Eric, thanks for suggesting getting this all cleaned up. We may not be
totally done, but it's close, and all the underlying work is done so
that we can very quickly customize the menu to our liking.
From the popup menu you can select
--individual protein (ALL designated protein, nonstandard amino acids
listed after the standard amino acids, which are all always present, but
some are greyed out),
--individual nucleic acids (ALL identified nucleic acids, listed in
order only if present: G C A T I U +G+C+A+T+I+U, followed by any
nonstandard ones)
--individual carbohydrates, listed only if present
Separately, you can display any PDB HETATM groups, which should now show
up with their names. These could be anything, of course, but the menu
gives about 20 characters of the name, so that should help identifying
them.
In the process, I think we have quite a better system all around. Jmol
now tracks all PDB groups and group counts, and this information is
available to a web page using the
applet.jmolGetPropertyAsArray("auxiliaryInfo") function, which I can
describe if anyone is interested.
Bob
Eric Martz wrote:
>I don't think its important. If there is a significant time penalty, let's
>skip the count.
>
>At 10/13/2006, you wrote:
>
>
>>how much of a hit are you willing to take on time to catalog all these?
>>
>>Bob
>>
>>Eric Martz wrote:
>>
>>
>>
>>>At 10/13/2006, Bob wrote:
>>>
>>>
>>>
>>>
>>>>shall we count them, too?
>>>>
>>>>ALA (3)
>>>>ARG (2)
>>>>...
>>>>etc?
>>>>
>>>>
>>>>
>>>>
>>>That would be even better. -Eric
>>>
>>>
>>>
>>>-------------------------------------------------------------------------
>>>Using Tomcat but need to do more? Need to support web services, security?
>>>Get stuff done quickly with pre-integrated technology to make your job
>>>
>>>
>>easier
>>
>>
>>>Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
>>>http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>>_______________________________________________
>>>Jmol-users mailing list
>>>[email protected]
>>>https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>
>>>
>>>
>>>
>>-------------------------------------------------------------------------
>>Using Tomcat but need to do more? Need to support web services, security?
>>Get stuff done quickly with pre-integrated technology to make your job easier
>>Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
>>http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>_______________________________________________
>>Jmol-users mailing list
>>[email protected]
>>https://lists.sourceforge.net/lists/listinfo/jmol-users
>>
>>
>
>/* - - - - - - - - - - - - - - - - - - - - - - - - - - -
>Eric Martz, Professor Emeritus, Dept Microbiology
>U Mass, Amherst -- http://www.umass.edu/molvis/martz
>
>Biochem 3D Education Resources http://MolviZ.org
>See 3D Molecules, Install Nothing! - http://firstglance.jmol.org
>Protein Explorer - 3D Visualization: http://proteinexplorer.org
>Workshops: http://workshops.proteinexplorer.org
>World Index of Molecular Visualization Resources: http://molvisindex.org
>ConSurf - Find Conserved Patches in Proteins: http://consurf.tau.ac.il
>Atlas of Macromolecules: http://atlas.proteinexplorer.org
>PDB Lite Macromolecule Finder: http://pdblite.org
>Molecular Visualization EMail List (molvis-list):
> http://bioinformatics.org/mailman/listinfo/molvis-list
>- - - - - - - - - - - - - - - - - - - - - - - - - - - */
>
>
>-------------------------------------------------------------------------
>Using Tomcat but need to do more? Need to support web services, security?
>Get stuff done quickly with pre-integrated technology to make your job easier
>Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
>http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>_______________________________________________
>Jmol-users mailing list
>[email protected]
>https://lists.sourceforge.net/lists/listinfo/jmol-users
>
>
-------------------------------------------------------------------------
Using Tomcat but need to do more? Need to support web services, security?
Get stuff done quickly with pre-integrated technology to make your job easier
Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
_______________________________________________
Jmol-users mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/jmol-users
