I'm measuring the distance between certain residues in an alignment and I've noticed a discrepancy in the selections returned by the "select within command" and the actual distances measured to the atoms returned by the selection. I was wondering if maybe somebody knew where I was going wrong.
24 CYS CA 5.15101623535 25 ASP CA 3.34501266479 26 THR CA 6.03605747223 47 GLU CA 3.80576062202 48 TRP CA 3.85521435738 49 LEU CA 4.28281402588
I'm just a little confused about why atoms that are further than 5 angstroms away from the atom I specified in the select command are returned. Is there some difference in the way "select within" and "cmd.distance", or have a confused some of the commands?