[Chimera-users] reconstructing x-ray structure
Z. Nevin Gerek
Nevin.Gerek at asu.edu
Thu Sep 27 15:33:33 PDT 2007
I want to find out coordinates between peptide and protein. In x-ray
structures (such as: 2gzv it is a PDZ domain and peptide binds to
alpha helix in this domain), peptide is attached into C-terminal of
protein. At least they obtained bound structure with attaching
peptide into C-terminal of protein. Originally, peptide binds to
different place in the protein.
Is there anyway to find the right place of peptide using this x-ray
structure in Chimera?
If I find positions between peptide and protein, eventually i will
see peptide-protein interactions as in the right place.
I hope this clarifies my problem.
On Sep 27, 2007, at 3:05 PM, Thomas Goddard wrote:
> Hi Nevin,
> Is your question about seeing a peptide in an x-ray density map?
> Or is about contacts between peptide and protein atomic models (PDB
> > Is there any way to reconstruct x-ray structure data with the right
> > peptide binding information?
> I don't understand this question. Can you provide more details.
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the Chimera-users