Lesson 10 - The Semitransparent Plane
This lesson explains how to control the plane associated with the
structure. More precisely, you will learn how to show, hide or move the
plane and how to change the plane properties. The plane may be used to
divide the structure in two parts, for selection and to model the cellular
It might be good idea to read the text about the command
before you start with this lesson.
Step 1 - start garlic (if not started already):
Step 2 - load some the structure. In this lesson the papain structure
is used, but you can use any other structure.
Step 3 - make the plane visible:
Now you should see an ellipsa which represents the plane. If you have not
rotated the structure before making the plane visible, the ellipsa will be
blue. The near edge will be bright, while the far edge will be dark.
Step 4 - rotate both the structure and the plane about x axis:
Hold the [shift] key and press 8 on numeric keypad.
Note the change of the ellipsa color: now you see another face of the plane.
The blue face is treated as the upper side, while the orange-red face is
treated as bottom side.
Step 5 - change the plane radius.
pla rad 20
Step 6 - Change the plane transparency (make it opaque):
pla tra 0
Step 7 - select all atoms above the plane:
Step 8 - change color for the current selection:
Step 9 - attach movement controls to the plane:
Step 10 - rotate the plane, leaving the structure in its current orientation:
Use numeric keypad (keys 2, 8, 4 and 6) and modifier keys (shift, alt, control)
to rotate the plane.
Step 11 - attach controls to both structure and plane:
Step 12 - hide the plane:
Step 13 - discard the structure: