Confirmed Mechanism for 1,8-Diaminonaphthalene and Ethyl Aroylpyrovate Derivatives Reaction, DFT/B3LYP, and Antimicrobial Activity of the Products

Two new series of perimidine derivatives were prepared from the reaction of 1,8-diaminonaphthalene with ethyl aroylpyrovate followed by coupling for the products. 'e structures, the mechanism, and the tautomeric forms of the products have been discussed on the basis of spectral data aided with the computational study. Applying Guassian09 software, the reactionmechanism was assured. 'e energy contents were computed after optimization for all proposed structures. 'e likely extracted compound has a reduced heat during formation and internal energy which coincides with experimental outcomes. 'e antimicrobial activity of all products was screened, and their results indicated the presence of five derivatives more potent than the reference drugs used. 'e simulation procedure was executed by Autodock 4.2 tools over the expected compounds yielded (12 and 21). 'is computational technique asserts on the drug behavior inside the causative organism proteins. 'e organisms here match with that used in the antimicrobial and antifungal study.

e biological activities of perimidines have attracted our attention due to their wide range of application, for example, antitumor, antimicrobial, antifungal, and antiulcer [10][11][12].Also, some of them were applied as coupler substances for preparation of oxidation dyestuffs, hair colouring compositions [13,14], and fluorescent molecular sensors [15].
On the other side, ethyl aroylpyrovates 10 contain three different carbonyl groups with a different polarity and reactivity which condensed with various reagents to afford new heterocyclic compounds [16,17].It was proven that the most reactive carbonyl is that adjacent to the ester group [1,18] (Scheme 3).
From all the previous screening, the author was interested herein to investigate the reactivity of ethyl aroylpyrovate 10 in the reaction with 1,8-diaminonaphthalene and elucidate the product or products of such reaction.is due to the previous reaction can afford one or more of the seven products which will be illustrated (Scheme 4).Moreover, Gaussian09 computation software was considered to establish a well view about the reaction mechanism [19].DFT/B3LYP is a suitable method for executing the optimization process [20] in the gas phase and ethanol solvent for comparative assertion.Essential parameters have been considered as heat during formation, frontier energy gap, dipole moment, and oscillator strength.Such parameters were intended due to their convinced impact in stability differentiation between all possible outputs [21].As well as investigating the antimicrobial activity for novel synthesized derivatives was also intended.e simulation procedure for antimicrobial behavior was also considered to strengthen the results.

Experimental
2.1.Physical Techniques.All melting points were uncorrected and measured on the Gallenkamp electric melting point apparatus (capillary method, Gallenkamp Co., London, UK).Infrared spectra were determined on a Mattson 5000 FT-IR spectrometer (Shimadzu Co., Kyoto, Japan, not all frequencies are reported) using KBr discs.e nuclear magnetic resonance NMR spectra were determined using a WP 300 spectrometer (Bruker Co., Billerica, MA, USA) at 300 MHz for 1 H or 75.5 MHz for 13 C using TMS as the internal standard.e mass spectra were recorded on a Qp-2010 mass spectrometer (Shimadzu, Tokyo, Japan) at 70 eV (EI mode).Elemental analyses (C, H, and N) were determined on the PerkinElmer 2400 analyzer.e reactions were pursued by TLC (aluminum sheets, Merck), and the spots were disclosed by exposure to the UV lamp.
e reaction mixture was allowed to cool at room temperature, and then, the solid formed was collected by filtration, dried, and recrystallized from ethanol.

Ethyl 2-(2-(4-Chlorophenyl
e whole mixture was then left in a refrigerator overnight.e precipitated solid was filtered, washed with water, and finally crystallized from ethanol/dioxane to give the respective hydrazone derivatives 21a-e.

Molecular Docking.
Utilization for AutoDock tools 4.2 was to execute the docking process between the proposed drug and protein receptors of variable bacteria and fungi.Aspergillus niger (1ukc), Bacillis subtilis (1ydo), Escherichia coli (5o22), Geotrichum candidum (1thg), Klebsiella pneumoniae (3gdz), Pseudomonas aeruginosa (2w7q), Salmonella typhimurium (1af7), Staphylococcus aureus (1bqb), Staphylococcus epidermidis (3kp3), and Streptococcus pyogenes (2esr) were the microorganism protein receptors used in this investigation.Such process was accomplished after the addition of Gasteiger charges over all compound atoms.e nonpolar atoms of hydrogen were incorporated to effect on the multiplication of rotatable bonds.e presence of hydrogen atoms with Kollman unite charge type is an essential preliminary feature [23].e affinity maps by ×× Å grid points with 0.375 Å spacing were adapted using the Autogrid program [24].Electrostatic terms and Vander Waals force were evaluated after adapting the Autodock parameter sets and the dielectric function of distance dependent, respectively.e docking simulation process to be the completed Lamarckian genetic algorithm (LGA) and the Solis and Wets local search method must be used [25].e torsion of the investigated compound and occasionally the initial position as well as the orientation must be set.e rotatable torsions must be released completely through the docking process.Each docking process was accomplished through tens following runs and adjusted to be block after reaching 250000 energy considerations.roughout the process, the size was settled to be 150, a translational step of 0.2 Å, and quaternion and torsion steps were of 5.

