[gmx-users] error group protein not found

[marzieh dehghan]

Hi every body

I create a covalent bond and now I want to held MD by gromacs,

after holding the following command : grompp -f nvt.mdp -c em.gro -p
topol.top -o nvt.tpr

I confornted to an error:

Fatal error:
Group Protein not found in index file.
Group names must match either [moleculetype] names
or custom index group names,in which case you
must supply an index file to the '-n' option of grompp.


please let me know how can I solve this problem.

I am looking forward to getting your answer

thanks a lot


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*Marzieh DehghanPhD Candidate of BiochemistryInstitute of biochemistry and
Biophysics (IBB)University of Tehran, Tehran- Iran.*