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 MODELLER tag are shown. [Show all systems]

40S•eIF1•eIF3 Complex

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks MODELLER PMI1 X-ray

Integrative structures of the human Cop9 signalosome 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): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks MODELLER PMI X-ray

AllosMod benchmark

Benchmark of the AllosMod method [more...]

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags allostery benchmark glycosylation MODELLER

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags EM density map MODELLER MultiFit

Integrative structures of the Nef-CD4-AP2 complex PDB-Dev

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks MODELLER PMI X-ray

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks EM class average FoXS MODELLER multi-state SAXS X-ray

Nup82 Complex PDB-Dev

Modeling of the Nup82 subcomplex of the Nuclear Pore Complex [more...]

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks EM class average MODELLER PMI1

Nup84 Complex PDB-Dev

Modeling of the Nup84 subcomplex of the Nuclear Pore Complex [more...]

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks EM class average MODELLER PMI1

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags chemical crosslinks EM density map MODELLER

Modeling of Pom152 PDB-Dev

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

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags EM class average EM density map FoXS MODELLER PMI1 SAXS X-ray

Modeling of the SEA complex [more...]

Last worked with IMP stable release (main branch): 2.21.0

Last worked with IMP nightly build (develop branch): 2024-06-02

Tags affinity purification chemical crosslinks MODELLER PMI1

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

Integrative structures of the A3G-CRL5-Vif-CBFb complex PDB-Dev

Integrative structure determination of the A3G-CRL5-Vif-CBFβ complex [more...]

Tags chemical crosslinks MODELLER PMI X-ray

Genetic interaction mapping informs integrative structure determination of protein complexes

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

Tags MODELLER pEMAP PMI X-ray