Dear users<br><br>I have complex structure with ligand having sulfur atom in 
it. I am trying to minimize it but it fails giving the following error:<br><i>(LIG) /home/usr/.local/UCSF-Chimera64-1.12/bin/amber16/bin/antechamber: Fatal Error!<br>(LIG) Cannot properly run "/home/usr/.local/UCSF-Chimera64-1.12/bin/amber16/bin/sqm -O -i sqm.in -o sqm.out".<br><br></i>I assume it's because of sulfur atom in ligand because I tried running it with out sulfur and it worked fine.<br>I checked&nbsp; MMKT Atom database for sulfur file and it's already there:<br><font size="1"><i>name = 'sulphur'<br>symbol = 'S'<br><br>mass = [(31.97207070, 95.02), (32.97145843, 0.75),<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; (33.96786665, 4.21), (35.9670806, 0.02)]<br><br>color = 'yellow'<br><br>vdW_radius = 0.18<br><br>b_coherent = 2.847*fm<br>b_incoherent = 0.188*fm<br>b_coherent_deut = 2.847*fm<br>b_incoherent_deut = 0.188*fm</i></font><br><br>Any help would be highly appreciated. Thanks<br>Sara