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The community-run support site for the PyMOL molecular viewer.
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Tutorials	Table of Contents	Commands
Script Library	Plugins	FAQ
Gallery \| Covers	PyMOL Cheat Sheet (PDF)	GoogleSearch

News & Updates
New Plugin	Bondpack is a 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.
New Plugin	GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS.
New Software	CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL.
New Script	cgo_arrow draws an arrow between two picked atoms.
Tips & Tricks	Instructions for generating movie PDFs using .mpg movies from PyMOL.
Older News	See Older News.

Did you know...

Zoom

zoom scales and translates the window and the origin to cover the atom selection.

USAGE

zoom [ selection [,buffer [, state [, complete ]]]]

EXAMPLES

# auto zoom depending on what's loaded in PyMOL
zoom

#
zoom complete=1

# zoom on just chain A
zoom (chain A)

# zoom on residue 142
zoom 142/

# zoom consistenly 20 Ang from each object at the center
center prot1
zoom center, 20

# prot1 and prot2 will have the same exact zoom factor
center prot2
zoom center, 20

PYMOL API

 
cmd.zoom( string selection, float buffer=0.0,
          int state=0, int complete=0 )

NOTES

state = 0 (default) use all coordinate states
state = -1 use only coordinates for the current state
state > 0  use coordinates for a specific state

complete = 0 or 1:

Normally the zoom command tries to guess an optimal zoom level for visualization, balancing closeness against occasional clipping of atoms out of the field of view. You can change this behavior by setting ..→

A Random PyMOL-generated Cover. See Covers.