Hi, How big is the gap? Did you try lego_ca, lego_auto_mc or lego_loop in O. They will generate fragments for you to try from its database with good geometries. You can then select the one which you think fits best in the map.
You can also try Xpleo: http://smb.slac.stanford.edu/~vdbedem/ H. van den Bedem, I. Lotan, J.-C Latombe and A.M. Deacon. (2005). Real-Space Protein-Model Completion: an Inverse-Kinematics Approach. Acta Cryst. D61:2-13 Regards, Debanu. -----Original Message----- From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of seglynn Sent: Thursday, October 18, 2007 11:55 AM To: [email protected] Subject: [ccp4bb] Modelling loop conformations Dear CCP4ers, I am attempting to build a short loop section into a low resolution map (4.5A). The electron density is clearly present but the low resolution is making it difficult to fit anything with sensible Ramachandran angles. Does anyone know of a program that will generate a series of potential loop conformations that I can compare against my map so that I can at least start with reasonable geometries? I have already tried the Fit Loop algorithm in COOT without success. Many thanks Steven Glynn
