FloppyTailMover.cc File Reference

This app was initially intended for modeling the binding of a long unstructured C-terminal tail to some other part of a protein. It now works for N-terminal, C-terminal, and internal flexible regions. It works best as a method for sampling space to see what is possible, preferably in conjunction with extensive experimental constraints. It is not meant to produce ab-initio style models of folded complexes. It has now been expanded to work on symmetric proteins (tested on a homohexamer). Symmetry has not been tested with some flags. To run symmetry one needs a symm file and movemap. Symmetry has not been tested with fragments or constraints. More...

#include <protocols/floppy_tail/FloppyTailMover.hh>
#include <protocols/floppy_tail/FloppyTail_publication.hh>
#include <core/pose/Pose.hh>
#include <core/pose/PDBPoseMap.hh>
#include <core/pose/PDBInfo.hh>
#include <core/pose/util.hh>
#include <core/conformation/Conformation.hh>
#include <core/chemical/ChemicalManager.fwd.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/util.hh>
#include <core/fragment/ConstantLengthFragSet.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/constraints/util.hh>
#include <protocols/moves/MonteCarlo.hh>
#include <protocols/symmetry/SetupForSymmetryMover.hh>
#include <core/pose/symmetry/util.hh>
#include <protocols/simple_moves/BackboneMover.hh>
#include <protocols/simple_moves/FragmentMover.hh>
#include <protocols/minimization_packing/MinMover.hh>
#include <protocols/moves/MoverContainer.hh>
#include <protocols/minimization_packing/PackRotamersMover.hh>
#include <protocols/minimization_packing/RotamerTrialsMover.hh>
#include <protocols/simple_moves/SwitchResidueTypeSetMover.hh>
#include <protocols/simple_moves/ReturnSidechainMover.hh>
#include <protocols/minimization_packing/TaskAwareMinMover.hh>
#include <protocols/minimization_packing/symmetry/TaskAwareSymMinMover.hh>
#include <protocols/moves/OutputMovers.hh>
#include <protocols/moves/PyMOLMover.hh>
#include <protocols/pose_metric_calculators/InterGroupNeighborsCalculator.hh>
#include <core/pose/metrics/CalculatorFactory.hh>
#include <protocols/task_operations/RestrictByCalculatorsOperation.hh>
#include <protocols/jd2/util.hh>
#include <basic/options/option.hh>
#include <basic/Tracer.hh>
#include <utility/exit.hh>
#include <basic/options/keys/run.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/packing.OptionKeys.gen.hh>
#include <basic/options/keys/symmetry.OptionKeys.gen.hh>
#include <basic/options/keys/FloppyTail.OptionKeys.gen.hh>
#include <utility/vector1.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::floppy_tail

Functions
static basic::Tracer	TR ("protocols.floppy_tail.FloppyTail")

Detailed Description

This app was initially intended for modeling the binding of a long unstructured C-terminal tail to some other part of a protein. It now works for N-terminal, C-terminal, and internal flexible regions. It works best as a method for sampling space to see what is possible, preferably in conjunction with extensive experimental constraints. It is not meant to produce ab-initio style models of folded complexes. It has now been expanded to work on symmetric proteins (tested on a homohexamer). Symmetry has not been tested with some flags. To run symmetry one needs a symm file and movemap. Symmetry has not been tested with fragments or constraints.

Author

Steven Lewis

Modified by Jeliazko Jeliazkov

Function Documentation

TR()

static basic::Tracer TR ( "protocols.floppy_tail.FloppyTail"  )

static