GDFriedland at lbl.gov
Mon Dec 14 16:32:41 PST 2009
I'm new to Chimera and just discovered the FindHBond tool. This tool
seems very useful, but unfortunately it draws hbonds between the heavy
atoms even when I have hydrogens added. Is there a way to configure this
behavior? I'd like the hydrogen bonds to be drawn between the hydrogen
and the acceptor atom. It looks rather strange now, especially for the
hbonds with relaxed constraints that deviate significantly from the
angle made by the hydrogen. See the attached tiff for an example.
Also, I'm curious what cutoffs are used. I looked at
but I was hoping for more details. I.e what numbers from the paper are
used for the proton-acceptor distances, donor-proton-acceptor angle and
the corresponding dihedral angle.
Joint BioEnergy Instute
Sandia National Lab
Formerly of Tanja Kortemme's lab at UCSF
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