- e -

• e2_ctr_of_mass_ : protocols::ub_e2c::ubi_e2c_modeler
• e2_d77_jump_ : protocols::ub_e2c::ubi_e2c_modeler
• e2_end_ : protocols::ub_e2c::ubi_e2c_modeler
• e2_k48r_jump_ : protocols::ub_e2c::ubi_e2c_modeler
• E_ : core::scoring::methods::carbohydrates::SugarBackboneEnergy
• e_ : protocols::normalmode::NormalMode
• E_elec_ : core::scoring::FACTSResidueInfo
• E_mult_ : protocols::frag_picker::scores::TalosSSSimilarity
• E_solv_ : core::scoring::FACTSResidueInfo
• E_solv_pair_ : core::scoring::FACTSResidueInfo
• E_solv_self_ : core::scoring::FACTSResidueInfo
• eckart_correction_ : protocols::normalmode::NormalMode
• edge1 : protocols::farna::libraries::BasePairType
• edge1_ : core::pose::rna::BasePair
• edge2 : protocols::farna::libraries::BasePairType
• edge2_ : core::pose::rna::BasePair
• edge_ : core::graph::EdgeListElement , core::scoring::rna::data::RNA_Datum , protocols::scoring::methods::pcs::GridSearchIterator , protocols::scoring::methods::pcsTs1::GridSearchIterator_Ts1 , protocols::scoring::methods::pcsTs2::GridSearchIterator_Ts2 , protocols::scoring::methods::pcsTs3::GridSearchIterator_Ts3 , protocols::scoring::methods::pcsTs4::GridSearchIterator_Ts4
• edge_connects_flexsegmate_ : protocols::flexpack::interaction_graph::FlexbbNode
• edge_count : core::kinematics::FoldTree
• edge_file_ : protocols::sewing::AssemblyMover
• edge_index_ : core::pack::interaction_graph::DoubleLazyEdge
• edge_iter_ : core::scoring::constraints::CstResNeighbConstIterator , core::scoring::constraints::CstResNeighbIterator
• edge_list_ : core::graph::Graph , core::kinematics::FoldTree , core::pack::interaction_graph::BackgroundNode< V, E, G >
• edge_list_element_pool_ : core::graph::EdgeList , core::graph::Graph
• edge_matrix_ptrs_ : core::pack::interaction_graph::DensePDNode , core::pack::interaction_graph::FASTERNode , core::pack::interaction_graph::LazyNode , core::pack::interaction_graph::PDNode
• edge_path_ : protocols::sewing::Assembly
• edge_pool_ : core::graph::Graph
• edge_reweighters_ : core::pack::task::IGEdgeReweightContainer
• edge_vector_ : core::pack::interaction_graph::BackgroundNode< V, E, G >
• edge_vector_up_to_date_ : core::pack::interaction_graph::BackgroundNode< V, E, G > , core::pack::interaction_graph::NodeBase
• edge_weight_ : core::pack::interaction_graph::EdgeBase
• edgeList_ : core::sequence::SequenceCoupling
• edgePots_ : core::sequence::SequenceCoupling
• edit_mode : protocols::toolbox::KClusterElement
• ee : protocols::sic_dock::XfoxmScore
• eeval_ : core::fragment::picking_old::concepts::Librarian< Bookmark, ExtentEvaluator, ExtentGenerator, Library >
• effect_ : protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber
• effectiveB : core::scoring::electron_density::ElectronDensity
• Efield_fixed_ : core::scoring::MultipoleElecResidueInfo
• Efield_induced_ : core::scoring::MultipoleElecResidueInfo
• Efield_rf_fixed_ : core::scoring::MultipoleElecResidueInfo
• Efield_rf_induced_ : core::scoring::MultipoleElecResidueInfo
• egen_ : core::fragment::picking_old::concepts::Librarian< Bookmark, ExtentEvaluator, ExtentGenerator, Library >
• egg_and_ext_list_ : protocols::pockets::NonPlaidFingerprint
• eggshell_CoM_ : protocols::pockets::EggshellGrid
• eggshell_coord_list_ : protocols::pockets::EggshellGrid
• eggshell_list_ : protocols::pockets::NonPlaidFingerprint
• Ei_ : core::scoring::FACTSResidueInfo
• EIG_ : core::scoring::ResidualDipolarCoupling
• eigval_ : protocols::normalmode::NormalMode
• eigvec_ : protocols::evaluation::PCA
• eigvec_cart_ : protocols::normalmode::NormalMode
• eigvec_tor_ : protocols::normalmode::NormalMode
• eit_ : core::fragment::ConstantLengthFragSetIterator_
• el : protocols::sic_dock::XfoxmScore
• elec_die_ : core::scoring::methods::EnergyMethodOptions
• elec_group_file_ : core::scoring::methods::EnergyMethodOptions
• elec_max_dis_ : core::scoring::methods::EnergyMethodOptions
• elec_min_dis : core::init::pre_talaris_2013_behavior_settings
• elec_min_dis_ : core::scoring::methods::EnergyMethodOptions
• elec_no_dis_dep_die_ : core::scoring::methods::EnergyMethodOptions
• elec_sigmoidal_D0_ : core::scoring::methods::EnergyMethodOptions
• elec_sigmoidal_D_ : core::scoring::methods::EnergyMethodOptions
• elec_sigmoidal_die_ : core::scoring::methods::EnergyMethodOptions
• elec_sigmoidal_S_ : core::scoring::methods::EnergyMethodOptions
• elecF2_ : core::scoring::FACTSResidueInfo
• ElectricField : protocols::sparta::PDB
