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Downloading and Installation of Protein Explorer for Windows

1. Print these instructions now!! The most common reason people have
problems installing Protein Explorer is that they skip over the
instructions below.

Protein Explorer is a browser-based application. It does not have

an automatic installer like most programs have. After PE is
downloaded and unpacked (into over 900 separate files),
"installing" it consists of opening the correct file in a compatible
browser, and then creating a shortcut or bookmark that makes
future use a one-click operation.

2. Download one or more PE Unzipper components. It works fine to

download it to your Desktop; or you may download it to another location
if you prefer. For current Protein Explorer version numbers and release
dates, please consult proteinexplorer.org. Your download options are:
o PE 2.80 (May 14, 2007): (Not available in smaller pieces.)

Download PE-280-All-Unzipper.exe 27 Megabytes


(includes all components, including the Demo and the
Atlas).
This includes the folder "my_molecules", a required
component, which contains the Presentation Template and
Example PiPEs and MolSlides. Installing it will
automatically redirect your existing PiPEs to the new
version of PE, but otherwise will not affect PiPEs or
MolSlides you have made.
o Older Versions of Protein Explorer
3. Protein Explorer 2.72 or later included a folder my_molecules, in the
same folder as "Protein_Explorer_N.NN". If you are upgrading from
PE 2.72 or later, it is crucial that you now move your freshly
downloaded PE-N.NN-Unzipper.exe file to the folder that contains
my_molecules and the folder Protein_Explorer_N.NN. This ensures that
when you unzip (next step), any PiPEs you have made in the folder
my_molecules\pipes will henceforth run in the new version of PE.

If this is the first time you have installed a downloaded copy of

PE, you can leave the Unzipper file on your desktop.
4. Double-click the PE-Unzipper.exe file. A WinZip Self-Extractor dialog
will open. Click the Unzip button (leaving all other settings unchanged).
When extraction has finished, click the Close button in the WinZip
dialog.
5. The previous step creates two folders named "Protein Explorer N.NN"
(where "N.NN" is the current version number), and "my_molecules".

If this is the first time you have installed a downloaded copy of

PE, Drag these two folders to a permanent location of your
choosing (we recommend the C: drive, for example,
C:\ProteinExplorer). It is best if you drag them to a permanent
location now -- this may avoid future complications. The folder
my_molecules MUST be in the same directory as the folder
Protein Explorer N.NN -- it is required for the operation of
Protein Explorer.

6. Double-click the new "Protein Explorer N.NN" folder to open it. Inside
you will find, among other things, a file named "How to Start PE.htm".
7. Right-click "How to Start PE.htm" and select Send To, then Desktop
(create shortcut). Do not drag it and drop it on the Desktop. This will
not work!
8. Click the Desktop Icon in your taskbar to minimize all open applications
and reveal your Desktop (or hold down the Windows key and press m).
9. Double-click the new Shortcut to How to Start PE.htm on your
Desktop and follow the instructions there. (This should display the
downloaded instructions in your browser. If it doesn't, please re-do the
previous instructions carefully.)

-------------------- Now you can run your downloaded Protein Explorer!

--------------------

10. If you wish, you may copy the Shortcut to How to Start PE.htm and
paste it into other locations, or drag it and drop it into another location. If
you wish, you can drag it and drop it onto your main Start menu.
11. You may now delete the file PE-Unzipper.exe if you wish.
12. If you are updating from a previous version of Protein Explorer,
optionally, you may delete the folder Protein_Explorer_N.NN for the
old version (deleting all of its contents, notably the folders atlas,
protexpl, pe_demo, and shared, and their contents), along with your
bookmarks/favorites to the OLD version. (If you keep the old files and
bookmarks/favorites, you can use either the old or the new version as
you wish.)
 Do not delete the folder my_molecules which may contain your own
personal PiPEs and/or MolSlides! This folder is automatically updated
whenever you download and install a new version of PE.
13. Never put any files containing your personal work in the "Protein
Explorer N.NN" folder, of any of its sub-folders, since they will be
deleted when you update to a future version.
http://www.umass.edu/microbio/chime/regisfrm/downlpew.htm

http://130.14.29.110/Structure/CN3D/cn3dwin.shtml

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