Miguel wrote:
We have a file representing a protein in a single chain. It contains a set
of common atoms identified by alternate location ' '. There are also some
atoms identified by alternate locations 'A' and 'B'.
There are two separate 'runs' of alternate location atoms. Somewhere near
the beginning of the chain there is a set of 'A' atoms and an alternate
set of 'B' atoms. Somewhere near the end of the chain there is another run
of A/B alternates.
Q: Is it the case that these two separate 'runs' of 'A' alternate
locations are paired together? That is, does one generally think of these
two runs of 'A' altLoc atoms go together?
no, but as a first simplification
(and if they are in deed coupled, hopefully the author may assign the
corresponding altLoc)
Q: Or, is it the case that the first 'A' run and the second 'A' run are
generally considered independent of each other, and that one is just as
likely to couple the first 'A' run with the second 'B' run?
this combinatorial view may be the more realistic
Regards, Jan
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