python_pdb package

Subpackages

• python_pdb.formats package
  • Submodules
    • python_pdb.formats.pandas module
      • generate_records_from_pandas()
    • python_pdb.formats.pdb module
      • ALT_LOC_RANGE
      • ATOM_NAME_RANGE
      • ATOM_NUMBER_RANGE
      • B_FACTOR_RANGE
      • CHAIN_ID_RANGE
      • CHARGE_RANGE
      • ELEMENT_RANGE
      • INSERT_CODE_RANGE
      • MODEL_SERIAL_RANGE
      • OCCUPANCY_RANGE
      • RECORD_TYPE_RANGE
      • RESIDUE_NAME_RANGE
      • SEQ_ID_RANGE
      • X_POS_RANGE
      • Y_POS_RANGE
      • Z_POS_RANGE
      • format_atom_record()
      • format_model_record()
      • generate_records_from_pdb()
    • python_pdb.formats.residue module
      • AMINO_ACIDS
      • ONE_TO_THREE_CODE
      • THREE_TO_ONE_CODE
      • UnknownResidueError
  • Module contents

Submodules

• python_pdb.aligners module
  • align_entities()
  • align_pandas_structure()
  • align_sequences()
• python_pdb.chemistry module
  • MOLECULAR_WEIGHTS
• python_pdb.comparisons module
  • rmsd()
• python_pdb.entities module
  • Atom
    • Atom.name
    • Atom.number
    • Atom.alt_loc
    • Atom.pos_x
    • Atom.pos_y
    • Atom.pos_z
    • Atom.occupancy
    • Atom.b_factor
    • Atom.element
    • Atom.charge
    • Atom.het_atom
    • Atom.add_child()
    • Atom.children_equal()
    • Atom.copy()
    • Atom.get_children()
    • Atom.position
    • Atom.remove_child()
  • Chain
    • Chain.name
    • Chain.add_residue()
    • Chain.copy()
    • Chain.get_residues()
    • Chain.remove_residue()
  • Entity
    • Entity.children
    • Entity.parent
    • Entity.add_child()
    • Entity.children_equal()
    • Entity.get_children()
    • Entity.get_coordinates()
    • Entity.remove_child()
  • Model
    • Model.serial_number
    • Model.add_chain()
    • Model.copy()
    • Model.get_chains()
    • Model.remove_chain()
  • Residue
    • Residue.name
    • Residue.seq_id
    • Residue.insert_code
    • Residue.add_atom()
    • Residue.copy()
    • Residue.get_atoms()
    • Residue.olc
    • Residue.remove_atom()
    • Residue.tlc
  • Structure
    • Structure.add_model()
    • Structure.copy()
    • Structure.dehydrate()
    • Structure.from_pandas()
    • Structure.from_pdb()
    • Structure.get_models()
    • Structure.remove_model()
    • Structure.remove_non_amino_acids()
    • Structure.split_states()
    • Structure.to_pandas()
  • StructureConstructionWarning
• python_pdb.parsers module
  • parse_pdb()
  • parse_pdb_to_pandas()
  • stringify_structure()
• python_pdb.records module
  • AtomRecord
    • AtomRecord.record_type
  • EndModelRecord
    • EndModelRecord.record_type
  • HetAtomRecord
    • HetAtomRecord.record_type
  • ModelRecord
    • ModelRecord.serial_number
    • ModelRecord.record_type
    • ModelRecord.serial_number
  • ParticleRecord
    • ParticleRecord.alt_loc
    • ParticleRecord.atom_name
    • ParticleRecord.atom_num
    • ParticleRecord.b_factor
    • ParticleRecord.chain_id
    • ParticleRecord.charge
    • ParticleRecord.element
    • ParticleRecord.insert_code
    • ParticleRecord.occupancy
    • ParticleRecord.res_name
    • ParticleRecord.seq_id
    • ParticleRecord.x_pos
    • ParticleRecord.y_pos
    • ParticleRecord.z_pos
  • Record

Module contents