• electron_configuration_ : core::chemical::Element
• electrons_ : core::chemical::ElectronConfiguration
• element : core::io::AtomInformation
• element_ : core::chemical::Atom , core::chemical::AtomType , core::chemical::Element , core::chemical::sdf::MolFileIOAtom , core::graph::EdgeListConstIterator , core::graph::EdgeListIterator
• element_index_ : core::chemical::ElementSet
• element_set_ : core::chemical::gasteiger::GasteigerAtomTypeSet
• element_set_tag_ : core::chemical::ResidueLoaderOptions
• element_sets_ : core::chemical::ChemicalManager
• element_type_ : core::chemical::gasteiger::GasteigerAtomTypeData
• elements_ : core::chemical::ElementSet , core::chemical::ResidueType , core::chemical::ResidueTypeSet
• eliminate_background_ : protocols::simple_moves::StructProfileMover
• eliminated_ : protocols::noesy_assign::CrossPeak
• eliminated_due_to_dist_violations_ : protocols::noesy_assign::CrossPeak
• elimination_candidate_ : protocols::noesy_assign::CrossPeak
• elimination_comment_ : protocols::noesy_assign::CrossPeak
• ellipsoid_is_first_partner_ : protocols::docking::EllipsoidalRandomizationMover
• elsefilter_ : protocols::filters::IfThenFilter
• elsevalue_ : protocols::filters::IfThenFilter
• elseweight_ : protocols::filters::IfThenFilter
• elt_ : core::scoring::electron_density::poseCoord
• emap_ : core::scoring::etable::ResResEnergyInvoker< Evaluator >
• embeddings_ : protocols::membrane::geometry::Embedding , protocols::membrane::visualize::VisualizeEmbeddingMover
• Emin_obj_ : protocols::md::MDBase
• EMPTY : protocols::sparta::GDB , protocols::sparta::PDB
• empty_ : protocols::fldsgn::topology::StrandPairingSet , protocols::rpc::BasicCmdLineInit , protocols::toolbox::match_enzdes_util::EnzConstraintParameters
• empty_list : core::conformation::symmetry::SymmetryInfo
• empty_list_ : core::chemical::AutomorphismIterator
• empty_pose_ : protocols::match::output::MatchCollisionFilter
• empty_rsdcst_ : core::scoring::constraints::ConstraintSet
• empty_sfxn_ : protocols::match::output::MatchCollisionFilter
• empty_voxel_color_ : protocols::match::Bool3DGridKinemageWriter
• enable_adapt_graft_cartesian_ : protocols::antibody::design::AntibodyDesignMover
• enable_design_ : protocols::relax::FastRelax
• enable_full_protocol_atom_pair_cst_ : protocols::antibody::design::AntibodyDesignMover
• enable_max_residue_count_ : protocols::simple_filters::ResidueCountFilter
• enable_min_residue_count_ : protocols::simple_filters::ResidueCountFilter
• enabled_ : protocols::dna::PDBOutput
• encounter_ : protocols::surface_docking::FullatomRelaxMover
• encounter_cycle_ : protocols::surface_docking::FullatomRelaxMover
• end : core::fragment::picking_old::concepts::Extent< PageIterator > , core::io::pdb::Field , protocols::features::Segment , protocols::forge::remodel::RemodelWorkingSet
• end1_ : core::scoring::dssp::StrandPairing , protocols::fldsgn::topology::StrandPairing
• end2_ : core::scoring::dssp::StrandPairing , protocols::fldsgn::topology::StrandPairing
• end_ : core::conformation::membrane::Span , core::fragment::Frame , core::graph::EdgeList , core::io::serialization::BUFFER , core::scoring::ResRangePredicate , protocols::anchored_design::Anchor , protocols::antibody::clusters::CDRCluster , protocols::features::helixAssembly::HelicalFragment , protocols::features::strand_assembly::SandwichFragment , protocols::features::strand_assembly::StrandFragment , protocols::fldsgn::topology::SS_Base , protocols::grafting::GraftMoverBase , protocols::grafting::simple_movers::InsertPoseIntoPoseMover , protocols::grafting::simple_movers::KeepRegionMover , protocols::jd2::parser::FragmentReader , protocols::jumping::Interval , protocols::protein_interface_design::movers::TopologyBrokerMover , protocols::simple_filters::GeometryFilter , protocols::simple_filters::RmsdEvaluator , protocols::toolbox::pose_metric_calculators::FragQualCalculator
• end_1_distance : protocols::features::helixAssembly::FragmentPair
• end_2_distance : protocols::features::helixAssembly::FragmentPair
• end_atom_ : protocols::topology_broker::BasicJumpClaimer
• end_atom_list_ : protocols::simple_moves::BBGaussianMover
• end_atomid_ : protocols::backrub::BackrubSegment
• end_bias_ : protocols::simple_moves::ClassicFragmentMover
• end_index_ : protocols::helical_bundle::FitSimpleHelix , protocols::helical_bundle::FitSimpleHelixMultiFunc
