T.A. Ajayeoba, J.O. Woods, A.O. Ayeni et al.
Journal of Molecular Structure 1237 (2021) 130275
Scheme 1. Synthetic route of the compounds.
2. Experimental section
2p) basis set was used as this was the most widely used stan-
dard in Gaussian to determine isotropic shielding constants of 1
H
2
.1. Reagents and instruments
and 13C for TMS (tetramethylsilane) which was used as a reference
molecule in the Gaussian setup” [31].
Acetophenone,
methyl-4-hydroxylbenzoate,
methyl-4-
nitrobenzoate, ethylbenzoate, hydrazine hydrate solution, were
procured from Sigma Aldrich and utilized with no additional
purification. 1H and 13C NMR spectra were acquired in d -DMSO
on a 300 MHz Bruker DMX avance spectrophotometer. Fourier
transform infrared (FT-IR) spectra for the synthesized compounds
2
.4. Molecular docking studies
6
Studies on molecular docking were performed to gain under-
standing of the binding orientation and interaction of compounds
I - III with the selected proteins. FRED from OpenEye software
−
1
within 4000 and 650 cm
were obtained on a PerkinElmer
[
32,33] was used to perform docking studies. After the genera-
Spectrum400 spectrophotometer. Electronic spectra in were de-
termined in a solution of ethanol on a Shimadzu UV-Vis 1800
Spectrophotometer.
tion of chemical structures, energy minimization and optimization
were carried out by (PM3) semi-empirical method associated with
ChemDraw 3D. The crystallographic structures of β-glucosidase,
aldehyde reductase and aldose reductase were retrieved from the
universal Protein Data Bank using PDB ID: 2O9R, 3FX4 and 1US0
2
.2. X-ray diffraction analysis
[
34,35]. Structures of the target proteins were then protonated
Block-shaped, single, white crystals of the hydrazones obtained
in 3D in the standard geometry using MOPAC 7.0 for the opti-
mization of energy. Co-crystals within each target protein were
identified as binding sites and further utilized as default parame-
ters in search of systematic conformations. First, co-crystals were
re-docked to optimize the docking protocol which was subse-
quently used for docking of all the three compounds (crystals).
Each compound had 10 poses generated for it to realize the fi-
nal binding positions. Final poses having the least binding form in
Chemguass4 were identified and visualized in the Discovery studio
[35].
in an ethanol medium were subjected to X-ray crystallographic
analysis. “Bruker KAPPA APEX II single crystal X-ray diffractome-
ter equipped with a 4-circle kappa goniometer and a CCD detec-
tor at 295(2) K was used in the collection of crystal data. The in-
strument consisted of a molybdenum fine focus sealed X-ray tube
as an X-ray source and an Oxford cryostream 700 system for
sample temperature control [25]. The structure was solved using
SHELXT-2014 [26] and refined by least square procedures using
SHELXL-2016 [27] with SHELXLE [28] as a graphical interface. Data
were recorded for absorption effects using the numerical method
implemented in SADABS. All non-hydrogen atoms were refined
anisotropically while all hydrogen atoms were refined isotropi-
cally. Details on the crystallographic data can be found as supple-
mentary materials in the Cambridge Crystallographic Data Centre
2
.5. Synthesis of hydrazones
An established method according to the literature [36,37]
was adopted and involved two steps depicted in Scheme 1.
00 mmol of hydrazine hydrate was stirred with equimo-
4
lar quantities of methylbenzoate, 4-nitromethylbenzoate and 4-
hydroxylmethylbenzoate respectively in 150 mL of ethanol on a
water bath and then refluxed for 12 hours. The resultant yellowish
solution was concentrated using rotary evaporator to give a white
crystalline precipitate of the respective hydrazides. The precipitates
formed, were filtered with the aid of a suction pump, washed with
40 % ethanol and allowed to dry over CaCl2 in the desiccator.
The hydrazones were synthesized by stirring equimolar quan-
tities of the hydrazide respectively with acetophenone in 100 mL
ethanol and further refluxed for 6 hours. The solvent was allowed
to evaporate slowly until white needle-like crystalline precipitates
were obtained. These were filtered and washed with 40 % ethanol.
The precipitate was air-dried for 20 minutes and then placed in a
desiccator over CaCl2.
2
.3. Theoretical calculations
Gaussian 09, revision B01 was utilized to carry out all elec-
tronic structure calculations. Structural optimization was done via
a “mixed basis set at unrestricted UB3LYP/GENECP level of theory”.
+
+
The B3LYP level and 6-311 G (2d, 2p) basis set were utilized with
the atoms in the compounds. “In the process of the DFT calcula-
tions, energy values of frontier orbital were determined using the
most stable conformation of the reported compounds. NMR shield-
ing constants were predicted using the Gauge-Including Atomic Or-
bitals - DFT method (GIAO–DFT) in the gaseous and deuterated
++
dimethyl sulfoxide (DMSO) medium” [29,30]. “The 6-311 G (2d,
2