- s -

• ScaffoldRotamerPair : protocols::match::output::UpstreamHitCacher
• ScaffoldRotamerTuple : protocols::match::output::UpstreamHitCacher
• ScoreFunction : protocols::dna::PDBOutput , protocols::fldsgn::BluePrintBDR , protocols::fldsgn::filters::CoreDunbrackFilter , protocols::fldsgn::potentials::AACompositionEnergy , protocols::fldsgn::potentials::SetAACompositionPotential , protocols::fldsgn::potentials::SetSecStructEnergies , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph , protocols::flexpack::rotamer_set::FlexbbRotamerSets , protocols::flxbb::FlxbbDesign , protocols::flxbb::InterlockAroma , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::remodel::RemodelAccumulator , protocols::forge::remodel::RemodelDesignMover , protocols::forge::remodel::RemodelGlobalFrame , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover , protocols::moves::MonteCarlo , protocols::pack_daemon::DaemonSet , protocols::pack_daemon::PackDaemon , protocols::protein_interface_design::movers::DesignMinimizeHbonds , protocols::protein_interface_design::movers::MapHotspot , protocols::protein_interface_design::movers::RepackMinimize , protocols::protein_interface_design::movers::TryRotamers , protocols::protein_interface_design::Revert , protocols::simple_moves::GenericMonteCarloMover , protocols::simple_moves::GreenPacker , protocols::toolbox::task_operations::LimitAromaChi2_RotamerSetOperation
• ScoreFunctionCOP : protocols::dna::PDBOutput , protocols::enzdes::BackboneSampler , protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph , protocols::flxbb::FlxbbDesignPack , protocols::forge::remodel::RemodelAccumulator , protocols::moves::MonteCarlo , protocols::normalmode::NormalModeMinimizer , protocols::pack_daemon::PackDaemon , protocols::protein_interface_design::movers::BackrubDDMover , protocols::protein_interface_design::movers::DesignMinimizeHbonds , protocols::protein_interface_design::movers::MapHotspot , protocols::protein_interface_design::movers::RepackMinimize , protocols::protein_interface_design::movers::TryRotamers , protocols::protein_interface_design::Revert , protocols::simple_moves::MinMover , protocols::simple_moves::MinPackMover , protocols::simple_moves::PackRotamersMover , protocols::simple_moves::RepackSidechainsMover , protocols::simple_moves::RotamerTrialsMinMover , protocols::simple_moves::RotamerTrialsMover
• ScoreFunctionFactory : protocols::forge::remodel::RemodelAccumulator
• ScoreFunctionOP : protocols::dna::DnaInterfacePacker , protocols::dna::PDBOutput , protocols::enzdes::BackboneSampler , protocols::enzdes::PackRotamersMoverPartGreedy , protocols::fldsgn::BluePrintBDR , protocols::fldsgn::filters::CoreDunbrackFilter , protocols::fldsgn::potentials::SetAACompositionPotential , protocols::fldsgn::potentials::SetSecStructEnergies , protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph , protocols::flxbb::DesignTask , protocols::flxbb::DesignTask_Layer , protocols::flxbb::DesignTask_Normal , protocols::flxbb::FlxbbDesign , protocols::flxbb::InterlockAroma , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::remodel::RemodelAccumulator , protocols::forge::remodel::RemodelDesignMover , protocols::forge::remodel::RemodelGlobalFrame , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover , protocols::moves::MonteCarlo , protocols::pack_daemon::DaemonSet , protocols::pack_daemon::PackDaemon , protocols::protein_interface_design::movers::BackrubDDMover , protocols::protein_interface_design::movers::DesignMinimizeHbonds , protocols::protein_interface_design::movers::RepackMinimize , protocols::protein_interface_design::Revert , protocols::simple_moves::GenericMonteCarloMover , protocols::simple_moves::GreenPacker , protocols::simple_moves::rational_mc::RationalMonteCarlo , protocols::simple_moves::RotamerTrialsMinMover , protocols::simple_moves::RotamerTrialsMover , protocols::simple_moves::ScoreMover
