how to group and display several residues at once

Jalview Discussion
1

Hi
Is it any way to select and group together several residues from the sequence alignment window
and display them in the structure at the PDB viewer?
I can only find a way to display single specific residue that is selected by hoovering mouse
over it in the sequence display.

Thanks
Piotr

2

Piotr Cieplak wrote:

Hi
Is it any way to select and group together several residues from the sequence alignment window
and display them in the structure at the PDB viewer?

Unfortunately not. You could create a coloured group or a sequence feature on the sequence, so the corresponding structural residues are coloured in the same way. Otherwise, only sequence colours and single residue mouseover highlight positions are sent to the viewer. We realised this was a limitation but have not had the resources to add in any other kind of interaction.

I can only find a way to display single specific residue that is selected by hoovering mouse
over it in the sequence display.

If you are using the application with Jmol then you could also open the Jmol console window and type commands to explicitly display the residue sidechains or use the Jmol menu to set their display style (after adding each residue to the Jmol selection individually).

Jim