Structural, Electronic, and Vibrational Properties of Isoniazid and Its Derivative N-Cyclopentylidenepyridine-4-carbohydrazide: A Quantum Chemical Study

Pandey, Anoop kumar; Bajpai, Abhishek; Baboo, Vikas; Dwivedi, Apoorva

doi:https://doi.org/10.1155/2014/894175

Journal of Theoretical Chemistry

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Research Article | Open Access

Volume 2014 | Article ID 894175 | https://doi.org/10.1155/2014/894175

Structural, Electronic, and Vibrational Properties of Isoniazid and Its Derivative N-Cyclopentylidenepyridine-4-carbohydrazide: A Quantum Chemical Study

Anoop kumar Pandey,¹Abhishek Bajpai,²Vikas Baboo,³and Apoorva Dwivedi²

Academic Editor: John R. Sabin

Received25 Nov 2013

Accepted13 Jan 2014

Published24 Feb 2014

Abstract

Isoniazid (Laniazid, Nydrazid), also known as isonicotinylhydrazine (INH), is an organic compound that is the first-line medication in prevention and treatment of tuberculosis. The optimized geometry of the isoniazid and its derivative N-Cyclopentylidenepyridine-4-carbohydrazide molecule has been determined by the method of density functional theory (DFT). For both geometry and total energy, it has been combined with B3LYP functionals having LANL2DZ and 6-311 G (d, p) as the basis sets. Using this optimized structure, we have calculated the infrared wavenumbers and compared them with the experimental data. The calculated wavenumbers by LANL2DZ are in an excellent agreement with the experimental values. On the basis of fully optimized ground-state structure, TDDFT//B3LYP/LANL2DZ calculations have been used to determine the low-lying excited states of isoniazid and its derivative. Based on these results, we have discussed the correlation between the vibrational modes and the crystalline structure of isoniazid and its derivative. A complete assignment is provided for the observed FTIR spectra. The molecular HOMO, LUMO composition, their respective energy gaps, and MESP contours/surfaces have also been drawn to explain the activity of isoniazid and its derivative.

1. Introduction

Tuberculosis remains a major worldwide health problem with at least 10 million new cases and 3 million deaths estimated to occur annually. Isoniazid (Laniazid, Nydrazid), also known as isonicotinylhydrazine (INH), is an organic compound that is the first-line medication in prevention and treatment of tuberculosis. The compound was first synthesized in the early 20th century [1] but its activity against tuberculosis was first reported in the early 1950s, and three pharmaceutical companies attempted unsuccessfully to simultaneously patent the drug [2]. With the introduction of isoniazid, a cure for tuberculosis was first considered reasonable. Isoniazid is available in tablet, syrup, and injectable forms (given intramuscularly or intravenously). It is available worldwide, is inexpensive, and is generally well tolerated. It is manufactured from isonicotinic acid, which is produced from 4-methylpyridine [3].

A previous investigation was done on determination of microquantities of isoniazid (INH), either in pure form or in pharmaceutical formulations by calorimetric method [4]. In another work, studies on the 4-benzoylpyridine-3-carboxamide entity as a fragment model of the isoniazid-NAD adduct were carried out [5]. A previous work on vibrational analysis of isoniazid was done by Gunasekaran et al. [6] by Wilson G.F. method which is a classical method, so it is necessary to work again with quantum chemical method to reduce the inaccuracy in previous work. The title compound, N-cyclopentylidenepyridine-4-carbohydrazide, C₁₁H₁₃N₃O, is a derivative of the antituberculosis drug isoniazid. The XRD analysis of this compound was done recently by Lemmerer et al. [7]. It is a derivative of such an important biological isoniazid molecule so comparative study of these two compounds is necessary for discovery of new drugs.

