GROMACS version: 2024
GROMACS modification: No
Hi everyone,
I’m working on simulating a DNA-peptide complex using GROMACS, and I need to place the peptide near the DNA at a specific distance (around 1.0–1.5 nm) to avoid overlaps. The system will be in a simulation box, and I’m not sure how to handle the placement properly.
Any suggestions or guidance would be greatly appreciated!
Thank you!