protocols::ub_e2c::ubi_e2c_modeler Member List

This is the complete list of members for protocols::ub_e2c::ubi_e2c_modeler, including all inherited members.

all_dof_map_	protocols::ub_e2c::ubi_e2c_modeler	private
applied_fullatom_pert_	protocols::ub_e2c::ubi_e2c_modeler	private
apply(core::pose::Pose &pose_in) override	protocols::ub_e2c::ubi_e2c_modeler	virtual
assign_CSPs(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
assign_non_CSPs(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
CA	protocols::ub_e2c::ubi_e2c_modeler	private
calc_interaction_energy(const core::pose::Pose &pose_in, bool dimer=true)	protocols::ub_e2c::ubi_e2c_modeler
calc_Lrmsd(const core::pose::Pose &pose_in, const core::pose::Pose &native_pose, core::Size ubiquitin)	protocols::ub_e2c::ubi_e2c_modeler
cen_constraint_	protocols::ub_e2c::ubi_e2c_modeler	private
cen_vdw_	protocols::ub_e2c::ubi_e2c_modeler	private
centroid_allowed_CSP_fraction_	protocols::ub_e2c::ubi_e2c_modeler	private
centroid_CSP_weight_	protocols::ub_e2c::ubi_e2c_modeler	private
centroid_filter(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
centroid_mode_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
centroid_non_CSP_weight_	protocols::ub_e2c::ubi_e2c_modeler	private
clear_info()	protocols::moves::Mover	inlinevirtual
clone() const override	protocols::ub_e2c::ubi_e2c_modeler	virtual
compute_swap_trim_CSPs()	protocols::ub_e2c::ubi_e2c_modeler	private
compute_trim_CSPs()	protocols::ub_e2c::ubi_e2c_modeler	private
cov_bond_only_flag_	protocols::ub_e2c::ubi_e2c_modeler	private
create()	protocols::moves::Mover	virtual
CSP_	protocols::ub_e2c::ubi_e2c_modeler	private
CSP_fraction(const core::pose::Pose &pose_in, bool non_CSP=false, bool trim=false, bool swap=false)	protocols::ub_e2c::ubi_e2c_modeler
CSP_swap_trim_	protocols::ub_e2c::ubi_e2c_modeler	private
CSP_trim_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_48_lys_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_75g_mtsl_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_ctr_of_mass_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_end_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_trim_ctr_mass_	protocols::ub_e2c::ubi_e2c_modeler	private
d77_trim_end_	protocols::ub_e2c::ubi_e2c_modeler	private
dock_lowres_cst_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
dock_lowres_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
dockfa_cst_min_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
dockfa_cst_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
dockfa_min_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
dockfa_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
e2_ctr_of_mass_	protocols::ub_e2c::ubi_e2c_modeler	private
e2_d77_jump_	protocols::ub_e2c::ubi_e2c_modeler	private
e2_end_	protocols::ub_e2c::ubi_e2c_modeler	private
e2_k48r_jump_	protocols::ub_e2c::ubi_e2c_modeler	private
evaluate_native(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
Filters_map typedef	protocols::moves::Mover
flex_cter_	protocols::ub_e2c::ubi_e2c_modeler	private
flex_cter_map_	protocols::ub_e2c::ubi_e2c_modeler	private
fresh_instance() const	protocols::moves::Mover	virtual
full_constraint_	protocols::ub_e2c::ubi_e2c_modeler	private
fullatom_allowed_CSP_fraction_	protocols::ub_e2c::ubi_e2c_modeler	private
fullatom_constraint_cutoff_	protocols::ub_e2c::ubi_e2c_modeler	private
fullatom_CSP_weight_	protocols::ub_e2c::ubi_e2c_modeler	private
fullatom_filter(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
fullatom_mode_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
fullatom_non_CSP_weight_	protocols::ub_e2c::ubi_e2c_modeler	private
get_additional_output()	protocols::moves::Mover	virtual
get_current_job() const	protocols::moves::Mover
get_current_tag() const	protocols::moves::Mover	inline
get_input_pose() const	protocols::moves::Mover
get_last_move_status() const	protocols::moves::Mover
get_name() const override	protocols::ub_e2c::ubi_e2c_modeler	virtual
get_native_pose() const	protocols::moves::Mover
get_self_ptr() const	protocols::moves::Mover	inline
get_self_ptr()	protocols::moves::Mover	inline
get_self_weak_ptr() const	protocols::moves::Mover	inline
get_self_weak_ptr()	protocols::moves::Mover	inline
get_type() const	protocols::moves::Mover	inline
higher_d77_pert_mode_	protocols::ub_e2c::ubi_e2c_modeler	private
info()	protocols::moves::Mover	inlinevirtual
info() const	protocols::moves::Mover	inlinevirtual
init_all_dof_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_d77_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_d77_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
init_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_flex_cter_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_k48r_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_k48r_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
init_monoub_all_dof_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_monoub_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_monoub_flex_cter_map_	protocols::ub_e2c::ubi_e2c_modeler	private
init_task_factory_	protocols::ub_e2c::ubi_e2c_modeler	private
initial_cter_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
initial_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
initial_repack(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
k48r_48_lys_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_48k_mtsl_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_ctr_of_mass_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_end_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_swap_	protocols::ub_e2c::ubi_e2c_modeler	private
