org.jmol.modelset.HBond

All Implemented Interfaces:: SimpleEdge

public class HBond extends Bond

Field Summary

Fields inherited from class org.jmol.modelset.Bond
atom1, atom2, colix, mad, myVisibilityFlag, shapeVisibilityFlags

Fields inherited from class org.jmol.util.Edge
BOND_AROMATIC, BOND_AROMATIC_DOUBLE, BOND_AROMATIC_MASK, BOND_AROMATIC_SINGLE, BOND_COVALENT_DOUBLE, BOND_COVALENT_MASK, BOND_COVALENT_QUADRUPLE, BOND_COVALENT_QUINTUPLE, BOND_COVALENT_sextuple, BOND_COVALENT_SINGLE, BOND_COVALENT_TRIPLE, BOND_H_CALC, BOND_H_CALC_MASK, BOND_H_MINUS_3, BOND_H_MINUS_4, BOND_H_NUCLEOTIDE, BOND_H_PLUS_2, BOND_H_PLUS_3, BOND_H_PLUS_4, BOND_H_PLUS_5, BOND_H_REGULAR, BOND_HBOND_SHIFT, BOND_HYDROGEN_MASK, BOND_NEW, BOND_ORDER_ANY, BOND_ORDER_NULL, BOND_ORDER_UNSPECIFIED, BOND_PARTIAL01, BOND_PARTIAL12, BOND_PARTIAL23, BOND_PARTIAL32, BOND_PYMOL_MULT, BOND_PYMOL_SCALE, BOND_RENDER_MASK, BOND_RENDER_SINGLE, BOND_STEREO_EITHER, BOND_STEREO_FAR, BOND_STEREO_NEAR, BOND_STRUT, BOND_SULFUR_MASK, index, order, TYPE_ATROPISOMER, TYPE_ATROPISOMER_REV
Constructor Summary

Constructors

Constructor

Description

HBond(Atom atom1, Atom atom2, int order, short mad, short colix, float energy)
Method Summary

Modifier and Type

Method

Description

static final int

calcEnergy(double distAH, double distCH, double distCD, double distAD)

float

getEnergy()

Methods inherited from class org.jmol.modelset.Bond
getAtom, getAtomIndex1, getAtomIndex2, getCIPChirality, getCovalentOrder, getIdentity, getOtherAtom, getOtherNode, getValence, is, isAromatic, isCovalent, isCovalentNotPartial0, isHydrogen, setAtropisomerOptions, setCIPChirality, setMad, setOrder, setTranslucent, toString

Methods inherited from class org.jmol.util.Edge
getArgbHbondType, getAtropismNode, getAtropismOrder, getAtropismOrder12, getBondOrderFromFloat, getBondOrderFromString, getBondOrderNameFromOrder, getBondOrderNumberFromOrder, getBondType, getCmlBondOrder, getCovalentBondOrder, getFloatEncodedInt, getPartialBondDotted, getPartialBondOrder, getPartialBondOrderFromFloatEncodedInt, isAtropism, isOrderH, isPartial, isStereo

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Details
- HBond
  
  public HBond(Atom atom1, Atom atom2, int order, short mad, short colix, float energy)
Method Details
- getEnergy
  
  public float getEnergy()
  
  Overrides:
  
  getEnergy in class Bond
- calcEnergy
  
  public static final int calcEnergy(double distAH, double distCH, double distCD, double distAD)
  
  Parameters:
  
  distAH -
  
  distCH -
  
  distCD -
  
  distAD -
  
  Returns:
  
  cal/mol

Class HBond

Field Summary

Fields inherited from class org.jmol.modelset.Bond

Fields inherited from class org.jmol.util.Edge

Constructor Summary

Method Summary

Methods inherited from class org.jmol.modelset.Bond

Methods inherited from class org.jmol.util.Edge

Methods inherited from class java.lang.Object

Constructor Details

HBond

Method Details

getEnergy

calcEnergy