In the present communication, the molecular structure of well-known drug isoniazid and its derivative has been analyzed using the density functional theory. The equilibrium geometry, harmonic vibrational frequencies, and HOMO-LUMO gap have been calculated by the density functional B3LYP method employing LANL2DZ and 6-311 G (d, p) as the basis sets. The detailed interpretation of the infrared spectra of isoniazid and its derivative in terms of the normal mode analysis has been reported. The main objective of the present study is to investigate in detail the vibrational spectra of important biological molecules (isoniazid and its derivative) by DFT [8] method, which can presumably help in understanding its dynamical behavior. To the best of our knowledge no detailed DFT calculations have been performed on isoniazid and its derivative so far in the literature. Here we have discussed only results from LANL2DZ because these results are closer to experimental data than 6-311 G (d, p). So, here LANL2DZ shows supremacy over 6-311 G (d, p) basis set.

2. Experimental and Computational Methods

2.1. Structure and Spectra

The molecular structures of the title compounds isoniazid and its derivative are made by molecular modeling. The model molecular structures of the compounds are given in Figures 1 and 2. Fourier transform infrared spectrum was recorded with FTIR Perkin Elmer spectrometer in KBr dispersion in the range of 400 to 4000 cm⁻¹ for the title molecule. Fourier transform Raman spectrum was recorded in the range of 50 to 3500 cm⁻¹ for isoniazid [6].

2.2. Computational Methods

Initial geometry was generated from standard geometrical parameters and was minimized without any constraint in the potential energy surface. The gradient corrected density functional theory (DFT) with the three-parameter hybrid functional (B3) [9] for the exchange part and the Lee-Yang-Parr (LYP) correlation function [10] has been employed for the computation of molecular structure, vibrational frequencies, HOMO-LUMO, and energies of the optimized structures, using GAUSSIAN 09 [11]. The calculated vibrational frequencies have also been scaled by a factor of 0.963 [12]. By combining the results of GaussView’s program [13] with symmetry considerations, vibrational frequency assignments were made with a high degree of accuracy. We used this approach for the prediction of IR frequencies of title compound and found it to be very straightforward. Density functional theory calculations are reported to provide excellent vibrational frequencies of organic compound if the calculated frequencies are scaled to compensate for the approximate treatment of electron correlation, for basis set deficiencies and for anharmonicity. A number of studies have been carried out regarding calculations of vibrational spectra by using B3LYP methods with LANL2DZ and 6-311 G (d, p) basis sets. The scaling factor was applied successfully for B3LYP method and was found to be easily transferable in a number of molecules. Thus, vibrational frequencies calculated by using the B3LYP functional with LANL2DZ as basis set can be utilized to eliminate the uncertainties in the fundamental assignment in the IR spectra.

3. Results and Discussion

3.1. Molecular Structure

In the case of isoniazid, the molecule has only one pyridine ring. The optimized bond length of C–C in six membered pyridine ring ranges between 1.403 Å and 1.414 Å. The optimized bond length of C–C outside the ring is 1.509 Å. The optimized bond lengths of C–N in ring range between 1.356 Å and 1.359 Å. The optimized bond length of C–N outside the ring is found to be 1.390 Å. The optimized C–H bond lengths attached to the ring are found to be 1.080 Å −1.087 Å. The optimized C=O bond length adjacent to ring is found to be 1.262 Å. The optimized N–H bond lengths adjacent to ring are found to be 1.016 Å–1.020 Å.

When a five-membered carbon ring is also attached to isoniazid, it becomes N-cyclopentylidenepyridine-4-carbohydrazide. For N-cyclopentylidenepyridine-4-carbohydrazide, it has one six-membered pyridine ring (A) and one five-membered carbon ring. The optimized bond length of C–C in six-membered pyridine ring A ranges between 1.405 Å and 1.411 Å, while for another ring B it ranges between 1.521 Å and 1.553 Å. The optimized bond lengths of C–N in pyridine ring A range between 1.356 Å and 1.359 Å. The optimized bond length of C–N in between both rings is found to be 1.392 Å. The optimized C–H bond lengths attached to the ring A are found to be 1.084 Å–1.086 Å while for ring B it ranges between 1.094 Å and 1.101 Å. The optimized C=O bond length in between both rings is found to be 1.249 Å. The optimized N–H bond length in between the rings is found to be 1.017 Å. All the optimized bond lengths are in good agreement with the experimental values given in the literature and summarized in Table 1 [7]. This difference in the bond lengths is attributed to the difference in bond strength. The length of a chemical bond is the result of equilibrium of attractive and repulsive forces between the atoms which are bonded. In fact, the distance between the atoms of a bond is not constant since the atoms are always vibrating in molecules; the measured bond distance is, therefore, an average value. Although the measurements may vary in accuracy, still similar bonds have fairly constant lengths in different molecules, variation generally being much less.

