Hi Lachele,

 

The site works =).

 

I can build the glucose tetrasaccharide. How can I add sulphate groups to it? for example, in case of GAGs we have sulphate substitution, but in this case, I have glucose. I aim to simulate the oligosaccharide in AMBER.

 

Thanks,

Neha

 

From: Users of GLYCAM & GLYCAM-Web [mailto:[log in to unmask]] On Behalf Of Lachele Foley
Sent: Thursday, 7 December 2017 5:45 PM
To: [log in to unmask]
Subject: Re: sulphated glucose tetrasaccharide

 

Site should work now.  Let us know if you have trouble.

 

http://glycam.org/cb

 

 

On Wed, Dec 6, 2017 at 11:50 PM, Naveen Kumar Vasudevan <[log in to unmask]> wrote:

You can use the Carbohydrates builder, if its a short chain and add substituent groups to it. The website is down right now, but you can access it soon.  This will give you the pdb file.

 

===========================================================
Naveen Kumar Vasudevan, Graduate student,
The Xi Research Lab,
Dept. of Chemical Engineering, McMaster University,
JHE- 296, 1280 Main St. W., Hamilton, ON L8S 4L7, Canada
Email: [log in to unmask] ; Tel: +1(647) 629-1562
===========================================================

 

From: Neha S. Gandhi
Sent: December 6, 2017 11:42 PM
To: [log in to unmask]
Subject: sulphated glucose tetrasaccharide

 

Dear List,

 

I am working on a molecule with B-D-glucose. The OH groups of glucose are substituted by sulphates. How can I prepare a pdb file and amber topology using GLYCAM?

 

Many thanks,

Neha

 

Dr. Neha S. Gandhi  |  Vice-Chancellor’s research fellow

School of Mathematical Sciences and Institute for Health and Biomedical Innovations,

Science and Engineering Faculty | Queensland University of Technology

P-Block, Level 7, Gardens Point Campus
ph 3138 7394| email:
[log in to unmask]
CRICOS No 00213J

 

 



 

--

:-) Lachele
Lachele Foley
CCRC/UGA
Athens, GA USA