• end_label_ : protocols::topology_broker::BasicJumpClaimer
• end_native_ : protocols::protein_interface_design::filters::RmsdFilter
• end_pose_ : protocols::protein_interface_design::filters::RmsdFilter
• end_position_ : protocols::topology_broker::BasicJumpClaimer
• end_rep_weight : protocols::relax::ClassicRelax
• end_res_ : protocols::docking::DockingEnsemble , protocols::indel::IndelOptimizationMover , protocols::loops::loop_closure::kinematic_closure::KinematicMover , protocols::loops::LoopFromFileData , protocols::sewing::AddStartnodeFragments , protocols::simple_moves::bin_transitions::InitializeByBins , protocols::simple_moves::bin_transitions::PerturbByBins , protocols::simple_moves::ReturnSidechainMover , protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger , protocols::toolbox::task_operations::DatabaseThread
• end_time_ : protocols::jd2::Job
• end_weights_ : protocols::moves::RampingMover
• endtime_ : protocols::rpc::JSON_RPC
• energies_ : core::pose::Pose
• energies_are_outdated_ : core::pose::metrics::EnergyDependentCalculator , core::pose::metrics::PoseMetricContainer
• energies_not_yet_computed_ : core::scoring::EnergyEdge
• energies_updated_since_last_prep_for_simA_ : core::pack::interaction_graph::DensePDEdge , core::pack::interaction_graph::DoubleDensePDEdge , core::pack::interaction_graph::FASTEREdge , core::pack::interaction_graph::PDEdge
• energy : protocols::simple_filters::nmer_svm_res_data
• energy_ : core::pack::dunbrack::cenrot::CentroidRotamerSampleData , core::pack::scmin::SidechainStateAssignment , core::scoring::hbonds::HBond , protocols::make_rot_lib::RotData
• energy_array_pool_ : core::scoring::EnergyGraph
• energy_computed_ : core::scoring::constraints::ConstraintEdge
• energy_cut_ : core::import_pose::pose_stream::SilentFilePoseInputStream
• energy_cutoff_ : protocols::protein_interface_design::filters::HbondsToAtomFilter , protocols::protein_interface_design::filters::HbondsToResidueFilter
• ENERGY_DELTA : core::pack::dunbrack::SingleResidueDunbrackLibrary
• energy_drop_counter_ : protocols::moves::TrialCounter
• energy_edge_pool_ : core::scoring::EnergyGraph
• energy_event_link_ : protocols::moves::PyMolObserver , protocols::viewer::SilentObserver
• energy_gap_counter_ : protocols::simple_moves::GenericMonteCarloMover
• energy_graph_ : core::scoring::Energies
• energy_map_ : protocols::toolbox::pose_metric_calculators::EnergiesData
• energy_method_ : protocols::simple_filters::NMerPSSMEnergyFilter , protocols::simple_filters::NMerSVMEnergyFilter
• energy_method_options_ : core::scoring::methods::FreeDOF_Energy , core::scoring::ScoreFunction , core::scoring::ScoreFunctionInfo
• energy_minima_conformers_ : core::chemical::rings::RingConformerSet
• energy_minimum_conformer_ : core::chemical::rings::RingConformerSet
• energy_names_ : core::io::silent::EnergyNames
• energy_obs_hub_ : core::pose::Pose
• energy_reduction_factor_ : protocols::simple_filters::RotamerBoltzmannWeight
• energy_state_ : core::scoring::Energies , core::scoring::methods::PBLifetimeCache
• energy_sum_group_membership_ : core::pack::interaction_graph::InteractionGraphBase
• energy_terms_ : protocols::optimize_weights::OptEData , protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorJobDistributor , protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMPIWorkPoolJobDistributor
• energy_threshold_ : protocols::enzdes::RepackWithoutLigandFilter
• energy_to_beat : protocols::vip::VIP_Mover
• energy_top_ : core::pack::annealer::MultiCoolAnnealer
• energy_type_ : protocols::moves::PyMolMover
• energycut : protocols::relax::ClassicRelax
• energycut_ : protocols::simple_moves::EnergyCutRotamerTrialsMinMover , protocols::simple_moves::EnergyCutRotamerTrialsMover , protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover
• enforce_bb_contiguity_ : protocols::flexpack::interaction_graph::FlexbbInteractionGraph
• enlarge_h_lj_wdepth : core::scoring::etable::EtableOptions
• enlarge_h_lj_wdepth_ : core::scoring::etable::Etable
• enrich_Zscore_cut_ : protocols::mpi_refinement::Scheduler
• ensemble1_ : protocols::docking::DockingEnsemblePrepackProtocol , protocols::docking::DockingProtocol
• ensemble1_filename_ : protocols::docking::DockingEnsemblePrepackProtocol , protocols::docking::DockingProtocol
• ensemble1_mover_ : protocols::docking::DockingLowResEnsemble
• ensemble2_ : protocols::docking::DockingEnsemblePrepackProtocol , protocols::docking::DockingProtocol
