017-06-02       Impact factor: 4.475
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  4 in total

1.  iCn3D, a web-based 3D viewer for sharing 1D/2D/3D representations of biomolecular structures.

Authors:  Jiyao Wang; Philippe Youkharibache; Dachuan Zhang; Christopher J Lanczycki; Renata C Geer; Thomas Madej; Lon Phan; Minghong Ward; Shennan Lu; Gabriele H Marchler; Yanli Wang; Stephen H Bryant; Lewis Y Geer; Aron Marchler-Bauer
Journal:  Bioinformatics       Date:  2020-01-01       Impact factor: 6.937

2.  Illustrate: Software for Biomolecular Illustration.

Authors:  David S Goodsell; Ludovic Autin; Arthur J Olson
Journal:  Structure       Date:  2019-09-10       Impact factor: 5.006

Review 3.  Art and Science of the Cellular Mesoscale.

Authors:  David S Goodsell; Arthur J Olson; Stefano Forli
Journal:  Trends Biochem Sci       Date:  2020-03-21       Impact factor: 13.807

Review 4.  Modeling Polyzwitterion-Based Drug Delivery Platforms: A Perspective of the Current State-of-the-Art and Beyond.

Authors:  Sousa Javan Nikkhah; Matthias Vandichel
Journal:  ACS Eng Au       Date:  2022-05-03
  4 in total

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