Pseudo Atom

• Checker searches for pseudo atoms in the molecule. A list of excluded atom labels can be specified, the checker will not find (and fix) pseudo atoms with labels that are indicated in this list.

• Fixer offers:

  1. converting to abbreviated group if the name is in the abbreviated group list (e.g., Et for ethyl) * (pseudotogroup);

  2. converting to carbon atom (converttocarbon);

  3. deleting atom (removeatom).

  Example :

  Pseudo Atom Checker (pseudoatom)	Warning:	Fix
  		Convert Pseudo Atom to Group (pseudotogroup)	Convert to Carbon (converttocarbon)	Delete Atom (removeatom)
  Detect Pseudo Atom	ex_pseudo_ch	not available	ex_pseudo_f	ex_pseudo_f
  Detect Pseudo Atom	ex_pseudo_ch	ex_pseudo_f	ex_pseudo_f	ex_pseudo_f
  Detect Pseudo Atom with excluded list(pseudoatom:excluded='PG')

^* Note : User defined abbreviated groupsare also available to be applied as recognizable abbreviated group set.