This density does not look at all like O-glycosylation.
Best regards,
Herman
________________________________
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Savvas Savvides
Sent: Wednesday, November 24, 2010 2:48 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Strange density on Serine oxygen.
Hi Vinson
is O-glycosylation possible at all given the origin of the protein and
the expression system used?
best
Savvas
On 24 Nov 2010, at 14:42, Vinson LIANG wrote:
Dear Savas and all,
Thank you very much for all your quick suggestions.
I have tried Tyr and it turns out to fit the density very well.
I will have the protein sequenced again to see if it is wrong sequece or
O-linked glycosylation.
I'll let you know if it turns out to be O-linked glycosylation.
All the best,
Vinson
________________________________
发件人： Savvas Savvides <savvas.savvi...@ugent.be>
收件人： Vinson LIANG <lwg_conrad_1...@yahoo.com.cn>
抄 送： CCP4BB@JISCMAIL.AC.UK
发送日期： 2010/11/24 (周三) 9:27:31 下午
主 题： Re: [ccp4bb] Strange density on Serine oxygen.
Hi Vinson
Beyond the possibility for another type of residue as already
suggested by Phil and Mark, there is also the possibility of O-linked
glycosylation of the serine and threonine, if your protein undergoes such
post-translational modification and it has been expressed via an expression
system that processes the protein in that way.
Ser/Thr tandems are well known targets for O-glycosylation
(http://www.cbs.dtu.dk/databases/OGLYCBASE/).
best regards
Savvas
----
Savvas Savvides
Unit for Structural Biology @ L-ProBE
Ghent University
K.L. Ledeganckstraat 35, 9000 Ghent, Belgium
Ph. +32 (0)472 928 519 http://www.LProBE.ugent.be/xray.html
On 24 Nov 2010, at 13:10, Vinson LIANG wrote:
Dear all,
I'm refining a structure and find some strange triangle
density on the oxygen of Ser and Thr at the C terminus. One picture of the
strange density is attached here. Could anyone please give me some suggestions
on what this could be?
The buffer used during purification is PBS, Tris and
NaCl. And crystallization condition contains PEG3,350 and Mg(NO3)2.
Thank you all in advance for any suggestion.
Best,
Vinson Liang
<triangle_density.gif>
