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molscript and side chains

Dr.Ramachandran Murali murali at XRAY.MED.UPENN.EDU
Thu Aug 29 10:11:40 EST 1996


 I used the following commands and the side chains came alright.

 ball-and-stick require not either atom N, atom C or atom O
		      and in type PHE;      ! Side chain ball and stick.

 The trick is to use CA included. 
 Hope this works

 -Murali

 -----------------------------------------------------------------------
 Dr. Ramachandran Murali		     
 Dept. of Pathology & Lab.of Medicine, University of Pennsylvania
 243 John Morgan Building,Philadelphia, PA 19104
 E-mail: murali at xray.med.upenn.edu; Phone 215-573-9256;Fax 215-898-2401.
-----------------------------------------------------------------------

On 29 Aug 1996, Phoebe Rice wrote:

> > From: 3lcid at qucdn.queensu.ca (Carl)
> > 
> > Subject: molscript and side chains
> > 
> > Date: 28 Aug 1996 21:00:00 GMT
> > 
> > Does anyone know how to get side chains to connect with a ribbon
> > trace when using molscript? I believe the documentation says that the
> > ribbon does not go through the C alpha position since it is smoothed.
> > The way it is now I have a residue floating in space and although I
> > can
> > fix it slightly by rotating the molecule I would prefer the original
> > orientation. Does anyone know it there is a fix for this or a way to
> > "trick" the program into joining the side chain to the ribbon. Thanks
> > for any advice.
> > 
> > Carl DeLuca
> > ----------------------------------------------------------------------
> 
> I move the molscript o/p to the mac, use a shareware program called
> EPSconverter to make it readable, and then edit the postscript file with
> Adobe Illustrator.  Its MUCH easier to put the labels on this way too.
> (but I am not endorsing any particular vendors for Illustrator ;) )
> 
> -------------------------------------------------------
> 
> 	Phoebe Rice
> 	(301) 402 4497 (phone) / (301) 496 0201 (fax)
> 	Phoebe at vger.niddk.nih.gov
> 	http://www-mslmb.niddk.nih.gov/phoebe_rice.html
> 
>   ** all opinions expressed are my fault, not the US government's **
> 




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