core::scoring::methods::DirectReadoutEnergy Class Reference

Implementation of Kono and Sarai's knowledge-based protein-DNA interaction energy. More...

#include <DirectReadoutEnergy.hh>

Inheritance diagram for core::scoring::methods::DirectReadoutEnergy:

Collaboration diagram for core::scoring::methods::DirectReadoutEnergy:

List of all members.

Public Types
typedef WholeStructureEnergy	parent
Public Member Functions
	DirectReadoutEnergy ()
virtual EnergyMethodOP	clone () const
	clone
void	my_residue_pair_energy (conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &, EnergyMap &emap) const
	Implementation which is currently not used.
virtual void	finalize_total_energy (pose::Pose const &pose, ScoreFunction const &scorefxn, EnergyMap &emap) const
	All the work happens here.
virtual void	indicate_required_context_graphs (utility::vector1< bool > &) const
	No graphs required.

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Detailed Description

Implementation of Kono and Sarai's knowledge-based protein-DNA interaction energy.

Could be a CI2B, but interaction threshold is large, so in the short term defining as WholeStructure energy.

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Member Typedef Documentation

typedef WholeStructureEnergy core::scoring::methods::DirectReadoutEnergy::parent

Reimplemented from core::scoring::methods::WholeStructureEnergy.

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Constructor & Destructor Documentation

core::scoring::methods::DirectReadoutEnergy::DirectReadoutEnergy

(

)

C-TOR

Referenced by clone().

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Member Function Documentation

EnergyMethodOP core::scoring::methods::DirectReadoutEnergy::clone

(

)

const [virtual]

clone

Clone

Implements core::scoring::methods::EnergyMethod.

References DirectReadoutEnergy().

void core::scoring::methods::DirectReadoutEnergy::finalize_total_energy	(	pose::Pose const &	pose,
		ScoreFunction const &	scorefxn,
		EnergyMap &	emap
	)		const [virtual]

All the work happens here.

Totally inefficient implementation to avoid defining nbr-ness

References my_residue_pair_energy(), core::pose::Pose::residue(), and core::pose::Pose::total_residue().

virtual void core::scoring::methods::DirectReadoutEnergy::indicate_required_context_graphs

(

utility::vector1< bool > &

)

const [inline, virtual]

No graphs required.

Implements core::scoring::methods::EnergyMethod.

void core::scoring::methods::DirectReadoutEnergy::my_residue_pair_energy	(	conformation::Residue const &	rsd1,
		conformation::Residue const &	rsd2,
		pose::Pose const &	pose,
		ScoreFunction const &	,
		EnergyMap &	emap
	)		const

Implementation which is currently not used.

Unused rsd-pair implementation

References core::scoring::dna_dr, core::conformation::Residue::is_DNA(), core::conformation::Residue::is_protein(), and core::scoring::dna::DirectReadoutPotential::rsd_rsd_energy().

Referenced by finalize_total_energy().

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

• src/core/scoring/methods/DirectReadoutEnergy.hh
• src/core/scoring/methods/DirectReadoutEnergy.cc