• ensemble2_filename_ : protocols::docking::DockingEnsemblePrepackProtocol , protocols::docking::DockingProtocol
• ensemble2_mover_ : protocols::docking::DockingLowResEnsemble
• ensemble_ : protocols::docking::ConformerSwitchMover
• ensemble_ca_rmsd : protocols::simple_moves::ShakeStructureMover
• ensemble_ca_rmsd_tolerance : protocols::simple_moves::ShakeStructureMover
• ensemble_file_path_ : protocols::docking::DockingEnsemble
• ensemble_list_ : protocols::docking::DockingEnsemble
• ensemble_list_cen_ : protocols::docking::DockingEnsemble
• ensemble_size_ : protocols::docking::DockingEnsemble
• ensure_variant_matching_ : protocols::protein_interface_design::movers::SaveAndRetrieveSidechains
• entity_aas_ : protocols::pack_daemon::EntityFunc
• entity_cache_ : protocols::genetic_algorithm::GeneticAlgorithmBase
• entity_funcs_ : protocols::pack_daemon::DynamicAggregateFunction
• entity_funcs_dec_line_ : protocols::pack_daemon::DynamicAggregateFunction
• entity_id_2_resids_ : protocols::pack_daemon::EntityCorrespondence
• entity_length_ : protocols::genetic_algorithm::EntityRandomizer
• entity_randomizer_ : protocols::genetic_algorithm::GeneticAlgorithmBase
• entity_resfile_ : protocols::pack_daemon::DaemonSet
• entity_task_ : protocols::pack_daemon::DaemonSet
• entity_template_ : protocols::genetic_algorithm::EntityRandomizer , protocols::genetic_algorithm::GeneticAlgorithmBase
• Entries : protocols::sparta::GDB
• entries_ : protocols::abinitio::PairingStatistics , protocols::frag_picker::CSTalosIO , protocols::frag_picker::PhiPsiTalosIO
• entropy_ : core::pack::dunbrack::cenrot::SingleResidueCenrotLibrary , core::pack::dunbrack::RotamerLibraryScratchSpace , core::scoring::methods::ProQ_Energy
• entry_2_resid_ : core::scoring::trie::CPDataCorrespondence
• enum_manager_ : protocols::antibody::AntibodyInfo , protocols::antibody::AntibodyNumberingParser
• enum_to_string_ : protocols::antibody::clusters::CDRClusterEnumManager
• enumerate_ : protocols::stepwise::monte_carlo::options::StepWiseMonteCarloOptions
• enumerate_ligand_rotamers_ : protocols::match::MatcherTask
• enumeration_shell_ : core::scoring::FACTSResidueInfo
• env_ : core::scoring::SmoothEnvPairPotential , protocols::environment::EnvClaimBroker , protocols::environment::EnvMover , protocols::environment::ProtectedConformation
• env_dep_low_nneigh_ : core::scoring::elec::FA_ElecEnergy
• env_dep_low_scale_ : core::scoring::elec::FA_ElecEnergy
• env_id_ : core::environment::DofPassport
• env_log_ : core::scoring::EnvPairPotential
• env_pair_potential_ : core::scoring::ScoringManager
• env_potential_ : protocols::scoring::methods::InterchainEnvEnergy , protocols::scoring::methods::InterchainPairEnergy
• env_stats_ : core::scoring::dna::DNA_EnvPairPotential
• envdata_ : core::scoring::methods::EnvSmoothEnergy
• environment_exists_ : protocols::environment::ProtectedConformation
• envsmooth_zero_negatives_ : core::scoring::methods::EnergyMethodOptions
• envsplines_ : core::scoring::CenRotEnvPairPotential
• enz_input_data_ : protocols::match::MatcherTask
• enz_io_ : protocols::toolbox::match_enzdes_util::EnzConstraintParameters
• enz_io_param_ : protocols::toolbox::match_enzdes_util::EnzCstTemplateRes
• enz_loops_file_ : protocols::enzdes::EnzdesFlexBBProtocol , protocols::enzdes::EnzdesJobInputter , protocols::toolbox::match_enzdes_util::EnzdesCacheableObserver
• enz_scofile_ : protocols::enzdes::EnzdesJobOutputter
• enz_template_res_ : protocols::toolbox::match_enzdes_util::MatchConstraintFileInfo
• enzcst_io_ : protocols::enzdes::EnzdesScorefileFilter , protocols::enzdes::RepackLigandSiteWithoutLigandMover , protocols::fldsgn::BluePrintBDR , protocols::forge::constraints::InvrotTreeRCG , protocols::toolbox::match_enzdes_util::EnzdesCstCache , protocols::toolbox::match_enzdes_util::TheozymeInvrotTree
• enzdes_protocol_ : protocols::enzdes::EnzdesFlexibleRegion
• enzloops_ : protocols::toolbox::match_enzdes_util::EnzdesLoopsFile
• Ep : core::scoring::GenBornPotential , core::scoring::MultipoleElecPotential
• ep_cutoff_ : protocols::simple_filters::NMerSVMEnergyFilter
• ep_sasa_for_djs_node_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• epitope_residues_ : protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover , protocols::antibody::design::AntibodyDesignMover
• eps : core::optimization::DFPMinConvergedFractional
• eps_ : protocols::make_rot_lib::MakeRotLibJob
