Checker searches for overlapping bonds: bonds crossing each other or bonds closer to each other than the set minimal value.
Fixer offers cleaning the structure by:
2D clean or (
partial clean (
|Overlapping Bonds Checker (
|Detect Overlapping Bonds||ex_overlappingbonds_ch||ex_overlappingbonds_f|
Note : Bridged polycycles are cleaned as far as their structure allows it, and the overlapping bonds warning will remain.