meshi.molecularElements.extendedAtoms
Class Gln

java.lang.Object
  meshi.molecularElements.Residue
      meshi.molecularElements.extendedAtoms.ResidueExtendedAtoms
          meshi.molecularElements.extendedAtoms.Gln

All Implemented Interfaces:

java.lang.Comparable, ResidueCreator, MeshiPotential, Attributable, MeshiAttribute

public class Gln
extends ResidueExtendedAtoms

                O
                |
       N - CA - C...n
       |   |
       H   CB
           |
           CG - CD - NE2 - HE21
                |    |
                OE1  HE22









Field Summary




 Atom
CD



           



 Atom
CG



           



static java.lang.String
COMMENT



           



 Atom
HE21



           



 Atom
HE22



           



 Atom
NE2



           



 Atom
OE1



           


 
Fields inherited from class meshi.molecularElements.extendedAtoms.ResidueExtendedAtoms
C, CA, CB, creator, H, N, O, OXT
 
Fields inherited from class meshi.molecularElements.Residue
atoms, bonds, head, mode, name, nextAtom, prevAtom, tail, type
 
Fields inherited from interface meshi.parameters.MeshiPotential
ACCESSIBLE, ALPHA_ANGLE_PARAMETERS, ALPHA_TORSION_PARAMETERS, ANGLE_PARAMETERS, ATOMIC_PAIRWISE_PMF_SUMMA_PARAMETERS, BOND_PARAMETERS, BURIED, COIL, COMPOSITE_PROPENSITY_2D_PARAMETERS, COMPOSITE_PROPENSITY_2D_WITH_PP_PARAMETERS, COMPOSITE_PROPENSITY_PARAMETERS, COMPOSITE_TORSIONS_PARAMETERS, CONTACTS_ENVIRONMENT_PARAMETERS, CONTACTS_PARAMETERS, COOPERATIVE_ATOMIC_PAIRWISE_PMF_SUMMA_PARAMETERS, COOPERATIVE_PROPENSITY_PARAMETERS, COOPERATIVE_RAMACHANDRAN_PARAMETERS, ELECTROSTATICS_PARAMETERS, EXCLUDED_VOL_PARAMETERS, FLAT_RAMACH_PARAMETERS, HELIX, HELIX_OR_COIL, HYDROGEN_BONDS_PAIRS_BETA_PARAMETERS, HYDROGEN_BONDS_PAIRS_HELIX_PARAMETERS, HYDROGEN_BONDS_PAIRS_PARAMETERS_SURFACE, LENNARD_JONES_PARAMETERS, LENNARD_JONES_PARAMETERS_BACKBONE, LENNARD_JONES_PARAMETERS_CA, LJ_ENVIRONMENT_PARAMETERS, LJ_ENVIRONMENT_PARAMETERS_BACKBONE, LJ_ENVIRONMENT_PARAMETERS_CA, ONE_ANGLE_PARAMETERS, OUT_OF_PLANE_PARAMETERS, PLANE_PARAMETERS, PROPENSITY_ANGLE_PARAMETERS, PROPENSITY_TORSION_PARAMETERS, SHEET, SHEET_OR_COIL, SOLVATE_LONG_HB_PARAMETERS, SOLVATE_MINIMIZE_HB_PARAMETERS, SOLVATE_NOHB_PARAMETERS, SOLVATE_PARAMETERS, SOLVATE_SC_PARAMETERS, TWO_ANGLES_PARAMETERS, TWO_TORSIONS_PARAMETERS
 
Fields inherited from interface meshi.util.MeshiAttribute
BEAUTIFY_ATTRIBUTE, CN_ATTRIBUTE, DISTANCE_FROM_CATALYTIC_ATTRIBUTE, EXCLUDED_VOLUME_ELEMENT_ATTRIBUTE, GAUSSIAN_ALPHA, GAUSSIAN_ATTRIBUTE, HYDROGEN_BONDS_ATTRIBUTE, LENNARD_JONES_ELEMENT_ATTRIBUTE, LOOP_RESIDUE, ORIGINAL_ATOM, RESIDUE_ATTRIBUTE, RESIDUE_TORSIONS_ATTRIBUTE, SECONDARY_STRUCTURE_ATTRIBUTE, SEQUENCE_ALIGNMENT_COLUMN_ATTRIBUTE, SIDE_CHAIN_SOLVATE_ALL_ATOM_ATTRIBUTE, SOLVATE_ALL_ATOM_ATTRIBUTE, SOLVATE_CA_ATTRIBUTE, SOLVATE_ROT1_ATTRIBUTE, SUMMA_ATTRIBUTE
 



Constructor Summary
Gln(AtomList atomList,
    ResidueIdentifier id,
    ResidueMode mode)



           
 



Method Summary




 void
addHydrogens(BondParametersList bondParametersList,
             AngleParametersList angleParametersList)



           



 java.lang.String
comment()



           


 
Methods inherited from class meshi.molecularElements.extendedAtoms.ResidueExtendedAtoms
amideN, c, ca, cb, getAtom, h, head, n, o, tail, toAla, toArg, toAsn, toAsp, toCys, toGln, toGlu, toHis, toIle, toLeu, toLys, toMet, toPro, toSer, toThr, toTrp, toTyr, toVal
 
Methods inherited from class meshi.molecularElements.Residue
accessibility, addAttribute, amideH, atoms, bonds, carbonylC, carbonylO, cg, chain, compareTo, create, defrost, dummy, equals, find, find, get, getAtom, getAttribute, getMode, ID, initiateAtoms, key, nextAtom, number, position, prevAtom, reliability, secondaryStructure, setAccessibility, setAccessibility, setNextAtom, setPrevAtom, setPrevNextAtomsToNull, setReliability, setResidueInAtoms, setSecondaryStructure, setSecondaryStructure, test, toString, type
 
Methods inherited from class java.lang.Object
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 





Field Detail



CG
public final Atom CG







CD
public final Atom CD







OE1
public final Atom OE1







NE2
public final Atom NE2







HE21
public final Atom HE21







HE22
public final Atom HE22







COMMENT
public static final java.lang.String COMMENT


See Also:
Constant Field Values





Constructor Detail



Gln
public Gln(AtomList atomList,
           ResidueIdentifier id,
           ResidueMode mode)






Method Detail



comment
public java.lang.String comment()


Overrides:
comment in class Residue








addHydrogens
public void addHydrogens(BondParametersList bondParametersList,
                         AngleParametersList angleParametersList)


Overrides:
addHydrogens in class ResidueExtendedAtoms