VariantType.cc File Reference

VariantTypes are used by Patches. More...

#include <core/chemical/VariantType.hh>

Go to the source code of this file.

Namespaces
	core
	A class for defining atom parameters, known as atom_types.
	core::chemical

Constant Groups
	core
	A class for defining atom parameters, known as atom_types.
	core::chemical

Functions
VariantType const	core::chemical::UPPER_TERMINUS ("UPPER_TERMINUS")
	C-terminus cap. More...
VariantType const	core::chemical::LOWER_TERMINUS ("LOWER_TERMINUS")
	N-terminus cap. More...
VariantType const	core::chemical::CUTPOINT_LOWER ("CUTPOINT_LOWER")
	for use during loop modeling, at positions before a cutpoint More...
VariantType const	core::chemical::CUTPOINT_UPPER ("CUTPOINT_UPPER")
	for use during loop modeling, at positions after a cutpoint More...
VariantType const	core::chemical::DISULFIDE ("DISULFIDE")
VariantType const	core::chemical::BRANCH_POINT ("BRANCH_POINT")
	Variant type used for branched polymers and glycosylations. More...
VariantType const	core::chemical::BRANCH_LOWER_TERMINUS ("BRANCH_LOWER_TERMINUS")
	Variant type used for branched polymers and glycosylations. More...
VariantType const	core::chemical::ADDUCT ("ADDUCT")
VariantType const	core::chemical::METHYLATION ("METHYLATION")
VariantType const	core::chemical::CENTROID_HA ("CENTROID_WITH_HA")
VariantType const	core::chemical::PROTONATED ("PROTONATED")
VariantType const	core::chemical::DEPROTONATED ("DEPROTONATED")
VariantType const	core::chemical::SPECIAL_ROT ("SPECIAL_ROT")
	Generic variant type that allows for differential scoring of a set of residues/rotamers. More...
VariantType const	core::chemical::VIRTUAL_PHOSPHATE ("VIRTUAL_PHOSPHATE")
VariantType const	core::chemical::VIRTUAL_RNA_RESIDUE ("VIRTUAL_RNA_RESIDUE")
VariantType const	core::chemical::VIRTUAL_O2STAR_HYDROGEN ("VIRTUAL_O2STAR_HYDROGEN")
VariantType const	core::chemical::PHOSPHORYLATION ("PHOSPHORYLATION")
VariantType const	core::chemical::ACETYLATION ("ACETYLATION")
VariantType const	core::chemical::SULFATION ("SULFATION")
VariantType const	core::chemical::CARBOXYLATION ("CARBOXYLATION")
VariantType const	core::chemical::HYDROXYLATION ("HYDROXYLATION")
VariantType const	core::chemical::DIMETHYLATION ("DIMETHYLATION")
VariantType const	core::chemical::TRIMETHYLATION ("TRIMETHYLATION")
VariantType const	core::chemical::DIIODINATION ("DIIODINATION")
VariantType const	core::chemical::ACETYLATED_NTERMINUS ("ACETYLATED_NTERMINUS")
	Acetylated N-terminus cap, written for creating amino acid dipeptides for NCAA rotamer libraries. More...
VariantType const	core::chemical::METHYLATED_CTERMINUS ("METHYLATED_CTERMINUS")
	Methylated C-terminus cap, written for creating amino acid dipeptides for NCAA rotamer libraries. More...
VariantType const	core::chemical::SC_ORBITALS ("SC_ORBITALS")
VariantType const	core::chemical::N_ACETYLATION ("N_ACETYLATION")
	Cap extensions at termini to include peptide bonds, written for stepwise assembly (SWA) code. More...
VariantType const	core::chemical::C_METHYLAMIDATION ("C_METHYLAMIDATION")
VariantType const	core::chemical::REPLONLY ("REPLONLY")
	@ brief only the repulsive energy will be considered during structure calculations More...
VariantType const	core::chemical::OOP_PRE ("OOP_PRE")
	@ brief oop_pre patch, used for oligooxopiperazines (OOPs) More...
VariantType const	core::chemical::OOP_POST ("OOP_POST")
	@ brief oop_post patch, used for oligooxopiperazines (OOPs) More...
VariantType const	core::chemical::HBS_PRE ("HBS_PRE")
	@ brief hbs_pre patch, used for hydrogen bond surrogates More...
VariantType const	core::chemical::HBS_POST ("HBS_POST")
	@ brief hbs_post patch, used for hydrogen bond surrogates More...
VariantType const	core::chemical::SIDECHAIN_CONJUGATION ("SIDECHAIN_CONJUGATION")
	This is used for chemically conjugable residues (LYX, CYX) used for sidechain conjugation (like ubiquitination) More...

Detailed Description

VariantTypes are used by Patches.

VariantTypes are utilized by Patches. All the type does is add a name that can be used later on in different protocols. It also helps the patch system keep track of what residues are patched with what type. The type has no magical meaning. It is a name handler.

Author

Phil Bradley Steven Combs - comments only

Last Modified: October 22 2010

Author

Phil Bradley

Definition in file VariantType.cc.