another post: http://archive.ambermd.org/201111/0743.html
hope this help.
Hai
On Tue, Dec 27, 2016 at 2:22 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
> hi,
>
> seems like you can read previous post here: http://archive.ambermd.
> org/201312/0300.html
>
> Hai
>
>
> On Tue, Dec 27, 2016 at 2:02 AM, Saman Yousuf ali <
> saman.yousufali64.yahoo.com> wrote:
>
>> Dear All,I am working on kinases. My protein target has some missing
>> residues, I have added these missing gaps via modeller. Before modelling, I
>> have converted two SEP (phosphoserine) non-standard aminoacid into SER
>> because I got alignment error during modelling. After converting modified
>> phosphoserine SEP into standard residue SER serine by just opening pdb text
>> file and replace all SEP with SER, modeller added missing residue
>> successfully. Now, I want to minimize this modelled protein to remove any
>> steric clashes and bad contact by running MD simulation. I want to convert
>> SER into SEP and to build library file for this nonstandard residue. Any
>> suggestions would be greatly appreciated.Thank You Very Much Best,Saman
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>
>
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Mon Dec 26 2016 - 23:30:04 PST
