My apologies as well about the incomplete James perusal. I was just looking
for either term in the table of contents, and assumed that a similar meaning
would apply to such a similar (identical) term. Perhaps there are some
structures in the PDB, then, that have Jamesian structure amplitudes?
JPK
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Jacob Pearson Keller
Northwestern University
Medical Scientist Training Program
Dallos Laboratory
F. Searle 1-240
2240 Campus Drive
Evanston IL 60208
lab: 847.491.2438
cel: 773.608.9185
email: j-kell...@northwestern.edu
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----- Original Message -----
From: "Fischmann, Thierry" <thierry.fischm...@spcorp.com>
To: <CCP4BB@JISCMAIL.AC.UK>
Sent: Monday, January 12, 2009 1:45 PM
Subject: Re: [ccp4bb] structure (factor) amplitude
I'll add my 2 calories then. Gerard's new naming carefully avoids the
"Factor" and "Amplitude". The following term should get everybody to
agree:
"FA-free STRUDL".
Example of politically correct use:
"It is good practice to deposit your FA-free STRUDL in the Protein Data
Bank along with the atomic coordinates"
Thierry
-----Original Message-----
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Gerard Bricogne
Sent: Monday, January 12, 2009 02:34 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] structure (factor) amplitude
Dear Gerard,
As usual, your contribution is a hard act to follow. However, given
that your actual proposal can be rather indigestible (especially with
lots
of cream) we might have to stick with the current options.
What the perusal of James has revealed is that, if we want to
respect
the terminology that Ewald and he introduced, "structure amplitude" and
"structure factor amplitude" cannot be considered as synonyms - which
finally answers Bernhard's question, Google results notwithstanding.
With best wishes
Gerard.
--
On Mon, Jan 12, 2009 at 08:21:40PM +0100, Gerard DVD Kleywegt wrote:
As suggested by Tassos, what we need now more than ever is some Dutch
diplomacy so that he healing can really begin. Various people have
argued
for a shorter term (Brazilians, Pflugrath) and since I'm personally
rather
partial to Brazilians I would say we ought to go with that and shave
off a
few letters.
So: we need a shorter, unambiguous term. I also think it should sound
delicious. And it should be related to "structure (factor)" and
"amplitude". We could take the first few letters of "STRucture", add
some
of the last ones of "amplitUDe". And to sweeten the deal (and
reflecting
the Austrian roots of Bernhard R and the Teutonic dittos of Jim P), we
could add a diminutive "l". Thus we obtain:
STRUDL
So can we agree that, from now on, |F| is refered to as "strudl"?
Examples
of usage:
- "I have deposited my experimental strudls and sigmas, boss!"
- "We calculated a SIGMAA-weighted map with coefficients
two-m-strudl-obs
minus D-strudl-calc."
N.B.: In the special case that the |F| are the result of AP
(auto-processing) of FEL (free-electron laser) data, the appropriate
term
would obviously be: "APFELSTRUDL".
--DVD
******************************************************************
Gerard J. Kleywegt
Dept. of Cell & Molecular Biology University of Uppsala
Biomedical Centre Box 596
SE-751 24 Uppsala SWEDEN
http://xray.bmc.uu.se/gerard/ mailto:ger...@xray.bmc.uu.se
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