[gmx-users] g_dist

[RINU KHATTRI]

hello everyone

I am working on protein complex with popc membrane gromcs version is 4.5.5
i want to calculate the distance between two residues during the
simulation (200ns) i have been made the .ndx file of atoms of two
residues and concatenate .xtc file and final .tpr file

g_dist -f full.xtc -s final.tpr -n atom.ndx -o dist.xvg

Molecule in topology has atom numbers below and above natoms (3893).
You are probably trying to use a trajectory which does not match the
first 3893 atoms of the run input file.
You can make a matching run input file with tpbconv.

the indx file is having the atom no which are present in last.gro file

kindly help
 g_mindist, g_hbond is working