Dear Leah,
Brian Smith is quite right in his mail, but I could add a little - mostly
in case you get a similar problem another time:
You can add crosslinks at the MolSystem level (disulfides and others) in
M:Molecule:Molecules{Links} - details in
https://sites.google.com/site/ccpnwiki/Home/documentation/ccpnmr-analysis/howtos-1/create-disulfide-bridges-in-a-molecule
Before you can do it, you would have to have you Lysine and Tryptophan
residues defined with the appropriate hooks. That can be done using the
ChemBuild program, which you can download from the CCPN web site. It
sounds like a *very* unusual link, though, so it would make more sense to
maek a new CHemComp rather than a modified version of the existing ones
(which would make a mares nest of the naming anyway).
The result would still not be intelligible to other programs. The best
advice is surely to keep unmodified Lys and Trp and patch later when you
run structure determination programs - as Brian advised.
Yours,
Rasmus
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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 Mon, 19 Aug 2013, Leah Bushin wrote:
> Hello,
>
> The peptide I am working with has an unusual linkage between a
> tryptophan side chain and a lysine side chain. How can I include this
> side chain link information?
>
> Thanks,
>
> Leah
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