This facility provides a mean of rendering some subparts of the molecule using a representation different from the default representation. Up to four independent selections can be specified.
For each, you need to specify the subset, its rendering mode, and its coloring pattern.
Note 1: For each selection, specifying Display as: None will result in applying the colouring pattern on the default representation.
Note 2: In the case of Complex animation, for each selection, specifying the Chain identifier(for instance rname=TYR and chain=A).
Presently, although this might evolve, selections correspond to close to Dino valid selection expression, but are restricted, in particular concerning keywords (see below).
Example to select the backbone of TYR and ARG within residues 25 to 58 and 70 to 92:
rname=TYR,ARG and rnum=25:58,70:92 and not aname=CA,N,C,O
Complex selections such as a selection of the form :
(rname=TYR,ARG and rnum=25:58,70:92) or (rnum=25:58,70:92 and aname=CA,N,C,O)
i.e. a group of 2 elementary selections is also valid. Here, this selects all TYR and ARG for residue numbers 25 to 58 and 70 to 92
and atoms CA,N,C,O (heavy atoms of the backbone) for residues 25 to 58 and 70 to 92.
Valid keywords: protein, dna, rna, backbone, solvent, hydrophobic, basic, acidic, polar, aromatic, aliphatic, purin, pyrimidin, base
Example: backbone and rnum=25:58 and aromatic
Note 3: keywords are NOT used with "$".
Important Note: to avoid confusion, the "backbone" and "base" keywords correspond respectively to the protein backbone atoms and the nucleic acids base atoms. Hence, "protein and base" or "dna and backbone" lead to void selections.
Use: "(protein and backbone) or (dna and not base)" for a selection of the protein and nucleic acid backbone.
Use: "(protein and not backbone) or (dna and base)" for a selection of protein side chains and nucleic acid bases.