Use one of the 'isosurface' commands (see below) to calculate the molecular surface of the selected molecule/s.Select the portion of your molecule you wish to display the surface of (e.g., "select nucleic" or "select ligand").Open the scripting window of the applet for command entry.
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Versions 11.2 and up are recommended for full implementation of features below.
It is therefore not prudent to do this in web pages devoted to macromolecules, unless one is interested in displaying the surface of only a small subset of residues or atoms. Molecular surfaces can be calculated by Jmol, but for large molecules this can be quite CPU intensive and time consuming to do on the fly. you may need to do this several times, depending on the script.įor a more comprehensive treatment, see the Jmol If you get an unresponsive script, please choose continue. This is especially true now that we are using JSmol and HTML5 instead of the java-based Jmol. Note: surfaces require a lot of memory and are slow to load. This helps with funding opportunities for the OMM and helps ensure continued development of this resource.
And please drop an email to with a link to your page/s. Note: if this tutorial is helpful in the creation of your own webpages, please explicitly acknowledge your use of this page (URL, Author, date accessed, and a link to this page) in your webpage/s. Back to OMM Exhibits An Introduction to Jmol Surface Displays **