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 PMI1 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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26S-PIPs complex PubMed logo

Modeling the structures of complexes between the 26S proteasome and proteasome interacting proteins [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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40S•eIF1•eIF3 Complex PubMed logo

Determination of the molecular architecture of the 40S•eIF1•eIF3 translation initiation complex [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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Human Complement PubMed logo PDB-Dev

Human complement modeling [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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Exosome modeling PubMed logo PDB-Dev

Modeling exosome complexes from cross-link MS data [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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Glycophorin

Example of using IMP and PMI to model glycophorin [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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Integrin

Example of using IMP and PMI to model integrin [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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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): 2020-08-14
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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): 2020-08-14
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Nup82 Complex PubMed logo PDB-Dev

Modeling of the Nup82 subcomplex 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): 2020-08-14
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Nup84 Complex PubMed logo PDB-Dev

Modeling of the Nup84 subcomplex 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): 2020-08-14
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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): 2020-08-14
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SEA Complex PubMed logo

Modeling of the SEA complex [more...]

Last worked with IMP stable release (master branch): 2.13.0
Last worked with IMP nightly build (develop branch): 2020-08-14
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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): 2020-08-14