Just downloaded and have been playing with Avogadro - great tool so far! If I may make a suggestion…I’m primarily interested in importing protein structures (fetching from PDB) and manipulating particular residues or sets of residues. Is there a way to select residues based on their location in the chain? For example, I might want to select residues that form the catalytic site (e.g. His57, Ser102, and Arg220), then display only those as van der waals spheres and the rest of the chain as ribbon. Or, to color those residues a bright color while the rest of the chain is dark grey. If there were a tool to custom select residues (maybe based on position in the chain, and ideally multiple residues at once) and style only the selected residues, that would be great! Additionally, omitting residues from a selection would be helpful (e.g. selecting the entire chain except for the above-mentioned residues).
One other minor issue I’ve come across…when using the pointer select tool to click on residues, the program consistently slows, freezes, and shuts down, but I don’t have the same issue when using the select dropdown menu.
Thanks! Keep up the good work!