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News & Updates
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
Official Release PyMOL v2.2 has been released on July 24, 2018.
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
Older News See Older News.
Did you know...

Isomesh

isomesh creates a mesh isosurface object from a map object.

USAGE

isomesh name, map, level [,(selection) [,buffer [,state [,carve ]]]] 
  • name = the name for the new mesh isosurface object.
  • map = the name of the map object to use for computing the mesh.
  • level = the contour level (in sigma units)
  • selection = an atom selection about which to display the mesh with an additional "buffer" (if provided).
  • state = the state into which the object should be loaded (default=1) (set state=0 to append new mesh as a new state)
  • carve = a radius about each atom in the selection for which to include density. If "carve" is not provided, then the whole brick is displayed.

Examples

# load the map
load mymap.xplor, themap
# view the isomesh map
isomesh themapobject, themap, 2.0, site, carve=1.6
Output from the 2nd example

<source lang="python">

  1. create fake map for demo

load $TUT/1hpv.pdb

  1. set b and q for all atoms

alter all, b=10 alter all, q=1

  1. ..→
A Random PyMOL-generated Cover. See Covers.