Yes, B factors are indeed a super-absorbent sponge for model bias. Best
to re-set those before re-refinement. But you should also do something
with the coordinates, and probably the occupancies too.
My jiffy to add to Graeme's list of options is this script:
http://bl831.als.lbl.gov/~jamesh/
If I've got the site right (the equivalent to Asn833 in your image would
be Asn858 in 3rjo?) then the first thing I'd be checking is if you have
an unmodelled tail or loop that could be interacting here across a
symmetry interface. The dramatic kink in the helix there looks like an
asparagine,
