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MoleculeComplex

Guides

  • MoleculeComplex

Symbols

  • Packmol
  • FindCoordinationBonds
  • FindHydrogenBonds
  • MakeMolecule3D
  • MoleculeComplexAngle
  • MoleculeComplexAppend
  • MoleculeComplexDelete
  • MoleculeComplexDistance
  • MoleculeComplexEnergy
  • MoleculeComplexJoin
  • MoleculeComplex
  • MoleculeComplexOptimizeGeometry
  • MoleculeComplexPart
  • MoleculeComplexPlot3D
  • MoleculeComplexPosition
  • MoleculeComplexQ
  • MoleculeComplexToMolecule
  • Packmol
  • RandomRotationTransform
  • $MoleculeComplexVersion
RobertNachbar`MoleculeComplex`
MakeMolecule3D
​
MakeMolecule3D
[mol]
returns a new molecule with three-dimensional coordinates.
​
Details and Options

Examples  
(1)
Basic Examples  
(1)
Generate a
Molecule
object for acetamide from a SMILES string:
In[1]:=
mol=Molecule["CC(=O)N"]
Out[1]=
Molecule
Formula:
C
2
H
5
NO
Atoms:
9
Bonds:
8

Check it for three-dimensional coordinates:
In[2]:=
FilterRules[Options[mol],AtomCoordinates]
Out[2]=
{}
Generate three-dimensional coordinates:
In[3]:=
mol3D=
MakeMolecule3D
[mol]
Out[3]=
Molecule
Formula:
C
2
H
5
NO
Atoms: 9 Bonds: 8

Check it for three-dimensional coordinates:
In[4]:=
FilterRules[Options[mol3D],AtomCoordinates]
Out[4]=
AtomCoordinatesQuantityArray
Dimensions: {9,3}
Unit: Angstroms

SeeAlso
MoleculeModify
RelatedGuides
▪
MoleculeComplex
""

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