Actually, that loading time for 900,000+ atoms of pdb1htq.ent.gz was just a
problem in that the large file had a LOT of sites listed. Since,
technically, sites should not generally be associated with multimodels
(because the conformation could radically change), I suggest we just not
load site information for PDB files with multiple models. Then
pdb1htq.ent.gz loads in a little more time (12 seconds) than it takes PyMol
to load the unzipped version -- about 10 seconds on my computer.
Bob
On Mon, Apr 5, 2010 at 8:35 AM, Robert Hanson <hans...@stolaf.edu> wrote:
> Thanks, Rolf. So pdb1htq.ent.gz loads, but takes unacceptably long to do
> so. So that's a great test case for improving load speed. I think I'll pass
> on 3k1q.pdb1.gz.
>
> Question: Does anyone know how to get PyMol to display the full
> biomolecule?
>
> Bob
>
>
> On Mon, Apr 5, 2010 at 7:49 AM, Rolf Huehne <rhue...@fli-leibniz.de>wrote:
>
>> Robert Hanson schrieb:
>> > Question: What's the largest model in the PDB database?
>> >
>> The largest asymmetric unit file is pdb1htq.ent.gz (20 MB, 906720 atoms).
>>
>> The largest biological unit file is 1m4x.pdb1.gz (314 MB, 16284240
>> atoms). The next one is 3k1q.pdb1.gz (99 MB, 6107880 atoms).
>>
>> Regards,
>> Rolf
>>
>>
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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
>
>
> 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
>
--
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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Try the new software tools for yourself. Speed compiling, find bugs
proactively, and fine-tune applications for parallel performance.
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http://p.sf.net/sfu/intel-sw-dev
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