scipion-em-continuousflex 3.0.5

Plugin to use continuousflex protocols within the Scipion framework

This plugin provides the latest Scipion protocols for cryo-EM continuous conformational flexibility/heterogeneity analysis of biomolecular complexes.

Installation

You will need to use 3.0 version of Scipion to be able to run these protocols. To install the plugin, you have two options:

1. Stable version

   Install Scipion3 and use the plugin manager to install the plugin.

2. Developer’s version

   • download repository

   git clone https://github.com/scipion-em/scipion-em-continuousflex.git
   git checkout devel

   • install

   scipion3 installp -p path_to_scipion-em-continuousflex --devel

continuousflex sources will be downloaded automatically with the plugin.

Note: Xmipp and Chimerax plugins should be installed (from Scipion3 plugin manager) to run continuousflex protocols. You should also consider having VMD on your system for visualization.

Supported versions

3.0.1

Protocols

• HEMNMA: Hybrid Electron-Microscopy Normal-Mode-Analysis

• StructMap: Structural Mapping

References

1. Harastani M, Sorzano CO, Jonić S. Hybrid Electron Microscopy Normal Mode Analysis with Scipion. Protein Science. 2020 Jan;29(1):223-36.

2. Jin Q, Sorzano CO, de la Rosa-Trevin JM, Bilbao-Castro JR, Nunez-Ramirez R, Llorca O, Tama F,Jonic S: Iterative elastic 3D-to-2D alignment method using normal modes for studying structural dynamics of large macromolecular complexes. Structure 2014, 22:496-506.

3. Sorzano CO, de la Rosa-Trevin JM, Tama F, Jonic S: Hybrid Electron Microscopy Normal Mode Analysis graphical interface and protocol. J Struct Biol 2014, 188:134-141.

4. Sanchez Sorzano CO, Alvarez-Cabrera AL, Kazemi M, Carazo JM, Jonic S: StructMap: Elastic Distance Analysis of Electron Microscopy Maps for Studying Conformational Changes. Biophys J 2016, 110:1753-1765.

# scipion-em-continuousflex