Eric, can you be sure to test that and get back to me? Also, do you have any
X-PLOR map files? I would like to test the X-PLOR reader. (It's never been
tested, and I suspect it won't work.)
You will need the very latest version of Jmol at
http://chemapps.stolaf.edu/jmol/docs/examples-11/Jmol-11.zip
Very important to check the offset of the isosurface. There is some
ambiguity in the file description. 50% chance I have that right.
Please get back to me as soon as you can about this.
Thanks.
Bob
On Thu, Jan 14, 2010 at 3:00 AM, Eric Martz <[email protected]>wrote:
> Dear Tom,
>
> I cannot speak for the PDB, but I am currently in Israel
> collaborating with the Proteopedia team, and that is why the renewed
> interest in electron density maps -- so yes, Proteopedia will be very
> interested when we succeed!
>
> -Eric
>
> At 1/13/10, Thomas Stout wrote:
>
> >Very exciting! This would be of enormous value (at least to me &
> >the protein crystallography community). I should think the PDB &
> >Proteopedia would be quite interested as well...
> >
> >-Tom
> >
> >
> >On Wed, Jan 13, 2010 at 8:59 AM, Eric Martz
> ><<mailto:[email protected]>[email protected]> wrote:
> >I am again making an effort to render electron density maps (EDM) in
> >Jmol, for protein crystallographic structures. If anyone else has
> >done this, or has suggestions, please let me know!
> >
> >Jmol's script document list XPLOR as an input file format, but not
> >CCP4 map format. So I assume the best way to proceed is to get the
> >.hkl XPLOR EDM file and load it into Jmol. I haven't gotten that far
> >yet, but I'm working on it.
> >
> >So far, it seems that the only EDM server I've found is at Uppsala
> >(<http://eds.bmc.uu.se>http://eds.bmc.uu.se) and it generates O,
> >CCP4, CNS, and EZD, none of which we think are .hkl XPLOR format. A
> >crystallographer here says the XPLOR is an older, now less used
> >format. Most people now use CCP4 .map format.
> >
> >The CCP4 version 6.1.0 program suite appears to have a bug in the
> >conversion to XPLOR .hkl format, which omits the phases. I am
> >currently downloading 6.1.3 to see if that bug is fixed.
> >
> >Thanks,
> >--
> >Eric Martz, Ph.D.
> >Professor Emeritus, Microbiology, University of Massachusetts, Amherst
> ><http://martz.molviz.org>http://martz.molviz.org
> >
> >
> >
> >
> >
> >
> >
>
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--
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
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-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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