[gmx-users] Re: Force field parameters for phosphorylated

[Justin A. Lemkul]

sarah k wrote:
> Dear Bharat,
> 
> You can use the Dundee PRODRG server to prepare the topology/parameter
> of any structure for GROMACS or some other programs. Here is the link:
> 

Be careful with PRODRG, its results are not good (posted for the second time in 
15 minutes):

http://www.gromacs.org/Downloads/Related_Software/PRODRG#Tips

-Justin

> http://davapc1.bioch.dundee.ac.uk/prodrg/
> 
> you should tag the phosphate group and draw the structure of
> phosphotyrosine and load it. Good Luck!
> 
> Best Regards,
> Sarah Keshavarz

-- 
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Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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