k48r_trim_end_	protocols::ub_e2c::ubi_e2c_modeler	private
last_proposal_density_ratio()	protocols::moves::Mover	inlinevirtual
lowres_cst_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
lowres_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
max_k48_cter_dist_	protocols::ub_e2c::ubi_e2c_modeler	private
max_repeats_	protocols::ub_e2c::ubi_e2c_modeler	private
min_tolerance_	protocols::ub_e2c::ubi_e2c_modeler	private
min_type_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_all_dof_map_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_apply(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_assign_CSPs(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_calc_interaction_energy(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_calc_Lrmsd(const core::pose::Pose &pose_in, const core::pose::Pose &native_pose)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_centroid_filter(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_centroid_mode_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_CSP_fraction(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_ctr_of_mass_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_docking_map_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_end_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_first_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_flex_cter_map_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_fold_tree(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_fullatom_filter(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_fullatom_mode_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_initial_cter_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_initial_perturbation(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_mode_	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_setup_key_residues(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler	private
monoub_setup_move_maps()	protocols::ub_e2c::ubi_e2c_modeler	private
Mover()	protocols::moves::Mover
Mover(std::string const &type_name)	protocols::moves::Mover
mover_is_unpublished() const	protocols::moves::Mover	virtual
mover_provides_citation_info() const	protocols::moves::Mover	virtual
name()	protocols::moves::Mover	inlinestatic
nb_list_	protocols::ub_e2c::ubi_e2c_modeler	private
non_CSP_	protocols::ub_e2c::ubi_e2c_modeler	private
non_CSP_swap_trim_	protocols::ub_e2c::ubi_e2c_modeler	private
non_CSP_trim_	protocols::ub_e2c::ubi_e2c_modeler	private
optimize_cov_bond(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
output_cen_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
output_full_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
pack_cst_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
pack_scorefxn_	protocols::ub_e2c::ubi_e2c_modeler	private
parse_my_tag(TagCOP tag, basic::datacache::DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose)	protocols::moves::Mover	virtual
passed_centroid_filter_	protocols::ub_e2c::ubi_e2c_modeler	private
passed_fullatom_filter_	protocols::ub_e2c::ubi_e2c_modeler	private
Pose typedef	protocols::moves::Mover
PoseCOP typedef	protocols::moves::Mover
provide_authorship_info_for_unpublished() const	protocols::moves::Mover	virtual
provide_citation_info() const	protocols::moves::Mover	virtual
refinement_mode_	protocols::ub_e2c::ubi_e2c_modeler	private
register_options()	protocols::moves::Mover	inlinestatic
reinitialize_for_each_job() const	protocols::moves::Mover	virtual
reinitialize_for_new_input() const	protocols::moves::Mover	virtual
reset_status()	protocols::moves::Mover
restore_cter(core::pose::Pose &pose_in, core::pose::Pose without_cter)	protocols::ub_e2c::ubi_e2c_modeler
restrict_to_interfacial_loop_packing(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
score_map_	protocols::ub_e2c::ubi_e2c_modeler	private
set_current_job(protocols::jobdist::BasicJobCOP job)	protocols::moves::Mover
set_current_tag(std::string const &new_tag)	protocols::moves::Mover	inlinevirtual
set_default()	protocols::ub_e2c::ubi_e2c_modeler
set_e2g2_diubi_fold_tree(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
set_input_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_last_move_status(MoverStatus status)	protocols::moves::Mover	protected
set_native_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_type(std::string const &setting)	protocols::moves::Mover	inline
setup_complex_fold_tree(core::pose::Pose &pose_in, bool trim=false)	protocols::ub_e2c::ubi_e2c_modeler
setup_key_residues(const core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
setup_move_maps()	protocols::ub_e2c::ubi_e2c_modeler
setup_packer_task(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
setup_simple_fold_tree(core::Size jumppoint1, core::Size cutpoint, core::Size jumppoint2, core::Size nres, core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
show(std::ostream &output=std::cout) const	protocols::moves::Mover	virtual
Strings typedef	protocols::moves::Mover
TagCOP typedef	protocols::moves::Mover
temperature_	protocols::ub_e2c::ubi_e2c_modeler	private
test_move(Pose &pose)	protocols::moves::Mover	inlinevirtual
tf_	protocols::ub_e2c::ubi_e2c_modeler	private
trim_cter(core::pose::Pose &pose_in)	protocols::ub_e2c::ubi_e2c_modeler
type(const std::string &type_in)	protocols::moves::Mover	inline
type() const	protocols::moves::Mover	inline
ubi_e2c_modeler()	protocols::ub_e2c::ubi_e2c_modeler
~ubi_e2c_modeler() override	protocols::ub_e2c::ubi_e2c_modeler