Wow, I had no idea Jmol could generate Ramachandran plots on the fly!
Remarkable!
On Mon, Sep 20, 2010 at 1:19 PM, Jeff Hansen <[email protected]> wrote:
> I just checked this out. I sporadically observed this behavior of zooming
> instead of rotating. It didn't always happen even after loading several
> structures. It would happen once or twice then not happen. It was rather
> random in my case. Each time it happened, a couple of taps on my trackpad
> would usually get it out of this zooming mode and return it to the normal
> rotating. A few times it would switch into translating mode but again would
> eventually get to rotating after tapping a few times on the trackpad. It
> seems somehow the applet is confusing a single tap and drag for a two finger
> tap and drag or some other dragging with a key down.
>
>
> ***********************************************
> Jeff Hansen
> Department of Chemistry and Biochemistry
> DePauw University
> 602 S. College Ave.
> Greencastle, IN 46135
> [email protected]
> ***********************************************
>
>
> On Sep 20, 2010, at 12:51 PM, Philip Bays wrote:
>
> Bob:
>
> I like this a lot!!
>
> However --- (there is always a however, isn't there.) On a Mac, using
> Safari, I observe something that I think was discussed earlier but I do not
> remember if there was a resolution.
>
> The first two or three structures I request work fine. However, at some
> point, the rotate function becomes zoom. That is, left-mouse drag zooms
> instead of rotates. If I open the contextual menu, scroll down but do not
> select anything, the problem is remedied for that structure, but it recurs
> on loading the next.
>
> I have observed this on an iMac with a Mac mouse, and on a MacPro laptop.
> I am running the latest vs. of the OS (10.6.4) and using your web link
> (below).
>
> Phil
>
>
> On Sep 20, 2010, at 12:00 PM, Robert Hanson wrote:
>
> What do you think of starting a Wiki page "Jmol in the Classroom" -- or
> perhaps, to be consistent, "Classrooms Using Jmol"
>
> People could enter "teachable moments" when they used Jmol in an effective
> way during class.
>
> Here's a possible first installment:
>
> Today, Day 5 of first-semester organic chemistry -- Textbook Smith, 3rd Ed.
> -- Chapter 3 -- Topic "Functional Groups"
>
> I thought it would be fun to get students to suggest examples, so I fired
> up
>
> http://chemapps.stolaf.edu/jmol/docs/examples-12/simple.htm
>
> (This page, as of this morning, has a new button on the right that uses the
> PROMPT command in Jmol 12 and taps into the NIH Cactus service using LOAD
> $chemicalName. Look in the page source for that very simple code.)
>
> I just clicked on "Load MOL by NAME" and then asked them to give me a name
> of something they knew, like a medication.
>
> We ended up looking at diphenylhydramine, morphine, THC, heroin,
> hydrocodone, adderall, and tetracycline, writing out several of these
> structures on the board based on the 3D models. This lead to discussions of
> reactivity, hints about the connections between names (even these trade
> names) and functional groups, a little about the blood/brain barrier issue,
> hints about synthesis (it's amazing how simple many of these drugs are).
>
> Great fun.
>
> Bob
>
> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> 1520 St. Olaf Ave.
> Northfield, MN 55057
> http://www.stolaf.edu/people/hansonr
> phone: 507-786-3107
>
>
> If nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
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>
> J. Philip Bays
> Professor of Chemistry
> Science Hall 172
> Saint Mary's College
> Notre Dame IN 46556
> (574) 284-4663
>
>
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>
--
Mike Evans
Organic Chemistry Graduate Student
Moore Group
University of Illinois, Urbana-Champaign
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