• eps_range_ : protocols::make_rot_lib::MakeRotLibOptionsData
• epsilon_ : core::scoring::etable::Etable , core::scoring::methods::PoissonBoltzmannEnergy , protocols::dna::DNABase , protocols::make_rot_lib::RotData
• epsilon_0_ : protocols::qsar::scoring_grid::ChargeGrid
• epsilon_atom_names_ : core::scoring::dna::DNATorsionPotential
• epsilon_components_ : core::scoring::dna::DNATorsionPotential
• epsilon_north_potential_ : core::scoring::rna::RNA_TorsionPotential
• epsilon_south_potential_ : core::scoring::rna::RNA_TorsionPotential
• epsilonmax : core::pose::rna::RNA_SuiteName
• epsilonmin : core::pose::rna::RNA_SuiteName
• eq_type_ : core::scoring::FACTSPotential
• erraser_ : protocols::stepwise::monte_carlo::options::StepWiseMonteCarloOptions
• error : core::scoring::sc::ShapeComplementarityCalculatorException
• error_ : protocols::noesy_assign::Resonance
• error_out_on_complex_cycles_ : core::scoring::loop_graph::LoopGraph
• esEnergy : core::scoring::APBSResult
• esolvE_ : core::scoring::FACTSResidueInfo
• esp_dim_ : protocols::pockets::NonPlaidFingerprint
• esp_mid_ : protocols::pockets::NonPlaidFingerprint
• esp_spacing_ : protocols::pockets::NonPlaidFingerprint
• espGrid_ : protocols::pockets::ElectrostaticpotentialGrid , protocols::pockets::NonPlaidFingerprint
• espGrid_dim_ : protocols::pockets::ElectrostaticpotentialGrid
• espGrid_mid_ : protocols::pockets::ElectrostaticpotentialGrid
• espGrid_points_list_ : protocols::pockets::ElectrostaticpotentialGrid
• espGrid_spacing_ : protocols::pockets::ElectrostaticpotentialGrid
• etable_ : core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::lkball::LK_BallEnergy , core::scoring::lkball::lkbtrie::LKBTrieEvaluator , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbsolvEnergy , core::scoring::methods::LK_hack , core::scoring::rna::RNA_LJ_BaseEnergy
• etable_bins_per_A2_ : core::scoring::etable::TableLookupEvaluator , core::scoring::lkball::LK_BallEnergy
• etable_disbins_ : core::scoring::etable::Etable
• etable_energy_ : protocols::match::output::MatchCollisionFilter
• etable_evaluator_ : core::scoring::methods::LK_PolarNonPolarEnergy , core::scoring::rna::RNA_FullAtomVDW_BasePhosphate , protocols::ligand_docking::rdf::RDFEtableFunction
• etable_options_ : core::scoring::methods::EnergyMethodOptions
• etable_type : core::scoring::etable::EtableOptions
• etables_by_options_ : core::scoring::ScoringManager
• etables_by_string_ : core::scoring::ScoringManager
• euclidean_bin_widths_ : protocols::match::Matcher , protocols::match::MatcherTask
• euler_alpha : protocols::stepwise::modeler::rna::rigid_body::BaseBin
• euler_alpha_values_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_angle_bin_max_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_angle_bin_min_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_angle_bin_size_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_bin_halfwidths_ : protocols::match::OccupiedSpaceHash , protocols::match::VoxelSetIterator
• euler_bin_widths_ : protocols::match::HitHasher , protocols::match::HitNeighborFinder , protocols::match::MatchCounter , protocols::match::Matcher , protocols::match::MatcherTask , protocols::match::OccupiedSpaceHash , protocols::match::VoxelSetIterator
• euler_gamma : protocols::stepwise::modeler::rna::rigid_body::BaseBin
• euler_gamma_values_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_z : protocols::stepwise::modeler::rna::rigid_body::BaseBin
• euler_z_bin_max_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_z_bin_min_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_z_bin_size_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• euler_z_values_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange
• EV_ : core::scoring::ResidualDipolarCoupling
• eval_ : protocols::stepwise::screener::PartitionContactScreener
• eval_res_ : core::scoring::methods::GoapEnergy
• eval_tuple_ : core::scoring::hbonds::HBond
• eval_type_ : core::scoring::hbonds::HBEvalTuple
• eval_types_ : core::pack::interaction_graph::OnTheFlyEdge , core::pack::interaction_graph::SymmOnTheFlyEdge
• evals_ : protocols::simple_filters::EvaluatedTrialMover
• evaluation_score_fxn_ : protocols::residue_optimization::MetapatchEnumeration