Results and Discussion
3.1.Chemistry.Scheme 4 illustrates all possible products 12-18 from the reaction of 1,8-diaminonaphthalene 6 and ethyl aroylpyrovate 10 in refluxing ethanol.Such possibilities were tested using Gaussian 09 software to optimize their structural forms (Figure 1) and computed essential parameters.ese parameters are significant in asserting the reaction mechanism built on experimental aspects.e TLC experiment and the spectral data ( 1 H, 13 C NMR, mass, and IR) of the products indicate the isolation of only one product  e low value of the second carbonyl group can be attributed to the conjugation with aryl moiety and the hydrogen bond with the NH group.Moreover, all 1 H NMR spectra of the products 12a-e revealed the presence of triplet and quartet signals for CH 3 CH 2 integral ester groups near 1.33 and 4.32 ppm.As well as, the singlet signal for the CH 2 group was found near 3.87 ppm (see Experimental).Another evidence for the structures 12a-e is the value of C2 concerning to the perimidine ring in the 13 C NMR spectrum of compound 12d (as an example for series prepared).Such was appeared at down field (δ � 100.42 ppm) due to the presence of electron withdrawing ester group at the same carbon.However, the C2 in structure 13 appeared at the up-field value near δ � 81.8 ppm [5].All previous concerns were assured from optimizing characteristic parameters executed from the DFT/B3LYP method (Table 1).3-21G base set leads to produce best distribution for atomic contents of each compound in the gas phase and ethanol.e reduced formation energy values for compounds 12 and 13 point to the truth of the oriented mechanism proposed.e excellence for the formation energy value of compound 12 propose its priority as the only one product yielded from the condensation reaction.
e high value of dipole moment of such compound ( 12) is suitable for the high difference in electronegativity inside the compound.Moreover, the reduced oscillator strength of such compound is suitable for facilitated electronic transition inside the compound (12) which coincides with its reactivity.
is proposal was also confirmed by applying HyperChem 8.1 program which provides data (Table 2) and confirms the previous aspects.e reduced content energies (total energy, binding energy, and heat during formation) of compound 12 in comparing with others (13-18) confirm its high stability.
is leads to its prior in production without conflict.
In continuation, the reactivity of the active methylene group in ethyl 2-(2-aryl-2-oxoethyl)-2,3-dihydro-1Hperimidine-2-carboxylate (12a-e) toward the coupling reaction with diazotized aniline in ethanol in the presence of NaOH has been investigated as shown in Scheme 5. Mass, IR, 1 H NMR, and elemental analyses confirmed the chemical structure of coupling products as the structure 21a-e.e disappearance of the carbonyl absorption band of the ester group in all IR spectra of all derivatives (21a-e) proved that the coupling reaction proceeds via the Japp-Klingemann reaction [26] with elimination of the ethyl format molecule (Scheme 5).e actual tautomeric structure of the coupling products 21A-C was studied and confirmed based on computational data extracted.
e minimized internal energies (total energy and binding energy) beside the formation energy (Tables 1 and 2) of 21 tautomers suggest their high stability which outweigh their production from the coupling reaction and indicate that the most stable tautomer is 21A.
e HOMO and LUMO levels (Figures 2 and 3) were extracted over the optimized structures for comparison.e HOMO level appeared is very concentrated in the compounds over 1,8-diaminonaphthalene moiety of the perimidine ring in 21.However, the LUMO level appeared is concentrated in the Ar-CO moiety which considered a good receptor for electrons as appeared in the coupling reaction.e two levels have the same positions in the coupling products (21a-e) which verify the same electron density attitude after reaction.

