I am currently trying to find the stability of a protein (∆∆G) using foldx. I have a pdb of 3L6P (https://www.rcsb.org/structure/3L6P). I want to find the stability of this protein and compare it to a mutated version of 3L6P (not necessarily by using foldx), however, I am stumped. I am getting an error with foldx saying
"Sorry there is only one molecule in the PDB, we cannot calculate the interaction energy There was a problem with the complex analysis of ./3l6p.pdb"
I was wondering if anyone could help me either find a way around this issue or give me some insight on how someone should go about calculating the stability of a protein.
Can you please give the steps which you followed in foldX? You can also try dynamut.
The link at the bottom will download the commands I found on pcbi with a small explanation . Otherwise it is these three
I will also try out dynamut and let you know if that works.
Link to foldx commands