Hi Miri,
you can do this (and more) using a tool from PHENIX:
phenix.superpose_pdbs [pdb_file_fixed] [pdb_file_moving] [parameter_file]
A couple of examples:
phenix.superpose_pdbs fixed.pdb moving.pdb selection_fixed="chain A and
name CA" selection_moving="chain B and name CA"
phenix.superpose_pdbs fixed.pdb moving.pdb
More details you can find here:
http://www.phenix-online.org/documentation/superpose_pdbs.htm
Please let me know if you have any questions or problems using this tool.
Pavel.
On 1/17/10 10:54 AM, Miri Hirshberg wrote:
Sun., Jan. 17th 2010
EBI
Greetings,
I am looking for a 3D structure superposition program which takes
two structures and superpose them based only on the coordinates X,Y,Z
regardless of of residue/atoms name.
(both files are in PDB format)
Thanks
Miri
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Dr Miri Hirshberg
European Bioinformatics Institute UK
PDBe - EBI -EMBL
http://www.ebi.ac.uk/pdbe
Phone: +44 (0) 1223 492647
FAX: +44 (0) 1223 494468
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