Biological Activity.
e agar diffusion technique was used in screening the antimicrobial activity of all derivatives 12a-e and 21a-e [27] against two fungi, namely, A. Niger and G. candidum in comparison with Amphotericin B as a reference drug.Four species of each of Gram-positive and Gram-negative bacteria were tested against standard antibacterial agents as ampicillin and gentamicin, respectively (Tables 3 and 4).A suspension solution of the organisms was added to the sterile nutrient agar media at 45 °C, and the mixture was transferred to sterile Petri dishes and allowed to solidify.Holes of 6 mm in diameter were made using a cork borer.A solution of each perimidines 12a-e or 21a-e or the reference drugs (5 mg/mL) in dimethylsulfoxide (DMSO) was prepared.e amount tested of either the synthesized compounds or reference drugs was 100 µL.Dimethylsulfoxide (DMSO) was used as a negative control.e plates were left for 1 h at room temperature as a period of preincubation diffusion to minimize the effects of variation in time between the applications of different solutions.6 Journal of Chemistry            Journal of Chemistry e plates were then incubated at 37 °C for 24 h and observed for antimicrobial activity.e diameters of the inhibition zone were measured and compared with the respective reference drug.
e observed inhibition zones were measured in millimeter beyond well diameter.Each treatment was replicated three times, and the average value is recorded.Also, the percentage value of inhibition zones compared to reference drugs was recorded (Tables 3 and 4).
e obtained results of antifungal activity reflected variable activities of the tested compounds.Among the tested perimidine derivatives 12b and 21c was the most potent derivatives against Aspergillus niger with inhibition zones exceed the Amphotericin B (101.7% and 103.4%, respectively).In addition, compound 12e showed activity with 101.6% inhibition percent in comparison with the reference standard used (Table 3).e other derivatives revealed the activity ranging from excellent to good.
Investigating the Gram-positive bacterial activity results in Table 4, a highly potent activity was recorded for compounds 12e, 12b, and 21c against S. epidermidis with   112.9%.e same derivative 21c also has activity similar to gentamicin against the Gram-negative bacteria Klebsiella pneumonia and Escherichia coli as shown in Table 4.In addition, perimidine derivatives 12a-d and 21e was equipotent to gentamicin against some species (Table 4).

Molecular Docking Study.
In the recent few decades, advanced development happened in the drug designing industry.Among this study was the computational method used to predicate the inhibition feature of the proposed drug against causative organism proteins.is study was achieved using AutoDock 4.2 tools to establish a comparative insight on the degree of inhibition toward pathogens.e receptors had chosen attributing to the tested bacteria and fungi in the experimental work.1ukc and 1thg were the protein receptors used which attribute to Aspergillus niger and Geotrichum candidum fungi.Whenever, 1ydo, 5o22, 3gdz, 2w7q, 1af7, 1bqb, 3kp3, and 2esr were the protein receptors used, they attribute to Bacillis subtilis, Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, Salmonella typhimurium, Staphylococcus aureus, Staphylococcus epidermidis, and Streptococcus pyogenes bacteria.e data extracted upon docking complexes with proven compounds (12 and 21A) were displayed in Table 5. e values of free energy of binding and the inhibition constant display a moderate interaction between the two compounds and 1ukc and 1thg receptors.e values of total intercooled energy reflect the stability of docking complexes for such broad interaction surface.e docking complexes (Figure 4; Supplementary Figure 1S) display H-bonding in the corner only with protein helix [28]. is conclusion coincided with a little extent of H-bonding that appeared in the Hb plots (Figure 5; Supplementary Figure 2S) which exhibit interaction over the siding part in broad helix.However, variable features appeared against bacterial pathogen proteins.e best interaction was displayed with 1af7 and 1bqb receptors attributing to Salmonella typhimurium and Staphylococcus aureus organisms.is is concluded from the reduced energies (Table 5) over broad interacting surfaces.However, moderate inhibition was expected with the two tested compounds (12 and 21A) versus rest proteins.e docking complexes (Figure 4; Supplementary Figure 1S) display high occlusion for the two compounds with 1af7 or 1bqb protein helix.
is was confirmed upon the Hb plots (Figure 5; Supplementary Figure 2S) which display the best distribution of intra-H-bonding with two reported receptors.But, on the other side, a little extent for H-bonding was recorded upon rest protein helix though broad interaction surfaces.Finally, this simulation process coincided by an excellent way with the experimental screening work which displays a moderate inhibition against most organisms considered.

Conclusion
e mechanism of the reaction of 1,8-diaminonaphthalene with ethyl aroylpyrovate was discussed using all possible spectroscopic tools as well as the computational study by applying Guassian09 software.In addition, the antimicrobial activity of all products was screened.e results of such study indicated that three derivatives 12b, 12e, and 21c have impacts on the fungi and bacteria more than the reference drugs used.However, the theoretical study of the antimicrobial activity of two derivatives 12a and 21a as examples of the synthesized series using AutoDock 4.2 tools indicated that such derivatives have moderate activity for all fungi and bacteria species.

Figure 2 :
Figure 2: (a-j) Frontier orbitals regarding the HOMO level for optimized structures.

Figure 3 :
Figure 3: (a-j) Frontier orbitals regarding the LUMO level for optimized structures.

Table 4 :
e activity of the tested compounds 12a-e and 21a-e against four G + bacteria and four G -bacteria fungi species.
NA: no activity; data are expressed in the form of mean ± SD.

Table 5 :
Docking energy values (k cal/mol) for two best tautomers complexed with variable protein receptors.