Summary

This page shows a number of applications of IMP to biological systems. They can be adapted to tackle other similar problems, or to add new input data to an existing system.

Each system links to its web page, where all the input files can be found, complete with running instructions. Most systems are permanently archived (via DOIs) at Zenodo; newer systems are also deposited at PDB-Dev.

Every system is periodically tested with the latest version of IMP to make sure it works. The most recent version of IMP that it works with is shown below (or see all builds).

See the IMP manual for information on adding a new system to this page.

All systems with the EM density map tag are shown. [Show all systems]

Show only systems with tag
affinity purification allostery analysis benchmark Brownian dynamics C3 C3b chemical crosslinks chromatin cysteine crosslinks drosophila melanogaster EM EM class average EM density map endogenous complex FoXS FRET glycosylation iC3 in-vivo FRET mass spectrometry model MODELLER multi-state MultiFit native mass spec PMI PMI1 quantitative crosslinking SAXS TADs threading X-ray yeast two-hybrid
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GroEL PubMed logo

Modeling of the bacterial molecular chaperone GroEL using 3D EM data and cnmultifit [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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Mediator Complex PubMed logo PDB-Dev

Modeling of the yeast Mediator complex [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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Nuclear Pore Complex PubMed logo PDB-Dev

Modeling of the yeast Nuclear Pore Complex [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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PDE6 PubMed logo

Modeling of the phosphodiesterase (PDE6) [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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Modeling of Pom152 PubMed logo PDB-Dev

Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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TFIIH complex PubMed logo

Modeling of the TFIIH complex using chemical cross-links and electron microscopy (EM) density maps [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04
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PMI RNAPII Modeling Tutorial

Tutorial that demonstrates the modeling of RNA Polymerase II using Electron Microscopy density and chemical crosslinks [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-05-04

warning The following systems are still under development and have not yet been tested against the public release of IMP:

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Exocyst Complex PubMed logo PDB-Dev

Integrative Modeling of Yeast Exocyst Complex [more...]