Fork me on GitHub
thumbnail

40S•eIF1•eIF3 Complex

Determination of the molecular architecture of the 40S•eIF1•eIF3 translation initiation complex PubMed logo

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 pyparsing numpy 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 pyparsing numpy

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

module load imp python/pyparsing python/numpy
Tags chemical crosslinks MODELLER PMI X-ray

DOI

Eukaryotic translation initiation requires the recruitment of the large, multiprotein eIF3 complex to the 40S ribosomal subunit. Using X-ray structures of all major components of the minimal, six-subunit Saccharomyces cerevisiae eIF3 core, together with cross-linking coupled to mass spectrometry, we were able to use IMP to position and orient all eIF3 components on the 40S•eIF1 complex, revealing an extended, modular arrangement of eIF3 subunits.

Running the IMP/PMI scripts:

The calculation will generate a trajectory, output/rmfs/0.rmf3, in RMF format. For convenience, the 100 best-scoring models are also output in PDB format in the output/pdbs directory.

Information

Author(s): Riccardo Pellarin, Peter Cimermančič

License: LGPL. This library is free software; you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

Last known good IMP version: build info build info

Testable: Yes.

Parallelizeable: Yes

Publications: