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News & Updates
Official Release PyMOL v2.2 has been released on July 24, 2018.
POSF PyMOL Open-Source Fellowship program accepting applications for 2018-2019
New Plugin ProBiS H2O is a new plugin for identification of conserved waters in protein structures.
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
New Plugin PyANM is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
New Plugin Bondpack is a collection of PyMOL plugins for easy visualization of atomic bonds.
New Plugin MOLE 2.0 is a new plugin for rapid analysis of biomacromolecular channels in PyMOL.
3D using Geforce PyMOL can now be visualized in 3D using Nvidia GeForce video cards (series 400+) with 120Hz monitors and Nvidia 3D Vision, this was previously only possible with Quadro video cards.
Older News See Older News.
Did you know...

Stick transparency

== Overview ==

The setting "stick_transparency" allows one to set the degree of transparency for stick objects, independent of all other objects. Allowable values range from 0 (fully opaque) to 1 (fully transparent, i.e. invisible).

Usage

set stick_transparency, F, objectname
set_bond stick_transparency, F, selection

where F is a floating point number in the range [0.0 - 1.0], and objectname is the object to apply the changes to. If ObjectName is omitted, then the transparency of all stick representations will be changed.

To apply this setting to a selection, use "set_bond" syntax

set_bond stick_transparency, 0.7, */n+c+ca+o

For the value of F=1.0 sticks will be completely transparent/invisible and for F=0.0 sticks are solid/opaque.

Examples

set stick_transparency, 0.50   # Makes sticks 50-percent transparent

Open the images to actually see the details! <gallery> Image:Stick_trans_zero.png|sticks ..→

A Random PyMOL-generated Cover. See Covers.