User talk:J. Shaun Lott
From Proteopedia
Welcome to Proteopedia! We hope you will contribute much and well. You will probably want to read the help pages. Again, welcome and have fun! Eran Hodis 16:44, 30 May 2008 (IDT)
BIOSCI203
Your new page looks great, and I'm sure will be very helpful for your course. May I suggest something? If you notice, the "Proteopedia Page Contributors and Editors" section is right next to the 2nd applet on the page. Perhaps you'd like that section to be pushed down all the way to the bottom. Try this: insert, as the last line in the page, the text {{Clear}} (i.e. the word Clear with 2 curly brackets on either side). Save the page and you should find that the contributors section has been pushed to a more aesthetically pleasing location at the bottom of the page instead of encroaching on your 2nd applet. If you ever need to separate 2 sections, just use this clearing syntax.
Best, Eran Hodis 15:51, 15 July 2008 (IDT)
Hi Eran
Thanks for taking an interest! This is my first experiment at transferring teaching material from sPDBv to Proteopedia, and my first impression is that it will work very well, especially for courses like this: large classes, with mixed computational ability. All the time spent learning how to use the program has disappeared, and one can focus on content. The end result will be that more content goes in, which can only be good. Thanks for the formatting suggestions - I'm not done yet so I'll certainly try incorporating them. I think I still have my reservations about Jmol, which are in some degree at least down to aesthetics. For instance, can one increase the thickness rather than the width of sheets and helices so that they don't appear paper-thin? I think my wish-list from Erice is still true: would be great to have the applet launch in a stand-alone window for instance, and I find the 'control panel' window of sPDBv very useful and so something like it would be great too.
cheers J. Shaun Lott
Hi Shaun,
If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at [1] and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.
Best, --Eran Hodis 01:31, 16 July 2008 (IDT)
P.S. I sign my name by using the signature button (2 buttons to the left of the 3D button), and if you want to leave me a note, you should do it on my user page (i.e. go to the discussion page on my user page). If you write anything there, I will be immediately notified, whereas if you write it here, I won't know unless I happen to check.