• ScoreMap : protocols::motif_hash::MotifHash
• Scores : protocols::sic_dock::RigidScore
• ScoreType : protocols::simple_moves::ddG
• ScoreTypes : protocols::fldsgn::potentials::AACompositionEnergy , protocols::fldsgn::potentials::AACompositionEnergyCreator , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergyCreator , protocols::optimize_weights::IterativeOptEDriver , protocols::optimize_weights::OptEData , protocols::optimize_weights::OptEMultifunc , protocols::optimize_weights::OptEPositionData , protocols::optimize_weights::WrapperOptEMultifunc , protocols::simple_moves::GreenPacker
• SeqposTemplateAtomsMap : protocols::toolbox::match_enzdes_util::EnzCstTemplateResCache
• SequenceAnnotationCOP : protocols::environment::EnvClaimBroker , protocols::environment::ProtectedConformation
• SequenceAnnotationOP : protocols::environment::EnvClaimBroker
• SequenceCoupling : protocols::constraints_additional::SequenceCoupling1BDConstraint , protocols::constraints_additional::SequenceCouplingConstraint
• SequenceCouplingCOP : protocols::constraints_additional::SequenceCoupling1BDConstraint , protocols::constraints_additional::SequenceCouplingConstraint
• SequenceCouplingOP : protocols::constraints_additional::SequenceCouplingConstraint
• SequenceLigPosMap : protocols::match::output::SameSequenceAndDSPositionGrouper
• SequenceMap : protocols::match::output::SameSequenceGrouper
• SequenceMapping : protocols::constraints_additional::SequenceCoupling1BDConstraint , protocols::constraints_additional::SequenceCouplingConstraint , protocols::forge::build::BuildManager
• SequenceMappingCOP : protocols::forge::build::BuildManager
• SequenceMappingOP : protocols::forge::build::BuildManager
• SerializedLoopList : protocols::loops::Loops
• SheetSetCOP : protocols::fldsgn::topology::BetaAlphaBetaMotifSet
• SheetTopology : protocols::jumping::SheetBuilder
• SilentInfoList : protocols::simple_filters::EvaluatedTrialMover
• SilentStructs : protocols::abinitio::HedgeArchive , protocols::jd2::archive::ArchiveBase
• SilentStructVector : protocols::abinitio::IterativeBase , protocols::jd2::archive::VarianceStatisticsArchive
• SingleConstraints : protocols::noesy_assign::DistanceScoreMover
• SixDCoordinateBinner : protocols::motif_hash::MotifHash , protocols::motif_hash::XformScore , protocols::motif_hash::XfragSet
• Size : protocols::enzdes::ModifyStoredRBConfs , protocols::fldsgn::BluePrintBDR , protocols::fldsgn::CircularPermutation , protocols::fldsgn::filters::HelixKinkFilter , protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::filters::NcontactsFilter , protocols::fldsgn::filters::ParallelBetaPairingPreferenceFilter , protocols::fldsgn::MatchResidues , protocols::fldsgn::MatchResiduesMover , protocols::fldsgn::MyAtom , protocols::fldsgn::NcontactsCalculator , protocols::fldsgn::potentials::SetAACompositionPotential , protocols::fldsgn::potentials::SetSecStructEnergies , protocols::fldsgn::potentials::sspot::HSPairPotential , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSheetPotential , protocols::fldsgn::potentials::sspot::NatbiasStrandPairPotential , protocols::fldsgn::potentials::sspot::SSPairPotential , protocols::fldsgn::SheetConstraintsRCG , protocols::fldsgn::topology::BB_Pos , protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::BetaAlphaBetaMotifSet , protocols::fldsgn::topology::DimerPairing , protocols::fldsgn::topology::DimerPairings , protocols::fldsgn::topology::HelixPairing , protocols::fldsgn::topology::HelixPairingSet , protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::HSSTripletSet , protocols::fldsgn::topology::Sheet , protocols::fldsgn::topology::SheetSet , protocols::fldsgn::topology::SS_Base , protocols::fldsgn::topology::SS_Info2 , protocols::fldsgn::topology::StrandPairing , protocols::fldsgn::topology::StrandPairingSet , protocols::flexpack::annealer::FlexbbSimAnnealer , protocols::flexpack::interaction_graph::FlexbbEdge , protocols::flexpack::interaction_graph::FlexbbNode , protocols::flexpack::interaction_graph::OTFFlexbbNode , protocols::flexpack::rotamer_set::FlexbbRotamerSets , protocols::flxbb::DesignTask , protocols::flxbb::FilterStructs , protocols::flxbb::FilterStructs_Packstat , protocols::flxbb::FilterStructs_TotalCharge , protocols::flxbb::FlxbbDesign , protocols::flxbb::InterlockAroma , protocols::forge::build::Bridge , protocols::forge::build::BuildInstruction , protocols::forge::build::BuildManager , protocols::forge::build::ConnectRight , protocols::forge::build::GrowLeft , protocols::forge::build::GrowRight , protocols::forge::build::Interval , protocols::forge::build::RelativeConnectRight , protocols::forge::build::SegmentInsert , protocols::forge::build::SegmentRebuild , protocols::forge::build::SegmentSwap , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::constraints::NtoC_RCG , protocols::forge::constraints::RemoveCsts , protocols::forge::remodel::RemodelAccumulator , protocols::forge::remodel::RemodelDesignMover , protocols::forge::remodel::RemodelGlobalFrame , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover , protocols::frag_picker::VallResidue , protocols::frags::FragLib , protocols::frags::SingleResidueTorsionFragmentLibrary , protocols::frags::TorsionFragment , protocols::frags::TorsionFragmentLibrary , protocols::frags::TorsionFragmentMover , protocols::genetic_algorithm::EntityElement , protocols::jd2::parser::BluePrint , protocols::jd2::parser::FragmentReader , protocols::loophash::FastGapMover , protocols::match::Bool3DGridKinemageWriter , protocols::match::downstream::ActiveSiteGrid , protocols::match::downstream::ClassicMatchAlgorithm , protocols::match::downstream::DownstreamAlgorithm , protocols::match::downstream::SecMatchEvaluatorFactory , protocols::match::downstream::SecMatchResiduePairEvaluator , protocols::match::downstream::TargetRotamerCoords , protocols::match::HitHasher , protocols::match::HitNeighborFinder , protocols::match::match_lite_hasher , protocols::match::MatchCounter , protocols::match::Matcher , protocols::match::MatcherMover , protocols::match::MatcherTask , protocols::match::OccupiedSpaceHash , protocols::match::output::BestMatchesCollection , protocols::match::output::DownstreamRMSEvaluator , protocols::match::output::LimitHitsPerRotamerFilter , protocols::match::output::MatchConsolidator , protocols::match::output::PoseInserter , protocols::match::output::ProcessorFactory , protocols::match::output::ResidueKinemageWriter , protocols::match::output::SameChiBinComboGrouper , protocols::match::output::SameRotamerComboGrouper , protocols::match::output::SameSequenceGrouper , protocols::match::output::WriteUpstreamCoordinateKinemage , protocols::match::upstream::BuildSet , protocols::match::upstream::FullChiSampleSet , protocols::match::upstream::SampleStrategyData , protocols::match::upstream::ScaffoldBuildPoint , protocols::match::upstream::UpstreamBuilder , protocols::match::upstream::UpstreamResTypeGeometry , protocols::match::VoxelSetIterator , protocols::motifs::LigandMotifSearch , protocols::motifs::MotifSearch , protocols::moves::FilterMover , protocols::moves::ReplicaExchangeMC , protocols::nonlocal::Chunk , protocols::nonlocal::Region , protocols::nonlocal::SingleFragmentMover , protocols::optimize_weights::IterativeOptEDriver , protocols::optimize_weights::OptEData , protocols::optimize_weights::OptEMultifunc , protocols::optimize_weights::OptEPositionData , protocols::optimize_weights::PNatAAOptERotamerData , protocols::optimize_weights::PNatRotOptERotamerData , protocols::optimize_weights::SingleStructureData , protocols::optimize_weights::WrapperOptEMultifunc , protocols::pack_daemon::DynamicAggregateFunction , protocols::pack_daemon::EntityCorrespondence , protocols::pack_daemon::EntityFunc , protocols::pack_daemon::MultistateFitnessFunction , protocols::pack_daemon::PackDaemon , protocols::protein_interface_design::filters::HbondsToAtomFilter , protocols::protein_interface_design::filters::HbondsToResidueFilter , protocols::protein_interface_design::filters::RelativeSegmentFilter , protocols::protein_interface_design::ReportPSSMDifferences , protocols::protein_interface_design::ReportSequenceDifferences , protocols::scoring::ResidualDipolarCouplingRigidSegments , protocols::sic_dock::RigidScore , protocols::sic_dock::Rose , protocols::simple_moves::BBGaussianMover , protocols::simple_moves::ConsensusDesignMover , protocols::simple_moves::DME_FilterMover , protocols::simple_moves::GenericMonteCarloMover , protocols::simple_moves::GreenPacker , protocols::simple_moves::GroupDiscriminator , protocols::simple_moves::MinimalRotamer , protocols::simple_moves::MonteCarloRecover , protocols::simple_moves::MonteCarloReset , protocols::simple_moves::MonteCarloTest , protocols::simple_moves::UserDefinedGroupDiscriminator , protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover , protocols::toolbox::match_enzdes_util::AllowedSeqposForGeomCst , protocols::toolbox::match_enzdes_util::ExternalGeomSampler , protocols::toolbox::match_enzdes_util::InvrotTree , protocols::toolbox::match_enzdes_util::InvrotTreeNode , protocols::toolbox::match_enzdes_util::LigandConformer , protocols::toolbox::pose_metric_calculators::FragQualCalculator , protocols::toolbox::rotamer_set_operations::SpecialRotamerRSO , protocols::toolbox::SelectResiduesByLayer , protocols::toolbox::task_operations::LayerOperations , protocols::toolbox::task_operations::LinkResidues , protocols::topology_broker::claims::DofClaim
• Size2 : protocols::match::downstream::SecondaryMatcherToUpstreamResidue
• Size2Tuple : protocols::match::downstream::SecondaryMatcherToUpstreamResidue
• Size3 : protocols::match::OccupiedSpaceHash
• Size6 : protocols::match::VoxelSetIterator
• SizeFilter_map : protocols::protein_interface_design::movers::MapHotspot
• SizePair : protocols::match::downstream::AtomGeometrySecMatchRPE , protocols::match::output::PDBWriter
• SizeRealPair : protocols::enzdes::EnzdesFlexibleRegion , protocols::pack_daemon::DaemonSet
• SizeRealPairs : protocols::pack_daemon::DaemonSet
• Sizes : protocols::motifs::LigandMotifSearch , protocols::motifs::MotifSearch , protocols::sic_dock::RigidScore
• SizeSet : protocols::toolbox::task_operations::RestrictToNeighborhoodOperation
• SizeToStringMap : protocols::environment::EnvClaimBroker
• Sphere : protocols::match::BumpGrid
• SpinAssignments : protocols::noesy_assign::CrossPeak::Spin
• SS_Info2 : protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::potentials::sspot::HSPairPotential , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSheetPotential , protocols::fldsgn::potentials::sspot::NatbiasStrandPairPotential , protocols::fldsgn::potentials::sspot::SSPairPotential , protocols::fldsgn::topology::DimerPairings , protocols::fldsgn::topology::StrandPairingSet
• SS_Info2_COP : protocols::fldsgn::filters::InterlockingAromaFilter , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSheetPotential , protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::BetaAlphaBetaMotifSet , protocols::fldsgn::topology::HelixPairing , protocols::fldsgn::topology::HelixPairingSet , protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::Sheet , protocols::fldsgn::topology::SheetSet , protocols::fldsgn::topology::StrandPairing , protocols::fldsgn::topology::StrandPairingSet
• SS_Info2_OP : protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSheetPotential , protocols::fldsgn::topology::StrandPairing
