Literature DB >> 21638687

Biomolecules in the computer: Jmol to the rescue.

Angel Herráez1.   

Abstract

Jmol is free, open source software for interactive molecular visualization. Since it is written in the Java™ programming language, it is compatible with all major operating systems and, in the applet form, with most modern web browsers. This article summarizes Jmol development and features that make it a valid and promising replacement for Rasmol and Chime in the development of educational materials, as well as in basic investigation of biomolecular structure. The description is set up by comparison with the well known abilities of Rasmol and Chime. Jmol is suitable for molecular model display and analysis in biochemistry, molecular biology, organic and inorganic chemistry, crystallography, and materials science.
Copyright © 2006 International Union of Biochemistry and Molecular Biology, Inc.

Year:  2006        PMID: 21638687     DOI: 10.1002/bmb.2006.494034042644

Source DB:  PubMed          Journal:  Biochem Mol Biol Educ        ISSN: 1470-8175            Impact factor:   1.160


  125 in total

1.  SWIFT MODELLER v2.0: a platform-independent GUI for homology modeling.

Authors:  Abhinav Mathur; Ambarish S Vidyarthi
Journal:  J Mol Model       Date:  2011-12-09       Impact factor: 1.810

2.  AntigenMap 3D: an online antigenic cartography resource.

Authors:  J Lamar Barnett; Jialiang Yang; Zhipeng Cai; Tong Zhang; Xiu-Feng Wan
Journal:  Bioinformatics       Date:  2012-03-06       Impact factor: 6.937

3.  New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA.

Authors:  Dorota Piekna-Przybylska; Wayne A Decatur; Maurille J Fournier
Journal:  RNA       Date:  2007-02-05       Impact factor: 4.942

4.  Structural insights on the potential significance of the twin Asn-residue found at the base of the hemagglutinin 2 stalk in all influenza A H1N1 strains: a computational study with clinical implications.

Authors:  Marni E Cueno; Kenichi Imai; Kuniyasu Ochiai
Journal:  OMICS       Date:  2013-06

Review 5.  Development of an informatics infrastructure for data exchange of biomolecular simulations: Architecture, data models and ontology.

Authors:  J C Thibault; D R Roe; K Eilbeck; T E Cheatham; J C Facelli
Journal:  SAR QSAR Environ Res       Date:  2015-09-21       Impact factor: 3.000

6.  dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins.

Authors:  Kai-Yao Huang; Min-Gang Su; Hui-Ju Kao; Yun-Chung Hsieh; Jhih-Hua Jhong; Kuang-Hao Cheng; Hsien-Da Huang; Tzong-Yi Lee
Journal:  Nucleic Acids Res       Date:  2015-11-17       Impact factor: 16.971

7.  CPSP-web-tools: a server for 3D lattice protein studies.

Authors:  Martin Mann; Cameron Smith; Mohamad Rabbath; Marlien Edwards; Sebastian Will; Rolf Backofen
Journal:  Bioinformatics       Date:  2009-01-16       Impact factor: 6.937

8.  Protein intrinsic disorder and influenza virulence: the 1918 H1N1 and H5N1 viruses.

Authors:  Gerard Kian-Meng Goh; A Keith Dunker; Vladimir N Uversky
Journal:  Virol J       Date:  2009-06-03       Impact factor: 4.099

9.  Multi-Harmony: detecting functional specificity from sequence alignment.

Authors:  Bernd W Brandt; K Anton Feenstra; Jaap Heringa
Journal:  Nucleic Acids Res       Date:  2010-06-04       Impact factor: 16.971

10.  ExDom: an integrated database for comparative analysis of the exon-intron structures of protein domains in eukaryotes.

Authors:  Ashwini Bhasi; Philge Philip; Vinu Manikandan; Periannan Senapathy
Journal:  Nucleic Acids Res       Date:  2008-11-04       Impact factor: 16.971

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