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Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
Official Release PyMOL v1.8.6 has been released on March 9, 2017.
Official Release PyMOL v1.8.4 has been released on October 4, 2016.
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
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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 ..→

A Random PyMOL-generated Cover. See Covers.