• StageID : protocols::topology_broker::TopologyBroker
• StateEnergies : protocols::pack_daemon::MultistateAggregateFunction , protocols::pack_daemon::MultistateFitnessFunction , protocols::pack_daemon::TopEntitySet
• StateEnergiesAndNPDs : protocols::pack_daemon::MultistateFitnessFunction , protocols::pack_daemon::TopEntitySet
• StateEsAndNPDs : protocols::pack_daemon::DaemonSet
• StateIndices : protocols::pack_daemon::MultistateAggregateFunction
• Stats : protocols::sic_dock::scores::MotifHashRigidScore
• Storage : protocols::simple_moves::LoggedFragmentMover
• StrandPairingSet : protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::topology::SheetSet
• StrandPairingSetCOP : protocols::fldsgn::potentials::sspot::NatbiasStrandPairPotential , protocols::fldsgn::topology::SheetSet
• StrandPairingSetOP : protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::fldsgn::potentials::sspot::NatbiasStrandPairPotential
• String : protocols::fldsgn::BluePrintBDR , protocols::fldsgn::filters::CoreDunbrackFilter , protocols::fldsgn::filters::FragQualFilter , protocols::fldsgn::filters::HelixKinkFilter , protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::filters::InterlockingAromaFilter , protocols::fldsgn::filters::NcontactsFilter , protocols::fldsgn::filters::ParallelBetaPairingPreferenceFilter , protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureFilter , protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::NcontactsCalculator , protocols::fldsgn::potentials::SetAACompositionPotential , protocols::fldsgn::potentials::SetSecStructEnergies , protocols::fldsgn::potentials::sspot::HSPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::fldsgn::potentials::sspot::NatbiasStrandPairPotential , protocols::fldsgn::potentials::sspot::SSPairPotential , protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HelixPairing , protocols::fldsgn::topology::HelixPairingSet , protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::HSSTripletSet , protocols::fldsgn::topology::Loop , protocols::fldsgn::topology::SheetFoldTypeManager , protocols::fldsgn::topology::SS_Info2 , protocols::fldsgn::topology::StrandPairing , protocols::fldsgn::topology::StrandPairingSet , protocols::flxbb::DesignTask , protocols::flxbb::FilterStructs , protocols::flxbb::FlxbbDesign , protocols::flxbb::InterlockAroma , protocols::flxbb::LayerDesignOperation , protocols::forge::build::Bridge , protocols::forge::build::BuildInstruction , protocols::forge::build::BuildManager , protocols::forge::build::ConnectRight , protocols::forge::build::GrowLeft , protocols::forge::build::GrowRight , protocols::forge::build::RelativeConnectRight , protocols::forge::build::SegmentInsert , protocols::forge::build::SegmentRebuild , protocols::forge::build::SegmentSwap , protocols::forge::components::BDR , protocols::forge::components::BDRSegmentInfo , protocols::forge::components::VarLengthBuild , protocols::forge::constraints::ConstraintFileRCG , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover , protocols::frag_picker::VallResidue , protocols::jd2::parser::BluePrint , protocols::jd2::parser::FragmentReader , protocols::simple_filters::HolesFilter , protocols::simple_filters::RangeFilter
• string : protocols::simple_moves::ExtendedPoseMover
• String : protocols::simple_moves::GenericMonteCarloMover , protocols::toolbox::pose_metric_calculators::FragQualCalculator , protocols::toolbox::SelectResiduesByLayer , protocols::toolbox::task_operations::JointSequenceOperation , protocols::toolbox::task_operations::LayerOperations , protocols::toolbox::task_operations::LinkResidues , protocols::toolbox::task_operations::RestrictNativeResiduesOperation , protocols::toolbox::task_operations::SeqprofConsensusOperation
