Hi Rosemary SC has stopped because P is not in its list of atomic radii. This list is located at $CCP4/lib/data/sc_radii.lib You will need to edit this file to add a value for P ( and possibly some of the other atoms in your RNA fragment). The format is fairly self-explanatory, with asterisks being used for wildcards. Alternatively you can use your own dictionary of atomic radii, and specify its location using the SCRADII command e.g. SC XYZIN xxxx.pdb SCRADII mydictionary.lib Norman Stein CCP4 Daresbury Laboratory
________________________________ From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Rosemary Harrison Sent: 27 February 2008 06:11 To: [email protected] Subject: [ccp4bb] SC program in CCP4 - No radius found for residue G atom P Hi, I have been trying to run SC on a pdb file with an RNA fragment. I get the answer below. There appears to be a problem with the P in the RNA backbone. Has anyone else had this problem and/or suggestions to fix it Thanks in advance, Rose Harrison Parameter values ---------------- Dot density : 15.00 per square Angstrom Interface separation : 8.00 Angstroms Trim width : 1.50 Angstroms Probe radius : 1.70 Angstroms Weight factor : 0.50 per square Angstrom No radius found for Residue G Atom P <B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN--> SC: S/r assign_r: no radius for residue/atom SC: S/r assign_r: no radius for residue/atom
