GO | GO:1990544


Simulation 6gci_default_dppc

Images

The following pre-rendered images show: distortions of the lipid bilayer, averaged across the entire simulation; positions of lipids in a representative snapshot of the simulation and contacts between lipids or solvent and the protein in either cartoon or surface representation. Rendering is performed using VMD's Tachyon renderer.

Distortions

Distortions show the average surface formed by lipid phosphate beads over the final 800 ns of simulation time. Red indicates a thinning of the bilayer (compared to bulk thickness), whilst blue indicates thickening.

Lipids

Coarse-grained lipids are shown with glycerol beads in yellow, phosphate beads in red and choline beads in blue. Atomistic lipids are coloured according to the CPK standard.

Contacts

Contacts show the average occupancy of the selected group within 6 Å of the protein over the final 800 ns of simulation time. Use the buttons below to select a representation.

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View an atomistic snapshot from this simulation. You will not need to install any additional software or plugins.

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6gci_default_dppc.mpmd.finalframe.atomistic.pdb
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Polypeptide chains

Select a chain to view more detailed analysis. The cards below show a vertical violin plot for each chain, with shapes representing the normalised density of all residues (white), alpha helical residues (blue) and beta sheet residues (green) along the bilayer normal.

Chain A