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protocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helper Member List

This is the complete list of members for protocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helper, including all inherited members.

add_angle_constraints(core::pose::Pose &pose, utility::vector1< core::Size > const &res_indices, core::Size const i, core::Size const j) const overrideprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperprotectedvirtual
add_dihedral_constraint_to_stream(std::stringstream &cststream, core::pose::Pose const &pose, utility::vector1< core::Size > const &res_indices) constprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperprotected
add_dihedral_constraints(core::pose::Pose &pose, utility::vector1< core::Size > const &res_indices) const overrideprotocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helperprotectedvirtual
add_linker_asymmetric(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
add_linker_bonds_asymmetric(core::pose::Pose &pose, utility::vector1< core::Size > const &res_indices, core::Size const linker_index) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
add_linker_bonds_symmetric(core::pose::Pose &pose, core::Size const res1, core::Size const linker_index1, core::Size const linker_index2) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
add_linker_constraints_asymmetric(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
add_linker_constraints_symmetric(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection, bool const linker_was_added) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
add_linker_symmetric(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
check_compatible_symmetry_type() const overrideprotocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helperprotectedvirtual
check_residue_indices_valid(utility::vector1< core::Size > const &indices, core::pose::Pose const &pose) const overrideprotocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helperprotectedvirtual
CrosslinkerMoverHelper()protocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelper
CrosslinkerMoverHelper(CrosslinkerMoverHelper const &src)protocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelper
filter_by_constraints_energy(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &selection, bool const symmetric, bool const linker_was_added, core::Real const &filter_multiplier) constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelperprotectedvirtual
filter_by_constraints_energy_asymmetric(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &selection, core::Real const &filter_multiplier) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
filter_by_constraints_energy_symmetric(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &selection, bool const linker_was_added, core::Real const &filter_multiplier) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
filter_by_sidechain_distance_asymmetric(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &selection, core::Real const &filter_multiplier) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
filter_by_sidechain_distance_symmetric(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &selection, core::Real const &filter_multiplier) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
get_linker_index_asymmetric(core::pose::Pose const &pose, utility::vector1< core::Size > const &res_indices) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
get_linker_indices_symmetric(core::pose::Pose const &pose, utility::vector1< core::Size > const &res_indices, utility::vector1< core::Size > &linker_indices) const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBasevirtual
get_sidechain_indices(core::select::residue_selector::ResidueSubset const &selection, utility::vector1< core::Size > &res_indices) constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelpervirtual
helper_adds_linker_residue() const overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBaseinlinevirtual
ideal_bond_length(Metal_HelperBase_Metal const metal_type, Metal_HelperBase_MetalLigand const ligand_type) const overrideprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperprotectedvirtual
is_allowed_type(core::chemical::ResidueType const &type) const overrideprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperprotectedvirtual
is_pyramidal() constprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperinlineprotected
is_pyramidal_protocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperprivate
liganding_atom_from_restype(core::chemical::ResidueType const &restype) constprotocols::cyclic_peptide::crosslinker::Metal_HelperBaseprotected
Metal_HelperBase(std::string const &metal_name_in="Zn")protocols::cyclic_peptide::crosslinker::Metal_HelperBase
Metal_HelperBase(Metal_HelperBase const &src)protocols::cyclic_peptide::crosslinker::Metal_HelperBase
metal_type_protocols::cyclic_peptide::crosslinker::Metal_HelperBaseprivate
metal_type_enum_from_string(std::string const &metal_type_string) constprotocols::cyclic_peptide::crosslinker::Metal_HelperBaseprotected
metal_type_string() constprotocols::cyclic_peptide::crosslinker::Metal_HelperBase
metal_type_string_from_enum(Metal_HelperBase_Metal const metal_type) constprotocols::cyclic_peptide::crosslinker::Metal_HelperBaseprotected
post_relax_round_update_steps(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection, bool const whole_structure, bool const symmetric, bool const linker_was_added) constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelpervirtual
pre_relax_round_update_steps(core::pose::Pose &pose, core::select::residue_selector::ResidueSubset const &selection, bool const whole_structure, bool const symmetric, bool const linker_was_added) constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelpervirtual
provide_citation_info(basic::citation_manager::CitationCollectionList &citations) const overrideprotocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helpervirtual
selection_is_symmetric(core::select::residue_selector::ResidueSubset const &selection, core::pose::Pose const &pose, core::Size const expected_subunit_count) constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelpervirtual
set_metal_bond_length(core::pose::Pose &pose, core::Size const res_index) constprotocols::cyclic_peptide::crosslinker::Metal_HelperBaseprotected
set_metal_type_from_name(std::string const &name_in)protocols::cyclic_peptide::crosslinker::Metal_HelperBase
set_pyramidal(bool const setting)protocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helperinlineprotected
set_symmetry(char const symm_type_in, core::Size const symm_count_in)protocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelper
SquarePlanarMetal_Helper(std::string const &metal_name_in="Zn")protocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helper
SquarePlanarMetal_Helper(SquarePlanarMetal_Helper const &src)protocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helper
SquarePyramidalMetal_Helper(std::string const &metal_name_in="Zn")protocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helper
SquarePyramidalMetal_Helper(SquarePyramidalMetal_Helper const &src)protocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helper
symm_count() constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelperinlineprotected
symm_count_protocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelperprivate
symm_subunits_expected() constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelper
symm_type() constprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelperinlineprotected
symm_type_protocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelperprivate
~CrosslinkerMoverHelper() overrideprotocols::cyclic_peptide::crosslinker::CrosslinkerMoverHelper
~Metal_HelperBase() overrideprotocols::cyclic_peptide::crosslinker::Metal_HelperBase
~SquarePlanarMetal_Helper() overrideprotocols::cyclic_peptide::crosslinker::SquarePlanarMetal_Helper
~SquarePyramidalMetal_Helper() overrideprotocols::cyclic_peptide::crosslinker::SquarePyramidalMetal_Helper