• evaluator_ : core::scoring::etable::ResResEnergyInvoker< Evaluator > , core::scoring::geometric_solvation::ContextDependentGeometricSolEnergy , core::scoring::geometric_solvation::ContextIndependentGeometricSolEnergy , protocols::abinitio::AbrelaxApplication , protocols::abinitio::Protocol , protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure , protocols::match::output::MatchProcessor , protocols::simple_filters::EvaluatedTrialMover
• evaluator_map_ : protocols::enzdes::EnzdesScorefileFilter
• evaluator_name_ : protocols::match::MatcherTask
• evaluators_ : protocols::evaluation::MetaPoseEvaluator , protocols::jd2::archive::EvaluatedArchive , protocols::jd2::JobOutputter
• evdw : core::scoring::packstat::CavityBall
• events_ : core::scoring::packstat::Slice
• Ew : core::scoring::GenBornPotential , core::scoring::MultipoleElecPotential
• ex1_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_ , core::scoring::motif::Xfrag
• ex1_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex1aro_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex1aro_exposed_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex1aro_exposed_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex1aro_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex2_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_ , core::scoring::motif::Xfrag
• ex2_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex2aro_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex2aro_exposed_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex2aro_exposed_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex2aro_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex3_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_ , core::scoring::motif::Xfrag
• ex3_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex4_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_ , core::scoring::motif::Xfrag
• ex4_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• ex_chi_steps : core::pack::dunbrack::ChiSet
• ex_cutoff_ : core::pack::task::EX_CUTOFF
• ex_level_ : protocols::toolbox::rotamer_set_operations::AddGood2BPairEnergyRotamers , protocols::toolbox::task_operations::InteractingRotamerExplosion
• exact_ : protocols::electron_density::BfactorFittingMover , protocols::electron_density::BfactorMultifunc
• exact_occ_include_Hbond_contribution_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exact_occ_pairwise_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exact_occ_pairwise_by_res_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exact_occ_self_res_occ_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exact_occ_skip_Hbonders_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exact_occ_split_between_res_ : core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy
• exchange_accepts_ : protocols::canonical_sampling::ParallelTempering
• exchange_attempts_ : protocols::canonical_sampling::ParallelTempering
• exchange_grid_ : protocols::canonical_sampling::HamiltonianExchange
• exchange_grid_dimension_ : protocols::canonical_sampling::HamiltonianExchange
• exchange_requests_ : protocols::canonical_sampling::AsyncMPITemperingBase
• exchange_schedule : protocols::moves::ReplicaExchangeMC
• exchange_schedule_file_ : protocols::canonical_sampling::HamiltonianExchange
• exchange_schedules_ : protocols::canonical_sampling::HamiltonianExchange , protocols::canonical_sampling::ParallelTempering
• excise_mini_pose_ : protocols::magnesium::MgHydrater , protocols::magnesium::MgWaterHydrogenPacker
• exclude_clusters_ : protocols::antibody::CDRSetOptions
• exclude_cys_peptides : protocols::frags::RMSVallData
• exclude_desinated_pdbs_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_DNA_DNA_ : core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_GrpElecEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::hbonds::HBondOptions , core::scoring::methods::EnergyMethodOptions , core::scoring::methods::FACTSEnergy , core::scoring::methods::GenBornEnergy , core::scoring::methods::MultipoleElecEnergy , core::scoring::methods::VdWTinkerEnergy
• exclude_germlines_ : protocols::antibody::CDRSetOptions
• exclude_gly : protocols::frags::RMSVallData
• exclude_intra_res_protein_ : core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::hbonds::HBondOptions , core::scoring::methods::EnergyMethodOptions
• exclude_intra_res_RNA_ : core::scoring::hbonds::HBondOptions
• exclude_list_ : protocols::simple_filters::TruncatedScoreEvaluator
• exclude_monomer_ : core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_GrpElecEnergy
• exclude_monomer_fa_elec_ : core::scoring::methods::EnergyMethodOptions
