Partial coloring of structure

[lokapal]

Hello, Marco! I'm lost (err, again ;) in the documentation of your omnipotent ;) pv. I need in partial coloring of structure. From pv documentation I revealed that I need in something like "Color structure by custom property" i.e. in function pv.color.byResidueProp(), but I don't need in 'funky' colors. I don't need in rainbow and/or gradient. I need in uniform coloring per chain (it's done) while SOME residues have unique colors (I'll handle both list of these residues and colors per residue). Could you enhance the documentation with this kind of example? Thank you in advance! P.S. I've tried to use something like var index = 0; structure.eachResidue(function(r) { var tmpc; if (index==0) { tmpc=9; } else { tmpc=4; } r.setProp('funky', tmpc); index++; });

or var index=0; structure.eachResidue(function(r) { var tmpc; if (index==0) { tmpc='red'; } else { tmpc='blue'; } r.setProp('funky', tmpc); index++; });

Unfortunately it doesn't work.

[a-rasimmurat]

Hi!

Could you find any solution for your problem, I have the same issue.

[arthurchipdean]

A little late here but this is what I did. If you color by chain first you can then select individual atoms or residues by some criteria and overlap the color of your choice on top of the chain coloring. That's what I'm doing here:

//First select the chain
var main_chain = structure.atomSelect(function(atom) {
  return atom._tempFactor >= 10 && atom.residue().chain().name() == options.chain;
});
//Give a tag 'main-chain', and color it
 viewer.cartoon('main-chain', main_chain, {
  color: color.uniform('#d0ffbf')
});
//Select atoms based on some factor.
var lowQualityAtoms = structure.atomSelect(function (atom) {
   return atom._tempFactor != 10;
});
//And color them
viewer.lineTrace('lowQuality', lowQualityAtoms, {color: color.uniform('lightgrey')});

[gaiagbola]

Hello!! I am building a software for drug design purposes and needed a viewer. I tried to input a specific PDB file but it did not seem to work. Can anybody explain why? I added the protein into the pulldown menu of the viewer but still nothing.

Thank you for your attention