Module _protocols_loops_
Classes
EXCN_Loop_not_closed
EXCN_Loop_not_closedAP
EXCN_Loop_not_closedCAP
FoldTreeFromLoops
FoldTreeFromLoopsAP
FoldTreeFromLoopsCAP
FoldTreeFromLoopsCreator
FoldTreeFromLoopsCreatorAP
FoldTreeFromLoopsCreatorCAP
GuardedLoopsFromFile
GuardedLoopsFromFileAP
GuardedLoopsFromFileCAP
JSONFormattedLoopsFileReader
JSONFormattedLoopsFileReaderAP
JSONFormattedLoopsFileReaderCAP
Loop
LoopAP
LoopCAP
LoopConfiguration
LoopFromFileData
LoopFromFileDataAP
LoopFromFileDataCAP
LoopMoverFactory
LoopMoverFactoryAP
LoopMoverFactoryCAP
Loop_lt
Loop_ltAP
Loop_ltCAP
Loops
LoopsAP
LoopsCAP
LoopsFileData
LoopsFileDataAP
LoopsFileDataCAP
LoopsFileFallbackConfiguration
LoopsFileFallbackConfigurationAP
LoopsFileFallbackConfigurationCAP
LoopsFileFallbackConfigurationCreator
LoopsFileFallbackConfigurationCreatorAP
LoopsFileFallbackConfigurationCreatorCAP
LoopsFileIO
LoopsFileIOAP
LoopsFileIOCAP
LoopsFileLoader
LoopsFileLoaderAP
LoopsFileLoaderCAP
LoopsFileLoaderCreator
LoopsFileLoaderCreatorAP
LoopsFileLoaderCreatorCAP
LoopsFileOptions
LoopsFileOptionsAP
LoopsFileOptionsCAP
LoopsFileOptionsCreator
LoopsFileOptionsCreatorAP
LoopsFileOptionsCreatorCAP
PoseNumberedLoopFileReader
PoseNumberedLoopFileReaderAP
PoseNumberedLoopFileReaderCAP
RationalLoopComparator
RationalLoopComparatorAP
RationalLoopComparatorCAP
ResidueIdentifier
ResidueIndexDescription
ResidueIndexDescriptionAP
ResidueIndexDescriptionCAP
ResidueIndexDescriptionFromFile
ResidueIndexDescriptionFromFileAP
ResidueIndexDescriptionFromFileCAP
SerializedLoop
SerializedLoopAP
SerializedLoopCAP
SingletonBase_T_protocols_loops_LoopMoverFactory_T
SingletonBase_T_protocols_loops_LoopMoverFactory_TAP
SingletonBase_T_protocols_loops_LoopMoverFactory_TCAP
__CPP_FoldTreeFromLoopsCreator__
__CPP_FoldTreeFromLoops__
__CPP_Loop__
__CPP_LoopsFileFallbackConfigurationCreator__
__CPP_LoopsFileFallbackConfiguration__
__CPP_LoopsFileLoaderCreator__
__CPP_LoopsFileLoader__
__CPP_LoopsFileOptionsCreator__
__CPP_LoopsFileOptions__
Functions
addScoresForLoopParts
add_coordinate_constraints_to_pose
add_cutpoint_variants
add_loop_flank_residues_bb_to_movemap
add_single_cutpoint_variant
apply_sequence_mapping
ccd_close_loops
compute_ss_regions
define_scorable_core_from_secondary_structure
extend_sequence_mapping
extract_continuous_chunks
extract_secondary_structure_chunks
filter_loop_neighbors_by_distance
find_non_protein_chunks
fix_with_coord_cst
fold_tree_from_loops
get_cen_scorefxn
get_fa_scorefxn
get_tenA_neighbor_residues
has_severe_pep_bond_geom_issues
idealize_loop
loop_local_rmsd
loop_rmsd
loop_rmsd_with_superimpose
loop_rmsd_with_superimpose_core
loopfinder
loops_around_residues
loops_from_string
loops_set_move_map
move_map_from_loop
move_map_from_loops
native_loop_core_CA_rmsd
read_loop_fragments
remove_cutpoint_variants
remove_missing_density
remove_short_chunks
remove_small_gaps
safe_set_extended_torsions_and_idealize_loops
select_loop_frags
select_loop_residues
set_extended_torsions
set_extended_torsions_and_idealize_loops
set_loop_cutpoint_in_pose_fold_tree
set_move_map_for_centroid_loop
set_secstruct_from_dssp
set_secstruct_from_psipred_ss2
set_single_loop_fold_tree
split_by_ca_ca_dist
split_by_resSeq
trim_back_sequence_mapping
validate_loop_start_stop
Variables
__package__
chainID
cut_point
extend
extras
iCode
number_of_configuration_keywords
number_of_residue_identifiers
resSeq
skip_rate
start
stop
use_pose_numbering
[
hide private
]