• exclude_pdb_ids_ : protocols::antibody::CDRSetOptions
• exclude_polar_all_in_hsasa_ : core::scoring::sasa::SasaCalc
• exclude_pro : protocols::frags::RMSVallData
• exclude_protein_protein_ : core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_GrpElecEnergy
• exclude_protein_protein_fa_elec_ : core::scoring::methods::EnergyMethodOptions , protocols::enzdes::EnzdesBaseProtocol
• exclude_radius_ : protocols::toolbox::task_operations::InteractingRotamerExplosion
• exclude_residues_ : protocols::hybridization::CartesianSampler
• exclude_sandwich_that_has_near_backbone_atoms_between_sheets_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_that_has_non_canonical_LR_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_that_has_non_canonical_properties_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_that_has_non_canonical_shortest_dis_between_facing_aro_in_sw_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_that_is_linked_w_same_direction_strand_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_that_is_suspected_to_have_not_facing_2_sheets_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_sandwich_with_SS_bond_ : protocols::features::strand_assembly::SandwichFeatures
• exclude_self_hbonds_ : core::scoring::hbonds::HBondOptions
• exclude_species_ : protocols::antibody::CDRSetOptions
• EXCLUDED : protocols::sparta::Sparta::SpartaLib
• excluded_ : core::scoring::ExcludedResPredicate
• excluded_aatypes_for_selection_ : core::select::util::SelectResiduesByLayer
• excluded_positions : protocols::vip::VIP_Mover
• excluded_positions_ : protocols::helix_capper::HelixNCapperMover
• excluded_properties_ : core::scoring::aa_composition_energy::AACompositionPropertiesSet
• excluded_residues_ : protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD
• excluded_types_ : core::scoring::aa_composition_energy::AACompositionPropertiesSet
• exclusions_ : protocols::mpi_refinement::Scheduler
• exdna_sample_level_ : core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• exemplarRestriction_ : protocols::pockets::PocketGrid
• exgeom_ids_ : protocols::match::downstream::ClassicMatchAlgorithm
• exhphobe_index_ : core::pack::interaction_graph::exposed_hydrophobic_data
• existing_data_ : protocols::frag_picker::scores::AmbigCSScore , protocols::frag_picker::scores::CSScore , protocols::frag_picker::scores::PhiPsiRmsd , protocols::frag_picker::scores::PhiPsiSquareWell
• existing_residue_ : protocols::flexpack::rotamer_set::FlexbbRotamerSet
• exit_if_missing_heavy_atoms_ : core::io::StructFileRepOptions
• exit_on_fail_ : protocols::stepwise::legacy::screener::RNA_AtrRepScreener
• EXP_chem_shift_data_list_ : core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential
• exp_hash_ : protocols::noesy_assign::CrossPeakInfo
• exp_param_ : core::scoring::func::MixtureFunc
• exp_shift : core::scoring::rna::chemical_shift::ChemicalShiftData
• exp_val_ : core::scoring::func::SplineFunc
• expand_loop_takeoff_ : protocols::stepwise::modeler::options::StepWiseProteinModelerOptions , protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler
• expand_motifs_ : protocols::motifs::MotifDnaPacker
• expand_st_chi2sampling : core::init::pre_talaris_2013_behavior_settings
• expdbno_ : protocols::pockets::PocketGrid
• expected_by_properties_absolute_ : core::scoring::aa_composition_energy::AACompositionEnergySetup
• expected_by_properties_fraction_ : core::scoring::aa_composition_energy::AACompositionEnergySetup
• experimental : protocols::ddG::ddGData
• experimental_ddG_ : protocols::optimize_weights::DDGMutationOptEData
• experimental_ddG_bind_ : protocols::optimize_weights::DDGBindOptEData
• experimental_technique_in_progress_ : core::io::HeaderInformation
• experimental_techniques_ : core::io::HeaderInformation
• expid_ : core::scoring::RDC
• expire_after_rounds_ : protocols::loophash::MPI_LoopHashRefine_Master , protocols::mpi_refinement::MPI_Refine_Master
• explicit_constructor_ : protocols::analysis::InterfaceAnalyzerMover
• explicit_radii_set_ : core::scoring::sasa::SasaCalc
• explicit_ramp_constraints_ : protocols::relax::RelaxProtocolBase
• explosion_ : protocols::protein_interface_design::movers::MapHotspot , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover , protocols::protein_interface_design::movers::TryRotamers
• export_only_low_ : protocols::cluster::ClusterBase
• exposed_radius : core::scoring::packstat::CavityBall
