| atomdeps | Atom parameters and definitions for side chains |
| atomtype | Atom Type Table |
| calCo | Calculate Cartesian coordinates for 1-4 bonded atoms |
| calscco | Calculate Cartesian coordinates of side chains |
| dfireE | DFIRE Energy Evaluation for Protein Conformations |
| nat879 | Sample Protein Conformation 1 |
| pdbrmsd | Root Mean Squared Deviation (RMSD) of Two Protein... |
| pred879 | Sample Protein Conformation 2 |
| torsion | Calculate dihedral angle formed by four atoms |
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