Overlapping Bonds

  • 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:

    1. 2D clean or (clean);

    2. partial clean (partialclean).

Example :

Overlapping Bonds Checker (overlappingBonds)

Warning:

Fix

Clean (clean)

Detect Overlapping Bonds

images/download/attachments/1806474/ex_overlappingbonds_ch.png
ex_overlappingbonds_ch

images/download/attachments/1806474/ex_overlappingbonds_f.png
ex_overlappingbonds_f

Note : Bridged polycycles are cleaned as far as their structure allows it, and the overlapping bonds warning will remain.