Biomolecules in the computer: Jmol to the rescue

By A. Herráez. Biochemistry and Molecular Biology Education, 2006

358 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/c35c7eeef0671bd1c0548b7cbdd1fbc232957c40

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In Molecular Biology

Citations in the corpus

FireDock: a web server for fast interaction refinement in molecular docking (2008, neutral): “The user can view the complexes in a Jmol applet window (37).”
Improvements to the APBS biomolecular solvation software suite (2017, methodology): “f these software packages are thick clients that run from users’ computers, including PyMOL [67, 68], VMD [64, 69], PMV [70, 71], and Chimera [72, 73]. We have also worked with the developers of Jmol [74, 75] and 3Dmol.js [76, 77] to provide web-based setup and visualization of APBS-PDB2PQR calculat”
Influenza Research Database: An integrated bioinformatics resource for influenza research and surveillance (2012, methodology): “The IRD protein structure viewer, a customized implementation of the JMol 3D visualization software, 36 is unique among the inﬂuenza resources and one example of how IRD integrates related data.”
Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways (2015, background): “Three-dimensional objects are often used for representing protein structures [1, 2], one-dimensional tracks for genome sequences [3, 4], force-directed graphs for interaction networks [5], trees for phylogenetic relationships [6, 7].”
MOLE 2.0: advanced approach for analysis of biomacromolecular channels (2013, methodology): “The output can be obtained in XML format as well as a PDB or PyMOL script together with 3D representations of channels that can be loaded to Jmol [48] (http://www.”