Indicate what you want to display in your molecular representation using the selection options of the GPCRmd Viewer.
You can choose one of the selections we propose or define a new one (Customized selection option) using the NGL selection language.
Protein residues can be indicated as generic GPCR residue numbers (Ballesteros-Weinstein or GPCRdb structure-based numbering).
The hydrogen bonding network has been generated using Flare Plots, powered by R. Fonseca and A. J. Venkatakrishnan.
Left button hold and move: rotate camera around center.
Left button click: pick atom or distance.
Middle button hold and move: zoom camera in and out.
Middle button click: center camera on atom.
Right button hold and move: translate camera in screen plane.
For more information, see the docs.
The selected tool is not available for this simulation.
- GetContacts criteria
- Wernet Nilsson criteria (MDTraj)
- Salt bridges
- Van der Waals
- Water bridges
- Extended water bridges
- Interacting pairs
- Current frame
Compute interaction between GPCR and
Select distances from the viewer by clicking on the atoms. Afterwards, import your selections by clicking at the import button (). You can also manually introduce the atom indices.
Reference: frame from trajectory
Protein alpha carbons
Protein CA, CB, C, N, O
Non-hydrogen protein atoms
All protein atoms
|Show Polar residues|
Show waters within
|Å of protein|