[PyMOL] Fwd: pdb-l: one question about using pymol

[Thomas J. <jue...@gm...>]

This question fits better the pymol list.


---------- Forwarded message ----------
From: 李雅雯 <yay...@ya...>
Date: 16 August 2010 12:31
Subject: pdb-l: one question about using pymol
To: pd...@sd...


Hi, thanks for your attention.

I am using pymol to do structural alignment. Pymol will return this sentence
" ExecutiveRMS: 4 atoms rejected during cycle 1 (RMS=0.34).
ExecutiveRMS: 3 atoms rejected during cycle 2 (RMS=0.27)."
while it returns the RMSD value.

I do not understand what does this mean. why there are two cycles? 4
atoms rejected? does this mean those 4 atoms are not calculated?

Thanks for helping me

Yawen





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