| Interface | Description | 
|---|---|
| ModifiedCompound | Root interface for all modifications in structure. | 
| Class | Description | 
|---|---|
| ModifiedCompoundImpl | |
| ProteinModificationIdentifier | Identify attachment modification in a 3-D structure. | 
| StructureAtom | Everything that is needed to uniquely describe a atom. | 
| StructureAtomLinkage | |
| StructureGroup | Information of a group (residue or ligand) involved in a modification. | 
| StructureUtil | 
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