| Name | Description | Type | Package | Framework |
| Alanine | A class representing the Alanine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Arginine | A class representing the Arginine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Asparagine | A class representing the Asparagine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| AsparticAcid | A class representing the AsparticAcid molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Cysteine | A class representing the Cysteine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| GlutamicAcid | A class representing the GlutamicAcid molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Glutamine | A class representing the Glutamine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Glycine | A class representing the Glycine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Histidine | A class representing the Histidine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Isoleucine | A class representing the Isoleucine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Leucine | A class representing the Leucine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Lysine | A class representing the Lysine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Methionine | A class representing the Methionine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Phenylalanine | A class representing the Phenylalanine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Proline | A class representing the Proline molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Serine | A class representing the Serine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Threonine | A class representing the Threonine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Tryptophan | A class representing the Tryptophan molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Tyrosine | A class representing the Tyrosine molecule. | Class | org.jscience.biology.aminoacids | JScience |
| Valine | A class representing the Valine molecule. | Class | org.jscience.biology.aminoacids | JScience |