European Journal of Chemistry

Synthesis, X-ray crystal structure, DFT, Hirshfeld surfaces, energy frameworks, and molecular docking analysis of a bicyclic ortho-aminocarbonitrile derivative

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Published: Jun 30, 2022
DOI: https://doi.org/10.5155/eurjchem.13.2.135-144.2225
Keywords:
Hirshfeld surface, Molecular docking, X-ray crystallography, 3D energy framework, Density functional theory, Molecular electrostatic potential
Section
Research Article
Issue
Vol. 13 No. 2 (2022): June 2022
Dates
Received 2022-01-21
Accepted 2022-02-20
Published 2022-06-30
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Ruchika Sharma
Chemical Crystallography Laboratory, Department of Physics, University of Jammu, Jammu Tawi-180006, India
https://orcid.org/0000-0002-5698-4067
Sandeep Ashok Sankpal
Department of Chemistry, Shivaji University, Kolhapur, Maharashtra-416004, India
https://orcid.org/0000-0001-8209-5899
Pradeep Jangonda Patil
Department of Chemistry, Shivaji University, Kolhapur, Maharashtra-416004, India
https://orcid.org/0000-0002-2880-8226
Saminathan Murugavel
Department of Physics, Thanthai Periyar Government Institute of Technology, Vellore-632002, Tamil Nadu, India
https://orcid.org/0000-0002-4626-8104
Sonachalam Sundramoorthy
Department of Physics, Agni College of Technology OMR, Thalambur, Chennai-600130, Tamil Nadu, India
https://orcid.org/0000-0002-5310-0692
Rajni Kant
Chemical Crystallography Laboratory, Department of Physics, University of Jammu, Jammu Tawi-180006, India
https://orcid.org/0000-0001-8043-2329

Abstract

2-Amino-4-(2, 5-dimethoxyphenyl)-4a,5,6,7-tetrahydronaphthalene-1,3,3(4H)-tricarbonitrile has been synthesized and characterized by conventional spectroscopic techniques (FT-IR and 1H NMR) and the three-dimensional structure elucidated by single crystal X-ray diffraction studies (SC-XRD). It exists in monoclinic crystal system with space group P21/c and lattice parameters: a = 14.641(13) Å, b = 8.653(4) Å, c = 16.609(10) Å, β = 116.34(3)°, and Z = 4. In the crystal packing, molecules are connected through N-H···O and N-H···N intermolecular and intramolecular C-H···O interactions. The N1-H11···N2 interaction results in the formation of a dimer corresponding to R22(12) graph-set motif. The molecular structure has been theoretically optimized by using density functional theory (DFT) with the basis set B3LYP/6-311G (d,p). The optimized bond geometry shows consistency with the SC-XRD data. Besides this, the molecular electrostatic potential (MEP), Mulliken charges, and frontier molecular orbital analysis have been described. The dnorm, shape index, curvedness, crystal voids, 2D fingerprint (FP) plots, and 3D energy frameworks using Hirshfeld surface (HS) studies have also been computed and investigated. The molecular docking studies for 2-amino-4-(2, 5-dimethoxyphenyl)-4a,5,6,7-tetrahydronaphthalene-1,3,3(4H)-tricarbonitrile with DNA gyrase/lanosterol 14α-demethylase suggest that the compound may act as an active antimicrobial drug.


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Sharma, R.; Sankpal, S. A.; Patil, P. J.; Murugavel, S.; Sundramoorthy, S.; Kant, R. Synthesis, X-Ray Crystal Structure, DFT, Hirshfeld Surfaces, Energy Frameworks, and Molecular Docking Analysis of a Bicyclic Ortho-Aminocarbonitrile Derivative. Eur. J. Chem. 2022, 13, 135-144.

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The University of Jammu for funding under the RUSA-2.0 project of the Government of India
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