• StringList : protocols::sparta::GDB
• StringRealPairs : protocols::jd2::Job
• Strings : protocols::dna::PDBOutput , protocols::jd2::Job , protocols::moves::Mover
• StringsMap : protocols::dna::PDBOutput
• StringStringPairs : protocols::jd2::Job
• StringToSizePairMap : protocols::environment::EnvClaimBroker
• StringToStringPairMap : protocols::environment::EnvClaimBroker
• StructureMap : protocols::abinitio::StructureStore , protocols::features::ProteinSilentReport
• StubsetStubPair : protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• StubSetStubPos : protocols::protein_interface_design::filters::StubScoreFilter , protocols::protein_interface_design::filters::StubScoreLoopsFilter , protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlacementMinimizationMover , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• Super : protocols::enzdes::EnzdesFlexibleRegion , protocols::fldsgn::BluePrintBDR , protocols::fldsgn::CircularPermutation , protocols::fldsgn::filters::CoreDunbrackFilter , protocols::fldsgn::filters::FragQualFilter , protocols::fldsgn::filters::HelixKinkFilter , protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::filters::InterlockingAromaFilter , protocols::fldsgn::filters::NcontactsFilter , protocols::fldsgn::filters::ParallelBetaPairingPreferenceFilter , protocols::fldsgn::filters::SecondaryStructureFilter , protocols::fldsgn::filters::SheetTopologyFilter , protocols::fldsgn::NcontactsCalculator , protocols::fldsgn::potentials::SetAACompositionPotential , protocols::fldsgn::potentials::SetSecStructEnergies , protocols::flxbb::FilterStructs_Packstat , protocols::flxbb::FilterStructs_TotalCharge , protocols::flxbb::FlxbbDesign , protocols::flxbb::InterlockAroma , protocols::forge::build::Bridge , protocols::forge::build::BuildInstruction , protocols::forge::build::BuildManager , protocols::forge::build::ConnectRight , protocols::forge::build::GrowLeft , protocols::forge::build::GrowRight , protocols::forge::build::RelativeConnectRight , protocols::forge::build::SegmentInsert , protocols::forge::build::SegmentRebuild , protocols::forge::build::SegmentSwap , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::remodel::RemodelAccumulator , protocols::forge::remodel::RemodelDesignMover , protocols::forge::remodel::RemodelGlobalFrame , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover , protocols::simple_filters::HolesFilter , protocols::simple_filters::PackStatFilter , protocols::simple_filters::RangeFilter , protocols::simple_filters::ShapeComplementarityFilter , protocols::simple_moves::GenericMonteCarloMover , protocols::toolbox::pose_metric_calculators::FragQualCalculator , protocols::viewer::ConformationViewer , protocols::viewer::SilentObserver
• SurfaceExposureMap : protocols::sparta::Sparta::SpartaLib
• SymmetricConformation : protocols::simple_moves::symmetry::SymDockingInitialPerturbation , protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover , protocols::simple_moves::symmetry::SymmetricRMSMover , protocols::simple_moves::symmetry::SymRotamerTrialsMover , protocols::symmetric_docking::SymDockingHiRes , protocols::symmetric_docking::SymDockProtocol , protocols::symmetric_docking::SymFoldandDockRbTrialMover , protocols::symmetric_docking::SymFoldandDockSlideTrialMover
• SymmetryInfo : protocols::simple_moves::symmetry::SymDockingInitialPerturbation , protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover , protocols::simple_moves::symmetry::SymRotamerTrialsMover , protocols::symmetric_docking::SymDockingHiRes , protocols::symmetric_docking::SymDockProtocol , protocols::symmetric_docking::SymFoldandDockRbTrialMover , protocols::symmetric_docking::SymFoldandDockSlideTrialMover
• SymmetryInfoOP : protocols::fldsgn::potentials::SetSecStructEnergies , protocols::simple_moves::symmetry::SymmetricRMSMover