3.2. Vibrational Assignments

The molecules isoniazid and its derivative (CPPC) contain 17 and 28 atoms and they have 45 and 78 normal modes of vibration, respectively. All the fundamental vibrations are active IR. The harmonic vibrational frequencies are calculated for both the molecules at B3LYP/LANL2DZ and 6-311 G (d, p) level and experimental frequencies (FTIR) have been compared in Tables 2 and 3 for isoniazid and its derivative (CPPC), respectively. Tables 2 and 3 also include the vibrational assignments of the normal modes. Vibrational assignments are based on the observation of the animated modes in GaussView and assignments reported in the literature.

In isoniazid, the N–H functional group is present at 3389 cm⁻¹ in calculated spectra which is in good agreement with the experimental data. The C–H functional group is present at a number of positions. The stretching vibration, ν(C–H), is expected to occur in the region 2800–3200 cm⁻¹. The ν(C–H) functional group is present at 3079 cm⁻¹ in calculated spectra which is in good agreement with the experimental data, that is, 3050 cm⁻¹. The calculated values of the ν(C–H) vibration lie within this spectral range. The calculated (scaled) and experimental frequencies are deviated by a large amount, which may be explained by the presence of hydrogen bonding in the solid sample. The theoretical calculations have been done on gas-phase molecule.

The –NH₂ functional group is important constituents of isoniazid and vibrations corresponding to these groups are present in a number of modes. The stretching modes corresponding to these groups are of two types: symmetric and asymmetric stretching. In the symmetric stretching vibration, both the arms of the functional group are stretching in-phase with each other, whereas, in the asymmetric stretching mode, the atomic hydrogen motions are out-of-phase. The twisting and rocking vibrations for both the functional groups are present mixed with other vibrations in middle region. As expected, the ring torsion modes along with wagging modes appear in the low frequency range. An intense band due to torsion of C–C–C–C is at 658 cm⁻¹ in calculated spectrum which matches well with the experimental one, that is, 560 cm⁻¹. There are some frequencies in lower region having appreciable IR intensity. Furthermore, the study of low frequency vibrations is of great significance, because it gives information on weak intermolecular interactions, which take place in enzyme reactions [14]. Knowledge of low frequency mode is also essential for the interpretation of the effect of electromagnetic radiation on biological systems [15].

In CPPC, the N–H functional group is present at 3416 cm⁻¹ in calculated spectra having appreciable IR intensity. The C–H functional group is present at a number of positions. The ν(C–H) functional group is present at 2939, 2954, and 3001 cm⁻¹ in calculated spectra having substantial IR intensity. The region 1600–2000 cm⁻¹ is generally considered as the double bond stretching region for C=O, C=C, and C=N bonds [16–19]. The C=O stretching vibration, ν(C=O), appears as a prominent mode in the calculated spectra at 1604 cm⁻¹.

The –CH₂ functional groups are important constituents of CPPC and vibrations corresponding to these groups are present in a number of modes. Due to twist –CH₂ mode an intense peak is present at 554 cm⁻¹ in calculated spectra as a prominent mode. The twisting and rocking vibrations for the functional group are present mixed with other vibrations in middle region. Here, we are discussing only most IR active modes present in calculated spectra for both the molecules. The aim of this section is to obtain direct information on lower and higher frequency vibrations of such biologically active molecules. No experimental FTIR spectrum is available for comparison so it will be a suitable path for experimental researchers.

