Peter,

Using a "." (dot) at the end of the alignment ensures that the ligand (or any un-recognized het atoms are included in the model. Please look at the manual for residue type specifications.

Eswar.

--- Eswar Narayanan, Ph.D Mission Bay Genentech Hall 600 16th Street, Suite N474Q University of California, San Francisco San Francisco, CA 94143-2240 (CA 94158 for courier) Tel +1 (415) 514-4233; Fax +1 (415) 514-4231 http://www.salilab.org/~eashwar

-----Original Message----- From: modeller_usage-bounces@salilab.org [mailto:modeller_usage-bounces@salilab.org] On Behalf Of Peter Haebel Sent: Friday, November 14, 2003 4:46 AM To: modeller_usage@salilab.org Subject: [modeller_usage] fix ligand atom positions during modelling

Hi there,

i would like to build a homology model of a protein-ligand complex. how can I fix the position of my ligand?

kind regards,

peter