protocols::aa_composition Namespace Reference

Classes
class	AddCompositionConstraintMover
class	AddCompositionConstraintMoverCreator
class	AddHelixSequenceConstraintsMover
	This mover adds sequence constraints to the ends of each helix, requiring at least one positively-charged residue in the three C-terminal residues, and at least one negatively-charged resiude in the three N-terminal residues. More...
class	AddHelixSequenceConstraintsMoverCreator
class	AddMHCEpitopeConstraintMover
class	AddMHCEpitopeConstraintMoverCreator
class	AddNetChargeConstraintMover
class	AddNetChargeConstraintMoverCreator
class	ClearCompositionConstraintsMover
class	ClearCompositionConstraintsMoverCreator

Typedefs
typedef utility::pointer::shared_ptr< AddCompositionConstraintMover >	AddCompositionConstraintMoverOP
typedef utility::pointer::shared_ptr< AddCompositionConstraintMover const >	AddCompositionConstraintMoverCOP
typedef utility::pointer::shared_ptr< AddHelixSequenceConstraintsMover >	AddHelixSequenceConstraintsMoverOP
typedef utility::pointer::shared_ptr< AddHelixSequenceConstraintsMover const >	AddHelixSequenceConstraintsMoverCOP
typedef utility::pointer::shared_ptr< AddMHCEpitopeConstraintMover >	AddMHCEpitopeConstraintMoverOP
typedef utility::pointer::shared_ptr< AddMHCEpitopeConstraintMover const >	AddMHCEpitopeConstraintMoverCOP
typedef utility::pointer::shared_ptr< AddNetChargeConstraintMover >	AddNetChargeConstraintMoverOP
typedef utility::pointer::shared_ptr< AddNetChargeConstraintMover const >	AddNetChargeConstraintMoverCOP
typedef utility::pointer::shared_ptr< ClearCompositionConstraintsMover >	ClearCompositionConstraintsMoverOP
typedef utility::pointer::shared_ptr< ClearCompositionConstraintsMover const >	ClearCompositionConstraintsMoverCOP

Functions
std::ostream &	operator<< (std::ostream &os, AddHelixSequenceConstraintsMover const &mover)
	private methods /// More...
void	find_helices_over_length (core::pose::Pose const &pose, utility::vector1< std::pair< core::Size, core::Size > > &helices, core::Size const min_length)
	Given a pose, run DSSP and populate the helices list. More...

Typedef Documentation

AddCompositionConstraintMoverCOP

typedef utility::pointer::shared_ptr< AddCompositionConstraintMover const > protocols::aa_composition::AddCompositionConstraintMoverCOP

AddCompositionConstraintMoverOP

typedef utility::pointer::shared_ptr< AddCompositionConstraintMover > protocols::aa_composition::AddCompositionConstraintMoverOP

AddHelixSequenceConstraintsMoverCOP

typedef utility::pointer::shared_ptr< AddHelixSequenceConstraintsMover const > protocols::aa_composition::AddHelixSequenceConstraintsMoverCOP

AddHelixSequenceConstraintsMoverOP

typedef utility::pointer::shared_ptr< AddHelixSequenceConstraintsMover > protocols::aa_composition::AddHelixSequenceConstraintsMoverOP

AddMHCEpitopeConstraintMoverCOP

typedef utility::pointer::shared_ptr< AddMHCEpitopeConstraintMover const > protocols::aa_composition::AddMHCEpitopeConstraintMoverCOP

AddMHCEpitopeConstraintMoverOP

typedef utility::pointer::shared_ptr< AddMHCEpitopeConstraintMover > protocols::aa_composition::AddMHCEpitopeConstraintMoverOP

AddNetChargeConstraintMoverCOP

typedef utility::pointer::shared_ptr< AddNetChargeConstraintMover const > protocols::aa_composition::AddNetChargeConstraintMoverCOP

AddNetChargeConstraintMoverOP

typedef utility::pointer::shared_ptr< AddNetChargeConstraintMover > protocols::aa_composition::AddNetChargeConstraintMoverOP

ClearCompositionConstraintsMoverCOP

typedef utility::pointer::shared_ptr< ClearCompositionConstraintsMover const > protocols::aa_composition::ClearCompositionConstraintsMoverCOP

ClearCompositionConstraintsMoverOP

typedef utility::pointer::shared_ptr< ClearCompositionConstraintsMover > protocols::aa_composition::ClearCompositionConstraintsMoverOP

Function Documentation

find_helices_over_length()

void protocols::aa_composition::find_helices_over_length	(	core::pose::Pose const &	pose,
		utility::vector1< std::pair< core::Size, core::Size > > &	helices,
		core::Size const	min_length
	)

Given a pose, run DSSP and populate the helices list.

Ignores helices shorter than min_length.

References protocols::simple_filters::dssp(), and protocols::TR().

Referenced by protocols::aa_composition::AddHelixSequenceConstraintsMover::find_helices().

operator<<()

std::ostream & protocols::aa_composition::operator<<	(	std::ostream &	os,
		AddHelixSequenceConstraintsMover const &	mover
	)

private methods ///

References protocols::aa_composition::AddHelixSequenceConstraintsMover::show().