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Rosetta
2021.16
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Rosetta
2021.16
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set an atom as polymer connection More...
#include <PatchOperation.hh>
Public Member Functions | |
| SetPolymerConnectAtom (std::string const &atom_name_in, std::string const &upper_lower_in) | |
| constructor the type of connection is "LOWER" or "UPPER" More... | |
| bool | apply (MutableResidueType &rsd) const override |
| set an atom in ResidueType rsd as a polymer connection atom More... | |
| bool | changes_connections_on (ResidueType const &rsd_type, std::string const &atom) const override |
| Can this case change connections for the atom on the residue? More... | |
| std::string | name () const override |
| Return the name of this PatchOperation ("SetPolymerConnectAtom"). More... | |
 Public Member Functions inherited from core::chemical::PatchOperation | |
| ~PatchOperation () override | |
| Automatically generated virtual destructor for class deriving directly from VirtualBase. More... | |
| virtual utility::vector1 < std::string > | adds_atoms () |
| Which atom(s), if any, is/are added. Used for fast matching of ResidueType/Patches to PDB residues. More... | |
| virtual std::string | deletes_atom () |
| Which atom, if any, is deleted. Used for fast matching of ResidueType/Patches to PDB residues. More... | |
| virtual std::string | adds_property () const |
| Which property, if any, is added. More... | |
| virtual ResidueProperty | adds_property_enum () const |
| Which property, if any, is added. More... | |
| virtual std::string | deletes_property () const |
| Which property, if any, is deleted. More... | |
| virtual ResidueProperty | deletes_property_enum () const |
| Which property, if any, is deleted. More... | |
| virtual std::string | deletes_variant () const |
| Which variant, if any, is deleted. More... | |
| virtual VariantType | deletes_variant_enum () const |
| Which variant, if any, is deleted, by enum. More... | |
| virtual bool | may_change_aa () |
| Generates a new aa. More... | |
| virtual std::string | generates_name3 () |
| Generates name3. More... | |
| virtual std::string | generates_interchangeability_group () |
| Generates interchangeability_group. More... | |
| virtual bool | generates_base_residue_type () const |
| Generates base residue – legacy for D_AA – do not use otherwise. More... | |
| virtual bool | applies_to_placeholder () const |
| Special – does this apply to 'minimal', placeholder types? Generally true, unless updating aa or name3. More... | |
Private Attributes | |
| std::string | atom_name_ |
| int | upper_lower_ |
set an atom as polymer connection
| core::chemical::SetPolymerConnectAtom::SetPolymerConnectAtom | ( | std::string const & | atom_name_in, |
| std::string const & | upper_lower_in | ||
| ) |
constructor the type of connection is "LOWER" or "UPPER"
References upper_lower_.
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overridevirtual |
set an atom in ResidueType rsd as a polymer connection atom
Implements core::chemical::PatchOperation.
References atom_name_, core::chemical::clean_up_dangling_connect(), core::chemical::MutableResidueType::has(), core::chemical::ResidueTypeBase::name(), core::chemical::POLYMER_LOWER, core::chemical::POLYMER_UPPER, core::chemical::MutableResidueType::set_lower_connect_atom(), core::chemical::MutableResidueType::set_upper_connect_atom(), core::chemical::TR_PatchOperations(), and upper_lower_.
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overridevirtual |
Can this case change connections for the atom on the residue?
Reimplemented from core::chemical::PatchOperation.
References core::chemical::ResidueType::atom_index(), atom_name_, and core::chemical::ResidueType::has().
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overridevirtual |
Return the name of this PatchOperation ("SetPolymerConnectAtom").
Implements core::chemical::PatchOperation.
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private |
Referenced by apply(), and changes_connections_on().
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private |
Referenced by apply(), and SetPolymerConnectAtom().
1.8.7