Published February 8, 2022 | Version v1
Dataset Open

Project files provided as supporting information to the manuscript "Membrane binding of pore-forming gamma-hemolysin components studied at different lipid compositions"

  • 1. University of Trento

Description

Project files provided as supporting information to the manuscript "Membrane binding of pore-forming gamma-hemolysin components studied at different lipid compositions"

The dataset contains the following folders:

- number_of_contacts: files with the number of contacts between the rim domains of LukF and Hlg2 and the membrane, for different bilayer compositions (Fig. 2).

- binding_events: files with the duration of the time interavals in which LukF and Hlg2 are bound to the membrane, and the scripts used to compute for each system the number of binding/unbinding events and the average membrane residence time (Fig. 3).

- electrostatic_potential: files of the surface electrostatic potential produced with the adaptive Poisson-Boltzmann solver and used for visualization with Chimera (Fig. 4).

- angles: files with the angle values computed between the protein axis and the z-axis of the simulation box (Fig. 5).

- contacts_per_residue: files with the number of frames in which each protein residue is in contact with the membrane, with respect to the total number of frames in which the rim domain interacts with the bilayer (Fig. 5).

- distance_protein_membrane: files with the minimum distance between the protein and the membrane (Fig. 6).

- binding_sites: file produced by PyLipid with relevant information on the main DOPC binding sites identified in LukF.

- min_distance_per_residue: files with the minimum distance between each protein residue and the membrane, computed at the binding steps (Fig. S5).

Files

angles.zip

Files (26.5 MB)

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md5:3b85c878fd86a16ff816bc447562cfe6
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md5:7e4aa5ce1b23051f8a25249871fab709
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Additional details

Funding

European Commission
VARIAMOLS – VAriable ResolutIon Algorithms for macroMOLecular Simulation 758588