Experimental results
suggest that molecular geometry and energies
can be influenced by the presence of thin film substrates as well
as surrounding molecules. It is imperative that computational models
take this influence into account. The accurate computational modeling
of these molecules is an efficient way of carrying out chemistry calculations
and reinforcing experimental findings. In our study, density functional
theory (DFT) and molecular mechanics (MM) are used to model the configurations
of the organic semiconducting materials, 3,4,9,10-perylene tetracarboxylic
dianhydride, C24H8O6 (PTCDA), and
copper(II) phthalocyanine, C32H16CuN8 (CuPc), as adsorbed on single- and double-layer NaCl substrates
of various dimensions and charge settings. After a geometry and charge
optimization of the molecules using DFT, the molecular geometries
are optimized under different environments using computational calculations
with specific force-field settings in HyperChem Professional 8.0(TM)
software using MM. Energies and geometries of the molecules are then
recorded, and our data are compared to experimental results of similar
systems. We find that, with the appropriate choice of substrate properties,
the calculated molecular configurations directly reflect those found
experimentally. Our results support the idea that this method of simulation
can produce reliable models in the field of physical chemistry.