Dear Krisztina,
This cna sometimes be tricky. The best way is to go into {Small
Molecules}, set the molType selector to 'all', and then use Right Mouse:
Filter to look for some string that is likely to be in the CHemCOmp you
want.
The tricky part is that the ChemComp is not always of the type you think
it should be.
Yours,
Rasmus
---------------------------------------------------------------------------
Dr. Rasmus H. Fogh Email: [log in to unmask]
Dept. of Biochemistry, University of Cambridge,
80 Tennis Court Road, Cambridge CB2 1GA, UK. FAX (01223)766002
On Fri, 19 Oct 2012, Krisztina Feher wrote:
> Thanks, Rasmus, the name should have been sort of obvious, but I managed
> somehow not finding it... I probably have to attach the link to make use of
> it in ARIA.
> Krisztina
>
>
>
>
> --- On Fri, 10/19/12, Rasmus Fogh <[log in to unmask]> wrote:
>
> From: Rasmus Fogh <[log in to unmask]>
> Subject: Re: adding C terminal amide cap to a peptide
> To: [log in to unmask]
> Date: Friday, October 19, 2012, 5:37 PM
>
> Dear Krisztina,
>
> Good news and bad news:
>
> The good news are that we have one, it is called molType
> 'other', ccpCode 'Nh2', and you cn find it in the
> molecule:Molecules {Small Compounds} tab
> The bad news it that (like most non-standard ChemComps) it has
> not got any of the links and hooks that allow you to connect it
> up to other residues. Still, or practicla purposes it should be
> OK. Add it as a last residue, and set the C-termnial residue to
> linking 'middle'. You will have the atoms you need, to assign
> to, even if the program does not know that there is a bond
> between the CO and the NH2. For exactly how to do it, see the
> Wiki.
>
> Alternatively, you can use ChemBuild to make wither a properly
> linked NH2, or a capped residue.
>
> Yours,
>
> Rasmus
>
> ---------------------------------------------------------------------------
>
> Dr. Rasmus H. Fogh Email:
> [log in to unmask]
> Dept. of Biochemistry, University of Cambridge,
> 80 Tennis Court Road, Cambridge CB2 1GA, UK. FAX
> (01223)766002
>
> On Fri, 19 Oct 2012, Krisztina Feher wrote:
>
> > Dear All,
> >
> > I am looking for a ChemComp to make a C terminal amide group
> capping, but I do not find it. I am guessing that such a cap
> should already exist and I do nto have to make a ChemComp for
> it. Any insight is most welcome. Thanks!
> >
> > Krisztina
> >
>
>
>
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