Hello. In the process of energy minimization, there is a hint as shown in the figure. And I found that the results were really very incorrect. I wonder how I should find the overlapping atoms (there are 570) and modify them.
570 overlapping atoms? How did you generate the system? If there’s only one or two atoms you can usually modify the coordinates by hand. But with that many I’d have a look at the setup process to see how it happened.
I have solved the problem, thank you. There was an error in my PDB file. It has now been corrected. Thanks again.