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protocols::enzdes::EnzdesFlexibleRegion Member List

This is the complete list of members for protocols::enzdes::EnzdesFlexibleRegion, including all inherited members.

_static_type_name()core::fragment::Framestatic
add_fragment(FragDataOP new_frag)core::fragment::Frame
add_fragment(FragDataList new_frags)core::fragment::Frame
align(core::id::SequenceMapping const &map)core::fragment::Framevirtual
apply(kinematics::MoveMap const &, core::Size frag_num, pose::Pose &pose) const core::fragment::Frame
apply(core::Size frag_num, pose::Pose &pose) const core::fragment::Frame
apply_ranked_fragment(core::pose::Pose &pose, core::Size frag_rank)protocols::enzdes::EnzdesFlexibleRegion
apply_ss(kinematics::MoveMap const &, core::Size frag_num, std::string &ss) const core::fragment::Frame
assemble_enzdes_fragdata(core::pose::Pose const &pose)protocols::enzdes::EnzdesFlexibleRegion
cache(std::string tag, BaseCacheUnitOP const &new_cache) const core::fragment::Frame
calculate_rotamer_set_design_targets_partition_sum(core::pose::Pose const &pose, core::scoring::ScoreFunctionCOP scorefxn, core::pack::task::PackerTaskCOP task) const protocols::enzdes::EnzdesFlexibleRegion
clear()core::fragment::Frame
clone() const core::fragment::Framevirtual
clone_cache_data(Frame const &source, core::Size sid, core::Size nid)core::fragment::Frame
clone_with_frags()core::fragment::Framevirtual
clone_with_template()core::fragment::Framevirtual
compare_SizeRealPairs(SizeRealPair const &first, SizeRealPair const &second)protocols::enzdes::EnzdesFlexibleRegioninlinestatic
contains_catalytic_res() const protocols::enzdes::EnzdesFlexibleRegion
contains_seqpos(core::Size seqpos) const core::fragment::Frame
declare_remodelable(core::Size min_length, core::Size max_length)protocols::enzdes::EnzdesFlexibleRegion
deltaE_best(core::Size const frag_rank) const protocols::enzdes::EnzdesFlexibleRegion
design_targets_protocols::enzdes::EnzdesFlexibleRegionprivate
desired_remodel_ss_strings_protocols::enzdes::EnzdesFlexibleRegionprivate
end() const core::fragment::Frame
enz_loop_info() const protocols::enzdes::EnzdesFlexibleRegion
enzdes_protocol_protocols::enzdes::EnzdesFlexibleRegionprivate
EnzdesFlexibleRegion(core::Size index_in, core::Size start, core::Size end, core::Size nr_res, core::pose::Pose const &pose, EnzdesFlexBBProtocolCAP enz_prot)protocols::enzdes::EnzdesFlexibleRegion
examine_new_loopconf(core::pose::Pose const &pose, core::pose::Pose &template_pose, utility::vector1< core::pose::PoseOP > &compare_poses, utility::vector1< core::Real > &rmsd_to_native)protocols::enzdes::EnzdesFlexibleRegion
extract_lig_designability_score(core::pose::Pose const &pose, core::pack::task::PackerTaskCOP task, core::Real &backgroundE)protocols::enzdes::EnzdesFlexibleRegion
frag_designabilities_protocols::enzdes::EnzdesFlexibleRegionprivate
frag_id(core::Size frag_num) const core::fragment::Frame
fragment(core::Size frag_num) const core::fragment::Frame
fragment(core::Size frag_num)core::fragment::Frame
fragment_as_pose(core::Size frag_num, pose::Pose &pose, chemical::ResidueTypeSetCAP restype_set) const core::fragment::Frame
fragment_ptr(core::Size frag_num) const core::fragment::Frame
fragment_ptr(core::Size frag_num)core::fragment::Frame
Frame()core::fragment::Frame
Frame(core::Size begin, core::Size end, core::Size nr_res)core::fragment::Frame
Frame(core::Size start, core::Size length)core::fragment::Frame
Frame(core::Size start)core::fragment::Frame
Frame(core::Size start, FragDataOP frag1)core::fragment::Frame
Frame(core::Size start, core::Size length, SingleResidueFragDataOP srfd)core::fragment::Frame
generate_sub_frame(Size length, Size start=1)core::fragment::Frame
