[Jmol-users] DNA- backbone hbonds?

[Frieda R. <fr...@ns...>]

Hi Bob,

Does Jmol allow for a ladder representation of DNA? In Chime you  
could get this with

set hbonds backbone
hbonds 0.4

But iI see no effect of these in Jmol.

 From the script doc it initially looks promising:

set hbondsBackbone FALSE
Hydrogen bonds between protein amino acid residues or nucleic acid  
base pairs are displayed as lines. These lines can be displayed  
whether or not the H atoms are present in the file, and can be drawn  
either between the two non-hydrogen atoms involved in the bond (O or  
N, typically, the default) or, alternatively, between the two  
backbone alpha-carbon atoms, depending upon the desired effect.

But the latter sentence makes me think that this setting really  
applies to protein and not DNA.

If it does not exist for DNA, it would be good to have this display  
option added. I can submit a feature request if that is appropriate.

Frieda

///////////////////////////////////////////

Frieda Reichsman
Molecules in Motion
Interactive Molecular Structures
http://www.moleculesinmotion.com

///////////////////////////////////////////