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Modeling of Pom152

Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex PubMed logo PDB-Dev

tickVerified to work with the latest stable IMP release (2.9.0). The files are also available at GitHub.
Additional software needed to use these files: IMP matplotlib scikit-learn biopython MODELLER install instructions

Anaconda logo To install the software needed to reproduce this system with the Anaconda Python command line tool (conda), run the following commands:

conda config --add channels salilab
conda install imp matplotlib scikit-learn biopython modeller

UCSF logo To set up the environment on the UCSF QB3 cluster to run this system, run:

module load imp python/matplotlib python/scikit modeller
Tags EM class average EM density map FoXS MODELLER PMI SAXS X-ray

DOI

Pom152

This repository contains the modeling files and the analysis related to the article "Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex" by Upla et al. in Structure 2017. The scripts work with IMP (version 2.6 or later).

List of files and directories:

Running the MODELLER scripts:

First, comparative models were built for each domain of Pom152:

Running the IMP/PMI scripts:

Next, integrative modeling was carried out, taking the comparative models and experimental data as input, followed by clustering and analysis:

Information

Author(s): Seung Joong Kim

Date: March 2017

License: CC-BY-SA-4.0. This work is freely available under the terms of the Creative Commons Attribution-ShareAlike 4.0 International License.

Last known good IMP version: build info build info

Publications: