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> I have a question of SSM in Coot. > When I superimpose two related molecules with SSM in Coot, I got a > very good superimpose. However, I can not find Q score, RMSD in X11 > terminal. All I got is only the last section of all the results. That > is, I can not scroll up the earlier sections. Sounds like you need more lines in you scroll buffer (the rmsd is written out, I don't remember anything about the Q score). xterm -sl 2000 Edit -> Profiles... -> Default -> Edit -> Scrolling -> Scrollback 2000 > Then I use SSM web > server (www.ebi.ac.uk/msd-srv/ssm) to get the detailed section. I > found chain A and chain B RMSD, Q score, etc. However, there is no > overal Q score, RMSD value for the whole comparison. > Does anyone knows how can I get the overal Q score and RMSD? Don't know about that. > Also, I want to know the RMSD of only one region of Ca atoms in the > molecules by lsq script in Coot. I wrote the script below as Coot > manual told me. Yet it did not work. Does anyone know how to run the > script in coot? > simple-lsq-match 86 92 "A" 1 97 103 "A" 0 'CA That looks OK, except for the parantheses: (simple-lsq-match 86 92 "A" 1 97 103 "A" 0 'CA) [before you say it, we know that the LSQ interface would be better with a GUI] Paul.
