Hey Warren, world,
I want to make sure that I understand the output from the align command
correctly. Here is an example:
align (protein1 and name ca), (protein2 and name ca)
Match: read scoring matrix.
Match: assigning 3194 x 3010 pairwise scores.
MatchAlign: aligning residues (3194 vs 3010)...
ExecutiveAlign: 2889 atoms aligned.
ExecutiveRMS: 95 atoms rejected during cycle 1 (RMS=6.10).
ExecutiveRMS: 152 atoms rejected during cycle 2 (RMS=2.98).
Does this mean that in the end, 2642 atoms (2889 - 95 - 152) are
aligned? Or are 2889 atoms aligned?
Thanks
Andreas
--
Andreas Förster
Dept of Biochem, Univ of Utah, 20N 1900E, #2460 Eccles Bldg.
Salt Lake City, UT 84132, phone: 001.801.585.3919
home: 465 3rd Av, SLC, UT 84103, 001.801.364.0529
http://www.biochem.utah.edu/~andreas
