protocols::dna::DnaInterfaceFinder Class Reference

#include <DnaInterfaceFinder.hh>

Inheritance diagram for protocols::dna::DnaInterfaceFinder:

Collaboration diagram for protocols::dna::DnaInterfaceFinder:

List of all members.

Public Member Functions
	DnaInterfaceFinder (core::Real close_threshold=10 *10, core::Real contact_threshold=3.7 *3.7, core::Real z_cutoff=10., bool base_only=false)
virtual	~DnaInterfaceFinder ()
DnaInterfaceFinderOP	clone () const
void	determine_protein_interface (core::pose::Pose const &pose)
void	determine_interface (core::pose::Pose const &pose, utility::vector1< core::Size > const &protein_positions, utility::vector1< core::Size > const &dna_positions)
void	determine_protein_interface (core::pose::Pose const &pose, utility::vector1< core::Size > const &protein_positions, utility::vector1< core::Size > const &dna_positions)
void	determine_dna_interface (core::pose::Pose const &pose, utility::vector1< core::Size > const &protein_positions, utility::vector1< core::Size > const &dna_positions)
bool	initialized () const
DnaNeighbors const &	protein_neighbors () const
DnaNeighbors const &	dna_neighbors () const

---

Constructor & Destructor Documentation

protocols::dna::DnaInterfaceFinder::DnaInterfaceFinder	(	core::Real	close_threshold = 10 * 10,
		core::Real	contact_threshold = 3.7 * 3.7,
		core::Real	z_cutoff = 10.,
		bool	base_only = false
	)		[inline]

Referenced by clone().

virtual protocols::dna::DnaInterfaceFinder::~DnaInterfaceFinder

(

)

[inline, virtual]

---

Member Function Documentation

DnaInterfaceFinderOP protocols::dna::DnaInterfaceFinder::clone

(

)

const [inline]

References DnaInterfaceFinder().

void protocols::dna::DnaInterfaceFinder::determine_dna_interface	(	core::pose::Pose const &	pose,
		utility::vector1< core::Size > const &	protein_positions,
		utility::vector1< core::Size > const &	dna_positions
	)

References protocols::dna::argrot_dna_dis2(), protocols::dna::DnaNeighbor::close(), protocols::dna::close_to_dna(), protocols::dna::DnaNeighbor::contact(), core::sequence::end, core::chemical::ResidueType::is_DNA(), core::chemical::ResidueType::is_protein(), core::pose::Pose::residue(), core::pose::Pose::residue_type(), and protocols::dna::z_axis_dist().

void protocols::dna::DnaInterfaceFinder::determine_interface	(	core::pose::Pose const &	pose,
		utility::vector1< core::Size > const &	protein_positions,
		utility::vector1< core::Size > const &	dna_positions
	)

void protocols::dna::DnaInterfaceFinder::determine_protein_interface	(	core::pose::Pose const &	pose,
		utility::vector1< core::Size > const &	protein_positions,
		utility::vector1< core::Size > const &	dna_positions
	)

References protocols::dna::argrot_dna_dis2(), protocols::dna::DnaNeighbor::close(), protocols::dna::close_to_dna(), protocols::dna::DnaNeighbor::contact(), core::sequence::end, core::chemical::ResidueType::is_DNA(), core::chemical::ResidueType::is_protein(), core::pose::Pose::residue(), core::pose::Pose::residue_type(), and protocols::dna::z_axis_dist().

void protocols::dna::DnaInterfaceFinder::determine_protein_interface

(

core::pose::Pose const &

pose

)

References core::sequence::end, core::chemical::ResidueType::is_DNA(), core::chemical::ResidueType::is_protein(), core::pose::Pose::residue_type(), and core::pose::Pose::total_residue().

DnaNeighbors const & protocols::dna::DnaInterfaceFinder::dna_neighbors

(

)

const

bool protocols::dna::DnaInterfaceFinder::initialized

(

)

const [inline]

DnaNeighbors const & protocols::dna::DnaInterfaceFinder::protein_neighbors

(

)

const

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The documentation for this class was generated from the following files:

• src/protocols/dna/DnaInterfaceFinder.hh
• src/protocols/dna/DnaInterfaceFinder.cc