get_12A_neighbors(core::pose::Pose const &pose)protocols::enzdes::EnzdesFlexibleRegionprotected
get_region_mm_bend_score(core::pose::Pose const &pose) const protocols::enzdes::EnzdesFlexibleRegion
get_region_total_score(core::pose::Pose const &pose) const protocols::enzdes::EnzdesFlexibleRegion
hack_fillup_frag_designabilities()protocols::enzdes::EnzdesFlexibleRegion
index() const protocols::enzdes::EnzdesFlexibleRegioninline
index_protocols::enzdes::EnzdesFlexibleRegionprivate
init_length(core::Size start, core::Size end, core::Size length)core::fragment::Frameprotected
is_applicable(kinematics::MoveMap const &) const core::fragment::Frame
is_compatible(FragDataCOP new_frag) const core::fragment::Frameprotectedvirtual
is_continuous() const core::fragment::Framevirtual
is_mergeable(Frame const &other) const core::fragment::Frame
is_valid() const core::fragment::Frame
length() const core::fragment::Frame
merge(Frame const &other)core::fragment::Frame
minimize_region(core::pose::Pose &pose, core::scoring::ScoreFunctionCOP scorefxn, std::set< core::Size > const &chi_to_move, bool const including_CA_angles, core::Real min_tolerance)protocols::enzdes::EnzdesFlexibleRegion
moves_residue(core::Size pos) const core::fragment::Framevirtual
native_conf_protocols::enzdes::EnzdesFlexibleRegionprivate
no_ranked_frags() const protocols::enzdes::EnzdesFlexibleRegioninline
nr_frags() const core::fragment::Frame
nr_res_affected(kinematics::MoveMap const &mm) const core::fragment::Frame
positions()protocols::enzdes::EnzdesFlexibleRegioninline
positions_protocols::enzdes::EnzdesFlexibleRegionprivate
read(std::istream &in)core::fragment::Framevirtual
remap_resid(core::pose::Pose const &pose, core::id::SequenceMapping const &smap)protocols::enzdes::EnzdesFlexibleRegion
remodel_max_length() const protocols::enzdes::EnzdesFlexibleRegioninline
remodel_max_length_protocols::enzdes::EnzdesFlexibleRegionprivate
remodel_min_length() const protocols::enzdes::EnzdesFlexibleRegioninline
remodel_min_length_protocols::enzdes::EnzdesFlexibleRegionprivate
remodelable() const protocols::enzdes::EnzdesFlexibleRegioninline
remodelable_protocols::enzdes::EnzdesFlexibleRegionprivate
scale_target_proximity_to_other_conformations(core::Real factor)protocols::enzdes::EnzdesFlexibleRegioninline
scale_target_proximity_to_starting_conformation(core::Real factor)protocols::enzdes::EnzdesFlexibleRegioninline
seqpos(core::Size intra_pos) const core::fragment::Framevirtual
set_target_proximity_to_starting_conformation(core::Real proximity)protocols::enzdes::EnzdesFlexibleRegioninline
shift_to(core::Size setting)core::fragment::Frame
show(std::ostream &out) const core::fragment::Framevirtual
show_classic(std::ostream &out) const core::fragment::Framevirtual
show_fragments(std::ostream &out) const core::fragment::Frameprotectedvirtual
show_header(std::ostream &out) const core::fragment::Framevirtual
SizeRealPair typedefprotocols::enzdes::EnzdesFlexibleRegionprivate
sort_ensemble_by_designability(core::pose::Pose const &ref_pose, core::scoring::ScoreFunctionOP scorefxn, core::pack::task::PackerTaskCOP task)protocols::enzdes::EnzdesFlexibleRegion
start() const core::fragment::Frame
steal(pose::Pose const &pose)core::fragment::Frame
stop() const core::fragment::Frame
Super typedefprotocols::enzdes::EnzdesFlexibleRegionprivate
target_proximity_to_native_conformation_protocols::enzdes::EnzdesFlexibleRegionprivate
target_proximity_to_other_conformations_protocols::enzdes::EnzdesFlexibleRegionprivate
twelve_A_neighbors_protocols::enzdes::EnzdesFlexibleRegionprivate
type() const core::fragment::Framevirtual
~EnzdesFlexibleRegion()protocols::enzdes::EnzdesFlexibleRegion
~Frame()core::fragment::Framevirtual