Hi, I bumped into a small problem, I think I missed something... so I am asking for help.
I made a simulation of a protein in water (35ns, extended 3 times from initial 10ns) and now I need to get a resulting protein structure in pdb. So I issued: g_trjconv -s md_input_extended_to35ns.tpr -f md_product.xtc -o md_product_35ns.pdb -dump 34999 But the resulting pdb looks weird when I open it in VMD or Chimera - it looks like the structure is split into 2 parts (within one file) and I can see several huge gaps in coordinates when viewing the file content. Gromacs trjconv manual doesn't seem to describe this behaviour, so could I ask anyone to help me with this? Thank you. -- View this message in context: http://gromacs.5086.n6.nabble.com/Extracting-the-last-frame-of-simulation-into-PDB-tp5005586.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com. -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
