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Official Release PyMOL v1.8.2 has been released on April 20, 2016.
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.
Official Release PyMOL v1.8.0 has been released on Nov 18, 2015.
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Official Release PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released on May 4, 2015.
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.
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Matrix Copy

Matrix_copy copies the object matrix from one object to another.

This command is often used after a protein structure alignment to bring other related objects into the same frame of reference.

Usage

matrix_copy source_name, target_name

Arguments

  • source_name = string: name of object to take matrix from
  • target_name = string: name(s) of object(s) to copy matrix to
  • source_mode = integer: 0: raw coordinates, 1: object TTT matrix, 2: state matrix, 3: camera matrix transformation {default: -1: matrix_mode setting}
  • target_mode = integer: (see source_mode)
  • source_state = integer: object state {default: 1}
  • target_state = integer: object state {default: 1}
  • target_undo = 1/0: ??? {default: 1}

Example

Here's a practical example. We grab two proteins and their density maps. We then align one to the other and then use matrix_copy to move over the density map:

<source lang="python">

  1. fetch two proteins and their maps

fetch 1rx1 3dau, async=0 fetch 1rx1 ..→

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