Move & Rotate
31 March 98
There are several ways of selecting
menu allows you to quickly select
specific amino-acids accordingly to their type (Ala,
Gly,...), or to their properties (such as acidic, not in a
Trans conformation, with unusual Phi/Psi angles).
It is also possible to select residues directly from the
Control Panel or from the Align window by simply clicking on
their name. Alternately, you can pick residues on screen by
invoking the "Pick on Screen" item of the Select Menu. Once
all residues have been picked, simply hit the "esc"
Selecting Groups from the Control
To select a group, simply click on its name. It turns red
and all other groups are deselected unless you hold the
"Control" key (discontinuous selections) or the "shift" key
To select all groups belonging to a specific chain, simply
click on the chain name which is displayed in front of the
To select all groups of a layer, or all groups of a specific
kind ( acidic, basic, polar, non polar...) in a single
operation, use the appropriate item of the "Select" menu.
The "Control" key allows a discontinuous selection, while
the "shift" key extends the selection. For example, clicking
on the amino acid number 4 and then on the number 8
with the "Control" key will select amino acids 4
and 8, while clicking on the amino acid number 4
and then on the number 8 with the "shift" key will
select amino acids 4 to 8.
If you know the chain and number of the amino acid you
want to select, you can simply use the "hot typing"
Let's say you want to select ALA12, HIS42
and ARG65 of chain A; GLY15 of chain B; and TRP1 of "no
- First of all, you will have to type "a12". Notice
that a "A" appears in red at the top of the first column
of the control panel. It means that any successive
numbers will automatically be assigned to chain A so that
you don't have to specify the chain anymore.
- Now hold down the "Control" key and type "42" then
wait half a second and type "65", wait, type "b15", wait,
and finally hit the "Spacebar" (to reset the chain
selection to "nothing") and type "1" .
Quite easy isn't it? Note that you can
indifferently type "a" or "A", as it is not case
Note for PC users:The "Control" Key
should be hit AFTER the group number, it should not be
held down while you type the group number (i.e. the
previous example should be modified as follows: type
"a12", wait, type "42" then "Control", wait, type "65"
then "Control", wait, and so on...
Now that groups are
You can show the sidechains of all selected groups and
hide all those of non-selected groups by clicking on the
"side" word located in the header of the Control Panel. If
you want to show the sidechains of selected groups without
hiding those of unselected groups, you have to
"Control+Click" on the "side" word.
Similarly, you can colour all selected groups with the
same colour by clicking on the "colour" word in the header
of the Control Panel. A colour picker will appear and let
you choose the new colour. Please, note that hitting
"Cancel" or choosing a pure black colour will return the
selected groups atoms in their default colours. Note also
that the colouring will affect either backbone atoms,
sidechain atoms, backbone+sidechain atoms (default mode) or
ribbons segments depending on the status of the pop-up menu
located below the "colour" word written in the Control
You can clean-up your view by displaying only selected
groups by hitting the "return" key. All groups but the
selected ones will disappear from the view. In order to add
the selected groups to the view without hiding non-selected
groups, you have to hit "shift+return".
Alternatively, you can inverse the status of the selected
groups (showing hidden groups and hiding shown groups) with
the the "enter" key (from the numerical keypad).
Note for PC users: There is
apparently no way to determine which of the "Enter" keys has
been hit. Consequently, the "Enter" key located on the
numerical keypad works the same way as the return key
located on the main keyboard. Therefore, the functionality
described previously has been mapped to the keypad "+" key.