Protein-Ligand Interaction Profiler , https://plip-tool.biotec.tu-dresden.de/plip-web/plip/index ). It provides output both as an interaction list and PyMOL visualisation (https://plip-tool.biotec.tu-dresden.de/plip-web/plip/result/example-result-1xdn ). You can either use the Web server or download the program for local use. See https://plip-tool.biotec.tu-dresden.de/plip-web/plip/help#section-interactions for the definition and representation of different types of interaction and the threshold values used.
I find it far more differentiated than LigPlot+ , which however, is very useful for generating flat (2D) plots.
Hi. Discovery Studio Visualizer and Maestro have advanced options for this purpose, but in Pymol first in presentation option choose ligand mode and if you want to measure the distance between ligand and receptor used from measurement option in the Wizard menu.
Thank you all for the answers. I'm evaluating the interaction of two ligands in a protein, so the function of measuring by the distance and angle of the connections is very laborious and time-consuming for me since there are many! Also, I got a lot of non-polar interactions, which I can't measure with Pymol.