GROMACS version: gromacs/2025.3-openmpi-5.0.8-single-rocky8
GROMACS modification: Yes/No
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I am new to using GROMACS as I mostly deal with omics data I am using this for my TCR-pMHC structural model from AlphaFold3 and I got this warning message, should i be worried about this? I got this for each of these protein(TCR, peptide, and MHC). How can I resolve this issue? is it something expected?
(WARNING: Residue 1 named GLU of a molecule in the input file was mapped to an entry in the topology database, but the atom H used in an interaction of type angle in that entry is not found in the input file. Perhaps your atom and/or residue naming needs to be fixed.
WARNING: WARNING: Residue 113 named LEU of a molecule in the input file was mapped to an entry in the topology database, but the atom O used in an interaction of type angle in that entry is not found in the input file. Perhaps your atom and/or residue naming needs to be fixed.