core::pose::rna::RNA_IdealCoord Class Reference

#include <RNA_IdealCoord.hh>

Inheritance diagram for core::pose::rna::RNA_IdealCoord:

Public Member Functions
	RNA_IdealCoord ()
	~RNA_IdealCoord () override
void	apply (Pose &pose, Size const seqpos, core::chemical::rna::PuckerState pucker, bool const keep_backbone_torsion=true) const
void	apply (Pose &pose, utility::vector1< core::chemical::rna::PuckerState > const &puckers, bool const keep_backbone_torsion=true) const
void	apply (Pose &pose, bool const keep_backbone_torsion=true) const
void	apply_pucker (Pose &pose, Size const seqpos, core::chemical::rna::PuckerState pucker, bool const keep_backbone_torsion=true) const
bool	is_torsion_exists (Pose const &pose, id::TorsionID const &torsion_id) const

Private Member Functions
void	init ()
void	apply_coords (Pose &pose, Size const seqpos, Size const res_class, bool const ignore_base, bool const keep_backbone_torsion) const

Private Attributes
utility::vector1< MiniPoseOP >	ref_mini_pose_list_
std::string const	path_
Real	delta_cutoff_

Constructor & Destructor Documentation

core::pose::rna::RNA_IdealCoord::RNA_IdealCoord

(

)

References init().

core::pose::rna::RNA_IdealCoord::~RNA_IdealCoord ( )

overridedefault

Member Function Documentation

void core::pose::rna::RNA_IdealCoord::apply	(	Pose &	pose,
		Size const	seqpos,
		core::chemical::rna::PuckerState	pucker,
		bool const	keep_backbone_torsion = true
	)		const

References core::chemical::rna::ANY_PUCKER, apply_coords(), core::id::BB, core::chemical::rna::DELTA, delta_cutoff_, core::chemical::na_rad, core::chemical::na_rcy, core::chemical::na_rgu, core::chemical::na_ura, core::chemical::rna::NORTH, core::pose::Pose::residue(), core::chemical::rna::SOUTH, and core::pose::Pose::torsion().

Referenced by apply().

void core::pose::rna::RNA_IdealCoord::apply	(	Pose &	pose,
		utility::vector1< core::chemical::rna::PuckerState > const &	puckers,
		bool const	keep_backbone_torsion = true
	)		const

References apply(), and core::pose::Pose::size().

void core::pose::rna::RNA_IdealCoord::apply	(	Pose &	pose,
		bool const	keep_backbone_torsion = true
	)		const

References core::chemical::rna::ANY_PUCKER, apply(), and core::pose::Pose::size().

void core::pose::rna::RNA_IdealCoord::apply_coords ( Pose &  pose, Size const  seqpos, Size const  res_class, bool const  ignore_base, bool const  keep_backbone_torsion  ) const

private

References core::chemical::rna::ALPHA, core::id::BB, core::chemical::rna::BETA, core::id::CHI, core::pose::copydofs::copy_dofs(), core::pose::copydofs::copy_dofs_match_atom_names(), core::chemical::rna::EPSILON, core::chemical::rna::GAMMA, is_torsion_exists(), core::chemical::rna::non_base_atoms, ref_mini_pose_list_, core::pose::Pose::residue(), core::pose::Pose::residue_type(), core::pose::Pose::set_torsion(), core::pose::Pose::torsion(), and core::chemical::rna::ZETA.

Referenced by apply(), and apply_pucker().

void core::pose::rna::RNA_IdealCoord::apply_pucker	(	Pose &	pose,
		Size const	seqpos,
		core::chemical::rna::PuckerState	pucker,
		bool const	keep_backbone_torsion = true
	)		const

References core::chemical::rna::ANY_PUCKER, apply_coords(), core::id::BB, core::chemical::rna::DELTA, delta_cutoff_, core::chemical::rna::NORTH, core::pose::Pose::residue(), core::chemical::rna::SOUTH, and core::pose::Pose::torsion().

Referenced by core::pose::rna::apply_pucker().

void core::pose::rna::RNA_IdealCoord::init ( void  )

private

References core::io::pdb::build_pose_from_pdb_as_is(), core::chemical::rna::RNA_FittedTorsionInfo::delta_cutoff(), delta_cutoff_, core::chemical::FA_STANDARD, path_, ref_mini_pose_list_, and torsion_info.

Referenced by RNA_IdealCoord().

bool core::pose::rna::RNA_IdealCoord::is_torsion_exists	(	Pose const &	pose,
		id::TorsionID const &	torsion_id
	)		const

References core::id::BB, core::pose::Pose::conformation(), core::conformation::Conformation::get_torsion_angle_atom_ids(), core::conformation::Residue::mainchain_atoms(), core::pose::Pose::residue(), core::id::TorsionID::rsd(), core::pose::Pose::size(), core::id::TorsionID::torsion(), and core::id::TorsionID::type().

Referenced by apply_coords().

Member Data Documentation

Real core::pose::rna::RNA_IdealCoord::delta_cutoff_

private

Referenced by apply(), apply_pucker(), and init().

std::string const core::pose::rna::RNA_IdealCoord::path_

private

Referenced by init().

utility::vector1< MiniPoseOP > core::pose::rna::RNA_IdealCoord::ref_mini_pose_list_

private

Referenced by apply_coords(), and init().

---

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

• src/core/pose/rna/RNA_IdealCoord.hh
• src/core/pose/rna/RNA_IdealCoord.cc