Gmx pdb2gmx

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1

Hello, I have a methanol pdb file and its itp file and I want to convert it to a .gro file. I used the command: gmx pdb2gmx -f methanol_1728.pdb -o methanol_processed.gro -water spce, i obtained the following error: Atom HA1 in residue MET 1 was not found in rtp entry MET with 19 atoms
while sorting atoms.
Then I applied gmx pdb2gmx -f methanol_1728.pdb -o methanol_processed.gro -water spce -ignh, i obtained this error: Atom OA in residue MET 1 was not found in rtp entry MET with 19 atoms

while sorting atoms.
Note that i am using the OPLS-AA/L all-atom force field (2001 aminoacid dihedrals). How can i solve this error?

2

For converting pdb,you may use

gmx editconf -f methanol.pdb -o methanol.gro

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