A visualization of protein or nucleic acid secondary structure. Applying this to other molecules will not show anything.
In nucleic acids, the base cylinders obtain their color from the atom to which the cylinder is drawn, which is 'N1' for purines (resn: 'A', 'G', 'DA', 'DG') and
'N3' for pyrimidines (resn: 'C', 'U', 'DC', 'DT').
The different nucleobases can therefore be distinguished as by setting the colors
of each of these atoms. The backbone color is set from the 'P' atoms ('O5' for the 5' terminus).
Example
$3Dmol.download("pdb:4ZD3",viewer,{},function(){
viewer.setBackgroundColor(0xffffffff);
viewer.setViewStyle({style:"outline"});
viewer.setStyle({},{cartoon:{}});
viewer.render();
});Members
boolean
# arrows Optional
whether to add arrows showing beta-sheet
directionality; does not apply to trace or ribbon
ColorSpec
# color Optional
strand color, may specify as 'spectrum' which will apply reversed gradient based on residue number
number
# opacity Optional
set opacity from 0-1; transparency is set per-chain
with a warning outputted in the event of ambiguity
boolean
# ribbon Optional
whether to use constant strand width, disregarding
secondary structure; use thickness to adjust radius
string
# style Optional
style of cartoon rendering (trace, oval, rectangle (default), parabola, edged)
boolean
# tubes Optional
whether to display alpha helices as simple cylinders;
does not apply to trace
number
# width Optional
cartoon strand width, default is secondary
structure-dependent; does not apply to trace or ribbon