It is easy to copy any molecular view from FirstGlance
in Jmol, and then paste it into a presentation
or document
(such as into MS Powerpoint, MS Word, or the free presentation or document
editing programs
Open Office Impress or Writer).
MS Windows:
Alt-PrtSc (hold
down the Alt key, then press the Print Screen key) copies the
active window to the clipboard.
You can then paste the image into another application (such as Powerpoint).
Cropping an image pasted into MS Powerpoint or MS
Word: After you paste the image into an MS Powerpoint slide or MS
Word document, click on the pasted image. A "Picture" toolbar
will appear. It includes a cropping tool: click on to activate cropping. Edge markers will appear
on your pasted image. Drag these to delimit the new cropped
image. Click the cropping tool again to de-activate it. Now you
can resize the image (with the corner handles) and drag it to the
desired position.
To avoid the need for cropping, it is convenient to "lasso" the desired
graphic with the mouse when saving it.
MS Windows XP does not provide any built-in method to lasso the desired
portion of the screen (instead of copying the entire active window, and then
cropping the image), but
an inexpensive program called
PrintKey
is excellent for this.
Mac OSX:
Clipboard:
Hold down Command (Apple) plus Shift plus Control (yes, 3 keys all at once!),
and then press the "4" key. Now,
use your mouse to click and drag a rectangle around what you want
to save. When you release the mouse, the image will be saved
to the OS X Clipboard. Now you can paste it into a Powerpoint slide.
Saving an Image File:
Hold down Command (Apple) plus Shift (just 2 keys), and then
press the "4" key.
Now, use your mouse to click and drag a rectangle around what you
want to save. When you release the mouse, the image will be saved
directly to a disk file (in Portable Network Graphics or .png
format) on your desktop. This file can be displayed in a web browser,
inserted into a Powerpoint slide, etc.
Polyview-3D can make publication quality static views --
see
below.
This is by far the easiest and best way to put a rotating
molecular view in a Powerpoint® slide. However, it is not
taking the view from FirstGlance in Jmol -- you generate the view
by filling out a simple form (with great flexibility for
rendering, coloring, hiding) at
Polyview-3D.
You can also make static views here, and even animations of morphs.
Once Polyview-3D has generated your image (large,
smoothly-animated images may take up to an hour to make), you
simply drag and drop it into your Powerpoint® slide!
Polyview-3D can also make static or rotating views colored from
ConSurf results!
Rotating Views Method II: Run FirstGlance during your
presentation.
Running FirstGlance during your presentation is
a powerful method for including rotatable, molecular
views in a presentation. If most of your presentation is in
Powerpoint, you would need to pop the FirstGlance window
in front to show rotating molecular views, then pop Powerpoint
back in front afterwards. This method requires a reliable
Internet connection when projecting your presentation.
(In contrast to FirstGlance, you can run Protein
Explorer off-line using a downloaded copy.)
ConSurf, Pepitope, or Selecton results:
Consider downloading your
ConSurf/Pepitope/Selecton result so you can guarantee that you have it, even it it
gets removed from the server before your presentation.
With this
method, you can show a ConSurf/Pepitope/Selecton
result exactly as it was first shown to you
by the server. You will need an Internet connection to show
the saved file in FirstGlance. (You can show ConSurf but not
Pepitope or Selecton files
off-line using a downloaded
installation of Protein
Explorer).
Rotating Views Method III: MolSlides.
MolSlides can use Jmol, enabling them to
display on all popular computer platforms and browsers. However,
creating the MolSlides in the first place requires using Protein Explorer (PE), which works
only in MS Windows.
Intel Macs can run MS Windows in a window on the Mac OS X desktop.
MS Windows runs as an application within OS X -- you don't need to
reboot to switch between OS X and Windows.
This is called a virtual machine, and it is installed using
Desktop for Mac from
Parallels.Com.
MolSlides are ideal when
you don't need the control panel or other capabilities
of FirstGlance,
but simply a few pre-selected,
rotatable molecular views in a set of slides.
Making MolSlides takes more
effort than method I above, because you have to learn how to use
Protein Explorer. Once you
have made your MolSlides, you can show them (off-line or on-line) without
having to run PE, using Jmol.
Here is a sample of
ConSurf views saved as MolSlides using Jmol.
(Because Protein Explorer cannot display Pepitope nor Selecton results,
making Pepitope/Selecton MolSlides is not straightforward.)
A MolSlide can be inserted into a Powerpoint slide (Windows
only), but this is technically fussy.
(For more information, please see
molslides.proteinexplorer.org.)
Usually it is far easier to run your MolSlides in a browser window, and
pop it in front of Powerpoint when you want to show your rotating molecular
views. You can then resume Powerpoint by popping it in front of the
MolSlides browser window.
For ConSurf results, you are not limited to presenting the
preset molecular views produced by ConSurf. Instructions for
customizing the molecular view within PE are linked at the
bottom of ConSurf's
control
panel,
"Customize this molecular view -- Explore this structure".
You can save any molecular view that you obtain in PE into a MolSlide.
Briefly, to save molecular views for later presentation as
MolSlides:
Run
Protein Explorer, get the molecular view you want, then
find the link
Save This View .. below PE's
message
box. Click it, and
in the dialog that opens, click Add a new MolSlide.
Follow instructions there.
Full details and more examples are at
molslides.proteinexplorer.org.