Assessed Problem - MAC1h- Rett Syndrome

Molecular Graphics

Launching the Molecular Graphics Session.

Open a new window with the molecular graphics session by hitting the "Launch" button below.

 Alternatively, you may copy and paste into your browser the following address: http://www.biology.ed.ac.uk/research/groups/paulmcl/MAC1h/Chime/
or click here.

How it works

An image of the graphics session


  • (1) Hit on the small x-buttons to change the view
  • (2) Hit on the question mark to launch a help window that explians what the corresponding x-button does.

Where will it work?

X Spin      
If you see a black box with an X in it, then you have the correct plugin. Hitting the little x-button should make the X in the window spin around the horizontal axis. ( In Internet Explorer you may have to click twice when you first use it.)  If you drag with the left mouse button depressed, you should be able to move the X around.

If you did not see the X shaped molecule, or the X-button did nothing, you would be better using  a student lab. The plugin will work there on a PC under Windows. Mozilla is prefered over Internet Explorer, but only because in Internet Explorer the X-button must be hit twice the first time it is used to have an effect.

It will be unlikely to work on Linux, or MACs.

If you are good at loading plugins, you may download onto your own machine from
here.
. We can't help you with this. Don't spend time on this if it doesn't work and don't use it as displacement activity for getting on with the exercise. Remember that it works in the student lab's, using Mozilla(best) on a  PC running Windows.

What do I need to be able to do?

Identify an atom

Left-click on any atom. See that its name comes up in the bottom left of the browser frame. Try with the image above. You should find three H atoms and two XX atoms ( pink).

Zoom

To zoom an object  click in the window with the left mouse button ,while holding the shift key depressed. Then pull the mouse downwards, while still keeping the key and the mouse depressed.  To  make the object smaller again,  push the mouse upwards, with the left click button and shift key depressed as  you do it. Try in the window with the  X shaped molecule.

Measure distance between atoms

When you need to measure the distances between two atoms, the mouse action will be set so that clicking on two succcessive atoms will give the distance between them (Angstroms) in the left side of the bottom of browser frame.  In the molecular graphics session we give you control over setting what the mouse does.  Thus you can "Set Mouse Identify", which will set the mouse  back to identifying atoms when you click on them. You can set the mouse back to measuring distances with " Set Mouse Distance".


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