![]() Non-covalent interactions ( hydrogen bonds, salt bridges, hydrophobic interactions) with any designated target moiety are displayed automatically in a powerful Contacts dialog in FirstGlance in Jmol. Any residue or sequence number can be found/located in the Find dialog. Any moiety can be hidden by clicking on it in Hide mode. In order to be as easy as possible to use, FirstGlance in Jmol does not provide tools to customize the molecular view, but rather offers a series of "canned" views that reveal the major structural features of the molecule, such as composition (protein, DNA, RNA, ligand and solvent) secondary structure, amino and carboxy termini, hydrophobic and polar surfaces, surface charges, salt bridges and cation-pi interactions. Tooltips are everywhere, and explanatory help, with color keys and examples for comparison, appear automatically for each view. It operates from menus and forms - no familiarity with the Jmol command scripting language is required. It works in the most popular web browsers, and MS Windows, Apple Mac OS X, and linux. It uses free open-source JSmol, as does Proteopedia. FirstGlance in Jmol version 4.0 was released August 15, 2022, with new capability to automatically construct large assemblies such as virus capsids.įirstGlance in Jmol ( ) is a free, open-source, macromolecular visualization software package that operates on-line in a web browser. When you go directly to FirstGlance in Jmol, you can enter any PDB code, or upload a PDB file from your computer, such as a prediction by AlphaFold or a homology model.įirstGlance in Jmol provides an easy interface to make a Powerpoint-ready animation from any of its molecular views. Proteopedia presents this information in a user-friendly way as a collaborative & free 3D-encyclopedia of proteins & other biomolecules.įirstGlance in Jmol: Guided macromolecular visualization with remarkable ease of use.Every molecule in Proteopedia can be explored in FirstGlance in Jmol, using the link beneath the molecule (on pages titled with a PDB code, such as 1d66). *Opinions and recommendations expressed on this page are those of Eric Martz.Īs life is more than 2D, Proteopedia helps to bridge the gap between 3D structure & function of biomacromolecules. Other free molecular visualization software packages are listed at MolVisIndex.Org.Įducational molecular visualization resources for teachers: MolviZ.Orgįor high school (secondary school) biology teachers: (New in 2009).Use with some caution as it is under development (2010) and occasional bugs may remain.MDL Chime has been eliminated from this version.A Jmol version of the original Protein Explorer (see below) ported and greatly enhanced by Bob Hanson.lists the easiest-to-use, free resources. ![]() ![]()
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