Dear Hao
In PyMOL bonds are essentially drawn based on a distance cut-off: Two atoms are
considered bonded if
distance <= connect_cutoff + (vdw1 + vdw2)/2
You can generally adjust the sensitivity of bond recognition by adjusting the
connect_cutoff global variable ( https://pymolwiki.org/index.
Dear pymol user,
I wonder why sometimes the secondary structure of a protein can not be
displayed incorrect in pymol. I have a structure, some residues are predicted
to be sheet or 3-10 helix with DSSP, but they are displayed as loop. Only
typing "dss" command in pymol doesn't work. I know by u
