VMD data analysis automatization (Part3): SASA and H-bonding analysis of trajectory 

Just discovered your channel, those vids u make are awesome!

Nice video sir Thank you.. Can you please help me in finding H-Bonds per residue for unfolding simulations means steered Molecular dynamics simulations of RNA. I am unable to find any tool or software that can help me to find H-Bond of RNA unfolding.

Thank you so much sir for uploading this informative vedio

Hi Sir, plz how can i get the final structure of the complex after MD to analyz the interactions ligand-protein? thank you

Sir, I simulated protein and ligand by namd, how to check h bond in protein and resname LIG using this Script

Hello Sir, can you tell me how I can get data of time vs hbond count from dcd files?

Hello sir how can I find the radial distribution function between H bonding and residues

how can calculate binding free energy?

what are the methods of NVT and NPT?

could you please make complete tutorial on VMD Timeline and calculate RMSD, RMSF, SASA etc..

كنت عايزه اعرف ازاي اضيف الvmd density profile ك plugin جوا الvmd ؟