3.3. Electronic Spectra and Electronic Properties

On the basis of fully optimized ground-state structure, TDDFT//B3LYP/LANL2DZ calculations have been used to determine the low-lying excited states of isoniazid and CPPC. The calculated results involving the vertical excitation energies, oscillator strength , and wavelength are carried out using the Gaussian 09W program. Experimental wavelengths are not available so these calculated data can help the experimental researchers. Electronic transitions determined from excited state calculations are listed in Table 4 for the three lowest energy transitions of the molecule. For isoniazid, TD-DFT calculation predicts three intense electronic transitions at 5.7714 eV (214.82 nm), 6.8565 eV (180.83 nm), and 6.7948 eV (159.44 nm) with oscillator strengths of 0.1780, 0.5155, and 0.2444, respectively. For CPPC and TD-DFT calculation predicts three intense electronic transitions at 5.7716 eV (214.82 nm), 6.6955 eV (185.18 nm), and 7.0662 eV (175.46 nm) with oscillator strengths of 0.3239, 0.2676, and 0.1706, respectively. The calculated UV spectrum of isoniazid and its derivative CPPC are shown in Figures 3 and 4.

The frontier orbitals, HOMO and LUMO, determine the way the molecule interacts with other species. The frontier orbital gap helps to characterize the chemical reactivity and kinetic stability of the molecule. A molecule which has a larger orbital gap is more polarized having more reactive part as far as reaction is concerned [20]. According to the present calculations, the frontier orbital gap in case of the given molecules is 4.9531 and 4.7835 eV, respectively, for isoniazid and CPPC given in Table 5. So we can say that CPPC is more reactive than isoniazid. The plots of the HOMO, LUMO, and electrostatic potential for both the molecules are shown in Figures 5–10. For isoniazid, HOMO (Figure 5) is located over the whole molecule. LUMO is located (Figure 6) at the same place as HOMO excluding hydrogen atoms. For CPPC, HOMO (Figure 7) is located nearby and on ring B. LUMO is located (Figure 8) nearby and on ring A. The importance of MESP lies in the fact that it simultaneously displays molecular size, shape, and positive, negative, and neutral electrostatic potential regions in terms of colour grading (shown in Figures 9 and 10) and is very useful in investigation of molecular structure with its physiochemical property relationship [21–25]. We have also plotted 3D MESP structures of the title compound as shown in Figures 11 and 12. For isoniazid and CPPC, the electronegative region is outside of the molecule near the oxygen atoms. The energy equal to the shielded potential energy surface is required for any substitution reaction near oxygen. The electronegative lines (in between −0.08 a.u. and −0.02 a.u.) form a closed contour which clearly indicates that total flux passing in between these curves are not equal to zero. For any nucleophilic substitution reaction near oxygen (closed contour area), an amount of energy equal to shielded potential energy surface is required; however, the remaining part of the molecule is suitable for electrophilic substitution reaction. Thus, it can be asserted that MESP values have been shown to be well related to biological properties. [26–28].

3.4. Reactivity Descriptors

3.4.1. Global Reactivity Descriptors

The energies of frontier molecular orbitals (^εHOMO, ^εLUMO), energy band gap (^εLUMO − ^εHOMO), electronegativity , chemical potential , global hardness , global softness , and global electrophilicity index [29–32] of isoniazid and CPPC have been listed in Table 6. It is found that the gap between HOMO and LUMO is smaller in CPPC than isoniazid.

