metrics.hh File Reference

Routines to measure antibodies. More...

#include <core/pose/Pose.fwd.hh>
#include <core/types.hh>
#include <utility/vector1.hh>
#include <protocols/antibody/AntibodyInfo.hh>
#include <protocols/analysis/InterfaceAnalyzerMover.hh>

Classes
struct	protocols::antibody::ParatopeMetric< T >
	Convenience struct for passing around paratope data, including individual data for cdrs. CDRs not present default to 0. Templates are used mainly to have Size/ Real or string values. More...

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::antibody

Functions
vector1< Real >	protocols::antibody::vl_vh_orientation_coords (const core::pose::Pose &pose_in, const AntibodyInfo &ab_info)
	calculate the VH_VL packing angle from 2 sheet definitions on each antibody chain More...
core::Real	protocols::antibody::kink_RD_Hbond (const core::pose::Pose &pose, const protocols::antibody::AntibodyInfo &ab_info)
core::Real	protocols::antibody::kink_bb_Hbond (const core::pose::Pose &pose, const protocols::antibody::AntibodyInfo &ab_info)
core::Real	protocols::antibody::kink_Trp_Hbond (const core::pose::Pose &pose, const protocols::antibody::AntibodyInfo &ab_info)
std::pair< core::Real, core::Real >	protocols::antibody::kink_dihedral (const core::pose::Pose &pose, const protocols::antibody::AntibodyInfo &ab_info, bool debug)
std::pair< ParatopeMetric < core::Real >, ParatopeMetric < core::Real > >	protocols::antibody::paratope_sasa (const core::pose::Pose &pose, const AntibodyInfo &ab_info)
	calculate the SASA of the antibody paratope. Returns all and hydrophobic components. More...
ParatopeMetric< core::SSize >	protocols::antibody::paratope_charge (core::pose::Pose const &pose, const protocols::antibody::AntibodyInfo &abinfo)
	calculate the net charge of the paratope More...
core::SSize	protocols::antibody::pose_charge (core::pose::Pose const &pose)
	calculate the net charge of the antibody More...
core::Real	protocols::antibody::cdr_energy (core::pose::Pose const &pose, AntibodyInfoCOP ab_info, core::scoring::ScoreFunctionCOP scorefxn, CDRNameEnum const &cdr)
	calculate dSASA of the paratope and antigen using result of InterfaceAnalyzerMover More...
core::Real	protocols::antibody::cdr_CN_anchor_distance (core::pose::Pose const &pose, AntibodyInfoCOP ab_info, CDRNameEnum const &cdr)
	Calculate the distance between the carbon and nitrogen of each residue before and after the CDR respectively. More...

Detailed Description

Routines to measure antibodies.

Author

Jeffrey J. Gray, Jared Adolf-Bryfogle