code: public static final void translate (Atom atom, Vector3d v) {
  
  		atom.setX(atom.getX()+v.x);
  		atom.setY(atom.getY()+v.y);
  		atom.setZ(atom.getZ()+v.z);
  	}
docs: Translates an atom object, given a Vector3d (i.e. the vecmath library
  double-precision 3-d vector)
  
  @param atom
  @param v