Literature DB >> 15766535

Visual methods from atoms to cells.

David S Goodsell1.   

Abstract

Illustrations of molecular models are widely used for the study and dissemination of molecular structure and function. Several metaphors are commonly used to create these illustrations, and each captures a relevant aspect of the molecule and omits other aspects. Effective tools are available for rendering atomic structures by using several standard representations, and the research community is highly sophisticated in their use. Molecular properties, such as electrostatics, and large complex molecular and cellular systems currently pose challenges for representation.

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Year:  2005        PMID: 15766535     DOI: 10.1016/j.str.2005.01.012

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


  9 in total

Review 1.  Visualization software for molecular assemblies.

Authors:  Thomas D Goddard; Thomas E Ferrin
Journal:  Curr Opin Struct Biol       Date:  2007-08-28       Impact factor: 6.809

2.  Artophagy: the art of autophagy--the Cvt pathway.

Authors:  David S Goodsell; Daniel J Klionsky
Journal:  Autophagy       Date:  2010-01-01       Impact factor: 16.016

3.  Elucidating cytochrome C release from mitochondria: insights from an in silico three-dimensional model.

Authors:  Zhi Yang Tam; Yi Hui Cai; Rudiyanto Gunawan
Journal:  Biophys J       Date:  2010-11-17       Impact factor: 4.033

4.  ePMV embeds molecular modeling into professional animation software environments.

Authors:  Graham T Johnson; Ludovic Autin; David S Goodsell; Michel F Sanner; Arthur J Olson
Journal:  Structure       Date:  2011-03-09       Impact factor: 5.006

5.  An introduction to biomolecular graphics.

Authors:  Cameron Mura; Colin M McCrimmon; Jason Vertrees; Michael R Sawaya
Journal:  PLoS Comput Biol       Date:  2010-08-26       Impact factor: 4.475

6.  Promoting a structural view of biology for varied audiences: an overview of RCSB PDB resources and experiences.

Authors:  Shuchismita Dutta; Christine Zardecki; David S Goodsell; Helen M Berman
Journal:  J Appl Crystallogr       Date:  2010-08-03       Impact factor: 3.304

Review 7.  The Croonian lecture 2006. Structure of the living cell.

Authors:  Iain D Campbell
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2008-07-27       Impact factor: 6.237

Review 8.  Visualization of macromolecular structures.

Authors:  Seán I O'Donoghue; David S Goodsell; Achilleas S Frangakis; Fabrice Jossinet; Roman A Laskowski; Michael Nilges; Helen R Saibil; Andrea Schafferhans; Rebecca C Wade; Eric Westhof; Arthur J Olson
Journal:  Nat Methods       Date:  2010-03-01       Impact factor: 28.547

9.  ReaDDy--a software for particle-based reaction-diffusion dynamics in crowded cellular environments.

Authors:  Johannes Schöneberg; Frank Noé
Journal:  PLoS One       Date:  2013-09-11       Impact factor: 3.240

  9 in total

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