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Dear All,

Thanks for the suggestions. I will work on them.
I had not worked on the modified residues, so thanks for all the valuable suggestions.

Regards
Rajesh

Date: Thu, 22 Mar 2012 10:15:55 +0000
From: [log in to unmask]
Subject: Re: [ccp4bb] refining phosphorylated residues
To: [log in to unmask]

In new version (it should be in ccp4 6.2.0, if not then it will come ccp4 6.3, otherwise you can take it from York's web site: ) TPO as well as SEP are peptides.

Break in coot may be due to misinterpretation of SEP or TPO as peptide in coot and it may be because of older version of the dictionary. Do the distances, angles between neighbouring residues make sence? If not then refinement also had problems


regards
Garib


On 22 Mar 2012, at 00:39, Joel Tyndall wrote:

As a follow up question the bulletin board, why is SEP a peptide (L-peptide) and TPO not (non-polymer)?
 
Joel
 
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Joel Tyndall, PhD

Senior Lecturer in Medicinal Chemistry
National School of Pharmacy
University of Otago
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From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of Rajesh kumar
Sent: Thursday, 22 March 2012 12:00 p.m.
To: [log in to unmask]
Subject: [ccp4bb] refining phosphorylated residues
 
Dear All,
 
I have a structure of a protein and peptide complex, in which peptide has modified residues ( phosphoserine and phosphothreonine). 
During refinement these both gets disconnected  with adjacent residues and its hard to connect them.
Could you please suggest me some options.
 
Thanks
Rajesh

Garib N Murshudov 
Structural Studies Division
MRC Laboratory of Molecular Biology
Hills Road 
Cambridge