How to mutate a protein in UCSF Chimera?

[@guunu]

Hello Mohamed, Thanks for the tutorial, very helpful. But, I am not able to mutate my protein to Alanine, other works. Any tips?

[@aris1162fr]

How do we choose the favorable residue, the residue that we are going to change?

[@joshuashah6473]

It depends on what interaction you're looking for. If for example you want a ligand and receptor to bind better, you might edit some amino acids so that they interact better (increase electrostatic interactions, hydrophobic interactions, hydrogen bonds etc.)

[@vanessagallegom]

Hi, it is the same procedure to complete a sequence? do you know any route that I can use to complete the sequence in Chimera and save it as a new PDB?

[@amkhalil256]

Thank you, Mohamed for your tutorials! As a beginner in structural biology, do you recommend Pymol or Chimera? Also, I would appreciate if you can recommend some links for basics to help in structural biology.

[@Mohamedshehata]

Depends but you can start with VMD

[@lisamakedon7034]

Hello, could you please tell which version of Chimera did you use foe this video?

[@cstudies3397]

Thank you for the video. Do you have any videos on calculating the binding free energy of a protein-protein complex in VMD? I have run NAMD simulations on a protein-protein complex and would like to compute the binding free energy of this interaction

[@queenraven217]

Try CaFE vmd plugin tool

[@yaneve_t]

Very helpful, thank you so much

[@marvell6059]

Thank you so much for the video

[@Mohamedshehata]

🥰