GROMACS version: 2021.4
GROMACS modification: Yes/No
Here post your question : I am new to GROMACS, so started with gromacs tutorials. After simulating lysozyme in water, I want to simulate a protein in another solvent like alcohol (methanol/ethanol) . Can anyone please help me in detailing the process how to do this?
You can solvate the system with the molecule you prefer as long as you have the corresponding input file with its structure. Take a look at the flag -cp in solvate.
Can you please help me to know how to have the input file with structure?