3.4.2. Local Reactivity Descriptors

Fukui function (FF) of a molecule provides information of the local site reactivity within the molecule and as such it provides a method for understanding and categorizing chemical reactions. These values represent the qualitative descriptors of reactivity of different atoms in the molecule. Ayers and Parr [33] have elucidated that molecules tend to react where the FF is the largest when attacked by soft reagents and in places where the FF is smaller when attacked by hard reagents. The use of Fukui functions for the site selectivity of isoniazid and CPPC molecules for nucleophilic and electrophilic attacks has been made with special emphasis on the dependence of Fukui values on the basis of B3LYP/6-311G(d,p) level of theory. Using Mulliken atomic charges of cationic and anionic states of isoniazid and CPPC, local Fukui functions , local softness , and local electrophilicity indices [30, 31] have been calculated using the following equation: Local softness and electrophilicity indices are calculated using the following equation: where + and − signs show nucleophilic and electrophilic attacks, respectively.

Fukui functions, local softness, and local electrophilicity indices for selected atomic sites in isoniazid and CPPC have been listed in Tables 7 and 8. For CPPC, the maximum values for local nucleophilic reactivity descriptors , , at N13 and N14 indicate that these two sites are more prone to electrophilic attack. But on comparison with N17 of isoniazid it is found that the N14 of CPPC has lower affinity towards electrophile. This situation changes because the nitrogen of CPPC is bonded through a double bond to the C16 of a pentagonal ring; hence, the charge density around N14 decreases.

3.5. Dipole Moment, Polarizability, Hyper Polarizability, and Thermodynamic Properties

Dipole moment , polarizability , and total first static hyper polarizability [31, 32] are also calculated in Tables 5 and 9 by using density functional theory. They can be expressed in terms of , , components and are given by the following equation: The components of Gaussian output are reported in atomic units, where 1 a.u. = 8.3693 × 10⁻³³ e.s.u. For isoniazid and CPPC, the calculated dipole moment values are 5.49 and 6.25 Debye. Having higher dipole moment than water (2.16 Debye), isoniazid and CPPC both can be used as better solvents. For isoniazid, we see a greater contribution of in molecule which shows that molecule is elongated more towards direction and more contracted to direction. Perpendicular part contributes less part of polarizability of molecule. , contribute a larger part in hyper polarizability. This shows that molecule is more optical active in -axis and -axis directions. For CPPC, we see a greater contribution of in molecule which shows that molecule is elongated more towards direction and more contracted to direction. Perpendicular part contributes less part of polarizability of molecule.

, contribute a larger part in hyper polarizability. This shows that molecule is more optical active in -axis and -plane directions. The connection between the electric dipole moments of an organic molecule having donor-acceptor substituent and first order hyper polarizability is widely recognized in the literature. Standard thermodynamic functions such as free energy, constant volume heat capacity , and entropy have also been calculated for both the molecules and are given in Table 10. These functions can provide helpful information for further study of the title compounds.

4. Conclusion

This paper reports a comprehensive computational structural study on antituberculosis drug isoniazid and its new derivative N-cyclopentylidenepyridine-4-carbohydrazide. The frequency assignments for isoniazid and its derivative N-cyclopentylidenepyridine-4-carbohydrazide have been done for the first time by employing density functional theory (DFT) with LANL2DZ and 6-311 G (d, p) as the basis sets. Normal modes analysis provides detailed description of the vibrational spectra of the molecules in question. Reactivity reflects the susceptibility of a substance towards a specific chemical reaction and plays a key role in, for example, the design of new molecules and understanding biological systems and material science. The lower value of frontier orbital energy gap and a higher dipole moment in case of CPPC suggest a more reactive nature as compared to isoniazid. Hyper polarizability is mainly controlled by the planarity of the molecules, the donor and accepter strength, and bond length alteration. The values of hyper polarizability indicate a possible use of these compounds in electrooptical applications.

We have also discussed global and local reactivity descriptors sites for both molecules during electrophilic, nucleophilic, and radical attacks. These values represent the qualitative descriptors of reactivity of different atoms in the molecule. The present work might encourage the need for an extensive study by the experimentalists interested in the vibrational spectra and the structure of these compounds. The results reported in the present paper can help in the experimental investigations on the origin of the biological activity of these molecules.

Conflict of Interests

The authors declare that there is no conflict of interests regarding the publication of this paper.

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Copyright © 2014 Anoop kumar Pandey et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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