• exprdc_ : core::scoring::ResidualDipolarCoupling
• expression_ : protocols::pack_daemon::IterativeVectorExpression
• expression_evaluation_order_ : protocols::pack_daemon::EntityFunc
• expression_evaluation_order_by_name_ : protocols::pack_daemon::DynamicAggregateFunction
• extend : protocols::flexpep_docking::FlexPepDockingFlags
• extend_cterm : protocols::seeded_abinitio::GrowPeptides
• extend_h3_ : protocols::antibody::ModelCDRH3
• extend_h3_before_modeling_ : protocols::antibody::AntibodyModelerProtocol
• extend_inside_ : protocols::seeded_abinitio::SegmentHybridizer
• extend_loops : protocols::LoopRebuild
• extend_nterm : protocols::seeded_abinitio::GrowPeptides
• extend_outside_ : protocols::seeded_abinitio::SegmentHybridizer
• extend_ss_ : protocols::denovo_design::connection::Connection
• extended : protocols::loops::SerializedLoop
• extended_ : protocols::antibody_legacy::Antibody , protocols::loops::Loop , protocols::loops::LoopFromFileData
• extended_loops_ : protocols::abinitio::DoubleLayerKinematicAbinitio
• extended_mm_ : protocols::seeded_abinitio::SegmentHybridizer
• extending_ : protocols::simple_moves::SetTorsion
• extension_ : protocols::jd2::FileSystemJobDistributor , protocols::jd2::PDBJobOutputter
• extension_window_ : protocols::ligand_docking::InterfaceBuilder
• extent_begin : core::fragment::picking_old::vall::scores::VallFragmentScore
• extent_end : core::fragment::picking_old::vall::scores::VallFragmentScore
• external_coordinate_residues_changed_ : core::kinematics::AtomTree
• external_samplers_ : protocols::match::downstream::ClassicMatchAlgorithm
• externally_required_context_graphs_ : core::scoring::Energies
• extra_ : protocols::jd2::parser::BluePrint , protocols::loophash::BackboneDB , protocols::loophash::LoopHashLibrary
• extra_beta_ : protocols::stepwise::sampler::rna::RNA_SuiteStepWiseSampler
• extra_cdf_ : core::scoring::Ramachandran
• extra_chi_ : protocols::stepwise::modeler::options::StepWiseRNA_ModelerOptions , protocols::stepwise::sampler::rna::RNA_KIC_Sampler , protocols::stepwise::sampler::rna::RNA_NucleosideStepWiseSampler , protocols::stepwise::sampler::rna::RNA_SuiteStepWiseSampler
• extra_coord_list_ : protocols::pockets::EggshellGrid
• extra_cut_off_interaction_ : core::scoring::FACTSPotential
• extra_cut_off_self_ : core::scoring::FACTSPotential
• extra_data_ : protocols::jobdist::BasicJob , protocols::loophash::BackboneDB
• extra_data_1_ : protocols::wum::WorkUnitBase::WU_Header
• extra_data_2_ : protocols::wum::WorkUnitBase::WU_Header
• extra_data_3_ : protocols::wum::WorkUnitBase::WU_Header
• extra_data_4_ : protocols::wum::WorkUnitBase::WU_Header
• extra_epsilon_ : protocols::stepwise::sampler::rna::RNA_KIC_Sampler , protocols::stepwise::sampler::rna::RNA_SuiteStepWiseSampler
• extra_key : protocols::loophash::BBData
• extra_loose_rep_cutoff_ : protocols::stepwise::modeler::rna::checker::RNA_AtrRepChecker
• extra_min_ : protocols::seeded_abinitio::SegmentHybridizer
• extra_minimize_chi_res_ : protocols::farna::options::RNA_MinimizerOptions
• extra_minimize_res_ : protocols::farna::options::RNA_MinimizerOptions , protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup
• extra_parameter_indices_ : core::chemical::AtomTypeSet
• extra_parameters_ : core::chemical::AtomType
• extra_pt_ : protocols::pockets::DarcParticleSwarmMinimizer , protocols::pockets::FingerprintMultifunc
• extra_ram_counts_ : core::scoring::Ramachandran
• extra_ram_energ_ : core::scoring::Ramachandran
• extra_ram_probabil_ : core::scoring::Ramachandran
• extra_residues_ : protocols::comparative_modeling::ThreadingJobInputter
• extra_residues_to_steal_ : protocols::comparative_modeling::ThreadingJob
• extra_tag_ : protocols::stepwise::screener::TagDefinition
• extrachi_cutoff_ : core::pack::task::operation::ExtraChiCutoff , core::pack::task::operation::ExtraChiCutoffRLT , core::pack::task::operation::ExtraRotamerSamplingData , core::pack::task::ResidueLevelTask_
• extract_native_only_ : protocols::features::strand_assembly::StrandBundleFeatures
• extract_sandwich_ : protocols::features::strand_assembly::SandwichFeatures
• extrapolated_slope : core::scoring::etable::ExtraQuadraticRepulsion
• extras_ : protocols::matdes::ExtractSubposeMover
• extrasamples_ : core::chemical::AddProtonChi
• extreme_value_removal_ : protocols::simple_filters::DdgFilter
• extshell_list_ : protocols::pockets::NonPlaidFingerprint