Amide
=====

.. currentmodule:: mbuild_polybuild.aa_functional_groups.amide

mbuild_polybuild.aa_functional_groups.amide.Amide

.. autoclass:: Amide
   :members:
   :show-inheritance:

   
   
   
      .. autosummary::
         :toctree:
      
         Amide.box
         Amide.center
         Amide.charge
         Amide.element
         Amide.mass
         Amide.maxs
         Amide.mins
         Amide.n_bonds
         Amide.n_direct_bonds
         Amide.n_particles
         Amide.periodicity
         Amide.pos
         Amide.root
         Amide.xyz
         Amide.xyz_with_ports
   
   

   
      .. autosummary::
         :toctree:
      
         Amide.add
         Amide.add_bond
         Amide.all_ports
         Amide.ancestors
         Amide.available_ports
         Amide.bonds
         Amide.check_for_overlap
         Amide.condense
         Amide.direct_bonds
         Amide.energy_minimize
         Amide.flatten
         Amide.freud_generate_bonds
         Amide.from_gmso
         Amide.from_parmed
         Amide.from_pybel
         Amide.from_trajectory
         Amide.generate_bonds
         Amide.get_boundingbox
         Amide.get_smiles
         Amide.is_independent
         Amide.min_periodic_distance
         Amide.particles
         Amide.particles_by_element
         Amide.particles_by_name
         Amide.particles_in_range
         Amide.print_hierarchy
         Amide.referenced_ports
         Amide.remove
         Amide.remove_bond
         Amide.reset_labels
         Amide.rotate
         Amide.rotate_dihedral
         Amide.save
         Amide.spin
         Amide.successors
         Amide.to_freud
         Amide.to_gmso
         Amide.to_hoomdsnapshot
         Amide.to_intermol
         Amide.to_networkx
         Amide.to_parmed
         Amide.to_pybel
         Amide.to_rdkit
         Amide.to_smiles
         Amide.to_trajectory
         Amide.translate
         Amide.translate_to
         Amide.update_coordinates
         Amide.visualize