protocols::legacy_sewing::scoring::LegacyMotifScorer Class Reference

#include <LegacyMotifScorer.hh>

Inheritance diagram for protocols::legacy_sewing::scoring::LegacyMotifScorer:

Public Member Functions
	LegacyMotifScorer ()
	default construct More...
	~LegacyMotifScorer () override
core::Real	score (AssemblyCOP assembly) override
core::Real	norm_motif_score (AssemblyCOP assembly)
core::Real	full_motif_score (AssemblyCOP assembly)
numeric::xyzTransform< core::Real >	get_stub (utility::vector1< SewSegment > const &segments, core::Size segment_num, core::Size resnum) const
core::Real	get_score (numeric::xyzTransform< core::Real > stub1, char ss1, char aa1, numeric::xyzTransform< core::Real > stub2, char ss2, char aa2) const
void	dump_motif (AssemblyCOP assembly) const
Public Member Functions inherited from protocols::legacy_sewing::scoring::LegacyAssemblyScorer
	LegacyAssemblyScorer ()
	default construct More...
	~LegacyAssemblyScorer () override

Protected Attributes
core::scoring::motif::MotifHashManager &	mman_
core::chemical::ResidueTypeSetCOP	res_type_set_

Constructor & Destructor Documentation

protocols::legacy_sewing::scoring::LegacyMotifScorer::LegacyMotifScorer

(

)

default construct

protocols::legacy_sewing::scoring::LegacyMotifScorer::~LegacyMotifScorer ( )

inlineoverride

Member Function Documentation

void protocols::legacy_sewing::scoring::LegacyMotifScorer::dump_motif

(

AssemblyCOP

assembly

)

const

References protocols::simple_filters::dssp(), core::scoring::motif::MotifHits::dump_motifs_pdb(), core::chemical::FA_STANDARD, core::scoring::dssp::Dssp::insert_ss_into_pose(), and core::scoring::motif::ResPairMotifQuery::interface_only().

core::Real protocols::legacy_sewing::scoring::LegacyMotifScorer::full_motif_score

(

AssemblyCOP

assembly

)

use Will's Motif score to calculate the motif score for the entire Assembly

References get_score(), get_stub(), res_type_set_, and score().

Referenced by norm_motif_score().

core::Real protocols::legacy_sewing::scoring::LegacyMotifScorer::get_score	(	numeric::xyzTransform< core::Real >	stub1,
		char	ss1,
		char	aa1,
		numeric::xyzTransform< core::Real >	stub2,
		char	ss2,
		char	aa2
	)		const

References core::scoring::motif::MotifHashManager::get_xform_score_BB_BB(), mman_, and score().

Referenced by protocols::legacy_sewing::scoring::LegacyInterModelMotifScorer::full_motif_score(), protocols::legacy_sewing::scoring::LegacyCalciumMotifScorer::full_motif_score(), full_motif_score(), and protocols::legacy_sewing::scoring::LegacyPartnerMotifScorer::interface_motif_score().

numeric::xyzTransform< core::Real > protocols::legacy_sewing::scoring::LegacyMotifScorer::get_stub	(	utility::vector1< SewSegment > const &	segments,
		core::Size	segment_num,
		core::Size	resnum
	)		const

References core::pose::motif::get_backbone_reference_frame().

Referenced by protocols::legacy_sewing::scoring::LegacyInterModelMotifScorer::full_motif_score(), protocols::legacy_sewing::scoring::LegacyCalciumMotifScorer::full_motif_score(), full_motif_score(), and protocols::legacy_sewing::scoring::LegacyPartnerMotifScorer::interface_motif_score().

core::Real protocols::legacy_sewing::scoring::LegacyMotifScorer::norm_motif_score

(

AssemblyCOP

assembly

)

Motif score of the entire Assembly divided by total residue

References full_motif_score().

Referenced by score().

core::Real protocols::legacy_sewing::scoring::LegacyMotifScorer::score ( AssemblyCOP  assembly )

overridevirtual

Use the negative normalized motif score

Implements protocols::legacy_sewing::scoring::LegacyAssemblyScorer.

Reimplemented in protocols::legacy_sewing::scoring::LegacyPartnerMotifScorer.

References norm_motif_score().

Referenced by full_motif_score(), and get_score().

Member Data Documentation

core::scoring::motif::MotifHashManager& protocols::legacy_sewing::scoring::LegacyMotifScorer::mman_

protected

Referenced by get_score().

core::chemical::ResidueTypeSetCOP protocols::legacy_sewing::scoring::LegacyMotifScorer::res_type_set_

protected

Referenced by protocols::legacy_sewing::scoring::LegacyInterModelMotifScorer::full_motif_score(), protocols::legacy_sewing::scoring::LegacyCalciumMotifScorer::full_motif_score(), full_motif_score(), and protocols::legacy_sewing::scoring::LegacyPartnerMotifScorer::interface_motif_score().

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

• src/protocols/legacy_sewing/scoring/LegacyMotifScorer.hh
• src/protocols/legacy_sewing/scoring/LegacyMotifScorer.cc