Introduction to Jmol

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What is Jmol?

Jmol is a free, open-source program that allows the viewer to see chemical structures in three dimensions. Jmol previously used Java, but has now switched to HTML5-only.

What makes this program very useful is Jmol's ability to manipulate the 3D models and display the molecules as "ball and stick," "space filling," "ribbon," "cartoon," etc. One can also do a combination of any or all possible displays. For example: one can display a ligand as "ball and stick" while displaying the protein its interacting with in a "cartoon" display.

In order to use Jmol you can start from scratch by building your own molecule or you can download one from the RCSB Protein Data Bank.

Who uses Jmol?

Many people use Jmol as an educational, chemistry and biochemistry tool to help visualize molecules and compounds. Many websites, books and even blogs use Jmol as we can see from this site: [[1]]

Structure of multiresistant HIV-1 protease in complex with darunavir (PDB entry 3ttp)

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

Jamie C. Gladfelder, Eric Martz, Jaime Prilusky

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