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 X-ray tag are shown. [Show all systems]

Show only systems with tag
affinity purification allostery analysis benchmark Brownian dynamics C3 C3b chemical crosslinks chromatin coiled-coils cryo-EM cysteine crosslinks drosophila melanogaster EM EM class average EM density map endogenous complex FoXS FRET glycosylation iC3 in-vivo FRET ISAMBARD mass spectrometry model MODELLER multi-state MultiFit native mass spec pEMAP PMI PMI1 quantitative crosslinking SAXS TADs threading X-ray yeast two-hybrid
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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 (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Integrative structures of the human Cop9 signalosome PubMed logo PDB-Dev

Structural dynamics of the human COP9 signalosome revealed by cross-linking mass spectrometry and integrative modeling [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Model of Ecm29-proteasome complex PubMed logo PDB-Dev

Regulation of 26S proteasome via interaction with Ecm29 [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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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 (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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γTuSC-Spc110 Complex PDB-Dev

Integrative model of the γTuSC-Spc110 complex [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Mediator Complex PubMed logo PDB-Dev

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

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Integrative structures of the Nef-CD4-AP2 complex PubMed logo PDB-Dev

Integrative structure of the Nef-CD4(CD)-AP2(Δμ2-CTD) complex [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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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 (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Nup133 PubMed logo PDB-Dev

Modeling of the Nup133 subunit of the Nuclear Pore Complex [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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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 (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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Smc5/6-Nse2/5/6 complex PubMed logo PDB-Dev

Integrative modeling of the Smc5/6-Nse2/5/6 complex using comparative modeling and chemical crosslinks. [more...]

Last worked with IMP stable release (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10
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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 (main branch): 2.15.0
Last worked with IMP nightly build (develop branch): 2021-05-10

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

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Genetic interaction mapping informs integrative structure determination of protein complexes PubMed logo PDB-Dev

Integrative Structure Determination using data from point mutant epistatic miniarray profile [more...]