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Rosetta
2021.16
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Rosetta
2021.16
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Add a connection to the residue's sulfur and make a virtual proton to track the position of the connection atom. More...
#include <PatchOperation.hh>
Public Member Functions | |
| ConnectSulfurAndMakeVirtualProton () | |
| constructor More... | |
| bool | apply (MutableResidueType &rsd) const override |
| Add a connection to the residue's sulfur and make a virtual proton to track the position of the 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 ("ConnectSulfurAndMakeVirtualProton"). 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... | |
Add a connection to the residue's sulfur and make a virtual proton to track the position of the connection atom.
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inline |
constructor
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overridevirtual |
Add a connection to the residue's sulfur and make a virtual proton to track the position of the connection atom.
Implements core::chemical::PatchOperation.
References core::chemical::AddConnect::apply(), core::chemical::MutableResidueType::atom(), core::chemical::MutableResidueType::atom_base(), core::chemical::MutableResidueType::atom_name(), core::chemical::MutableResidueType::atom_vertex(), core::chemical::MutableResidueType::bonded_hydrogens(), core::chemical::Atom::charge(), core::chemical::ResidueTypeBase::get_disulfide_atom_name(), core::chemical::Atom::is_virtual(), core::chemical::Atom::mm_name(), core::chemical::ResidueTypeBase::name(), core::chemical::MutableResidueType::set_atom_type(), and core::chemical::tr().
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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(), core::chemical::ResidueTypeBase::get_disulfide_atom_name(), and core::chemical::ResidueType::has().
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overridevirtual |
Return the name of this PatchOperation ("ConnectSulfurAndMakeVirtualProton").
Implements core::chemical::PatchOperation.
1.8.7