Dear Gary,
If you have two chains that are not symmetrical, you should assign the two
chains explicitly. So, a peak that could come from either chain (or, in
practice, both) should be assigned as ambigous, with two resonances on
each dimension. A bit of a pain, i know.
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 Tue, 2 May 2006, Gary S. Thompson wrote:
> Dear All
> I am assigning a dimer which in its unbound state has two fold
> symmetry. However, once I bind a ligand to it some of the symmetry (but
> not all) is lost. Thus I end up with peaks in my 1H-15N hsqc some of
> which are for A subunits and some of which are for B and some of which
> are for A and B. In the case of the A+B peaks degenerate peaks should
> each pair orf resonances from the two two dimensions and a sigle chain
> be in separate peakContribs....
>
> Also another question which is related. Programmatically what is the
> quickest way to identify sets of identical chains in a molecular system?
> Do I need to do a sequence comparison ever time I search for a repeat of
> the same chain...
>
> regards
> gary
>
> --
> -------------------------------------------------------------------
> Dr Gary Thompson
> Astbury Centre for Structural Molecular Biology,
> University of Leeds, Astbury Building,
> Leeds, LS2 9JT, West-Yorkshire, UK Tel. +44-113-3433024
> email: [log in to unmask] Fax +44-113-2331407
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>
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