Re: [ccp4bb] Morphing with mutations

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: Morphing with mutations
From: Warren DeLano warren {- at -} DELSCI {- dot -} COM
Date: 2007-10-05

Next message:
Subject: Beamtime at SLS X06SA
From: Clemens Schulze-Briese clemens {- dot -} schulze {- at -} PSI {- dot -} CH
Date: 2007-10-05

Subject: Re: Morphing with mutations
From: "Mario A {- dot -} Bianchet" bianchet {- at -} JULIET {- dot -} MED {- dot -} JHMI {- dot -} EDU
Date: 2007-10-05

Warren,

Quite a beauty... what a nice way to show the effect of the
mutation in the binding site.
really nice,

Mario
Warren DeLano wrote:

>http://delsci.com/morph
>
>It's a start...
>
>-----Original Message-----
>From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
>Gerard DVD Kleywegt
>Sent: Wednesday, October 03, 2007 6:55 AM
>To: CCP4BB@JISCMAIL.AC.UK
>Subject: Re: [ccp4bb] Morphing with mutations
>
>
>
>> What about to do a cartesian morphing with the mutated
>>
>>
>residue
>
>
>>added (or removed) atoms having initial ( or final) coordinates taken
>>
>>
>from
>
>
>>previous common atom?
>> Will work? Coloring may be a factor... but with a manual
>>
>>
>editing
>
>
>>perhaps...
>>
>>
>
>you mean, for instance, if you have an Ala->Trp you call the ala 'trp',
>add
>all missing 'trp' side-chain atoms and put them on top of the CB, and
>then
>morph to the real trp, so the additional side-chain atoms will slowly
>"explode" out of the CB and towards their final positions? (and for a
>Trp->Ala
>mutation you could do the same thing of course, but the extra side-chain
>atoms
>would then be "sucked up" by the CB like a black hole) yep, that is a
>trick
>that would probably work!
>
>if anyone gets it to work, i would be interested in seeing the result
>and
>learning details, so i could add it to the lsqman manual or the morphing
>
>tutorial
>
>--dvd
>
>******************************************************************
> Gerard J. Kleywegt
> [Research Fellow of the Royal Swedish Academy of Sciences]
>Dept. of Cell & Molecular Biology University of Uppsala
> Biomedical Centre Box 596
> SE-751 24 Uppsala SWEDEN
>
> http://xray.bmc.uu.se/gerard/ mailto:gerard@xray.bmc.uu.se
>******************************************************************
> The opinions in this message are fictional. Any similarity
> to actual opinions, living or dead, is purely coincidental.
>******************************************************************
>
>

--
=========================================================================
Mario A. Bianchet Ph.D.
bianchet@juliet.med.jhmi.edu
Instructor
http://juliet.med.jhmi.edu/~bianchet
Dept. of Biophysics and Biophysical
Address:725 N.Wolfe st, WBSB 614
Chemistry, Johns Hopkins University
Baltimore, Maryland, 21205, USA
School of Medicine

Assistant Professor, (adjunct app.)
Phones: +1 (410) 931-2143(home)
Center of Marine Biotechnology,
+1 (410) 614-8221(work)
University of Maryland ! fax: +1 (410) 955-0637
=========================================================================

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: Morphing with mutations
From: Warren DeLano warren {- at -} DELSCI {- dot -} COM
Date: 2007-10-05

Next message:
Subject: Beamtime at SLS X06SA
From: Clemens Schulze-Briese clemens {- dot -} schulze {- at -} PSI {- dot -} CH
Date: 2007-10-05