Synthesis and Structural Characterization of (E)-4-[(2-Hydroxy-3-methoxybenzylidene)amino]butanoic Acid and Its Novel Cu(II) Complex

Abstract

A novel Cu(II) complex based on the Schiff base obtained by the condensation of ortho-vanillin with gamma-aminobutyric acid was synthesized. The compounds are physico-chemically characterized by elemental analysis, HR-ESI-MS, FT-IR, and UV-Vis. The complex and the Schiff base ligand are further structurally identified by single crystal X-ray diffraction and ¹H and ¹³C-NMR, respectively. The results suggest that the Schiff base are synthesized in excellent yield under mild reaction conditions in the presence of glacial acetic acid and the crystal structure of its Cu(II) complex reflects an one-dimensional polymeric compound. The molecular structure of the complex consists of a Cu(II) ion bound to two singly deprotonated Schiff base bridging ligands that form a CuN₂O₄ chelation environment, and a coordination sphere with a disordered octahedral geometry.

1. Introduction

Schiff bases have attracted intensive scientific interest mainly because of their ease of preparation, diverse structural and physico-chemical characteristics, metal binding affinity, pharmacological and physiological properties. They have been extensively used as ligands in the coordination chemistry of main group and transition metal ions. These compounds and their metal complexes have been proved very effective as catalysts in several biological systems, dyes, polymers, and as bioactive agents in the pharmaceutical and medicinal fields presenting exceptional antibacterial, antioxidant, antifungal, anticancer, antidiabetic, and diuretic properties [1,2,3,4,5].

A well-established sub-category of Schiff bases is the amino acid-based Schiff bases. The incorporation of amino acids in the Schiff base structure enables the design of ligands with enhanced chirality and multidentate functionality [6]. Several literature reports confirm the involvement of amino acid Schiff base complexes in a variety of chemical and biological processes such as the catalysis of transamination, carboxylation and racemization reactions [7], the oxidation of sulfides and olefins, in polymerization processes, and the decomposition of H₂O₂ [8]. Moreover, it has been proved that amino acid Schiff base complexes can be used as radiotracers in nuclear medicine [9], and as anticancer and antibacterial agents [10,11].

Until today, a large number of crystallographically characterized metal complexes of alpha- and beta-amino acid Schiff bases have been reported in the literature [12,13]. However, only a few metal complexes of Schiff bases derived from gamma-amino acids have been structurally characterized via X-ray crystallography [14]. Herein, we report the synthesis of a novel Cu(II) complex based on a new Schiff base obtained by the condensation of ortho-vanillin with gamma-aminobutyric acid. The compounds have been physico-chemically characterized by elemental analysis, HR-ESI-MS, FT-IR, and UV-Visible spectrophotometry. The complex and the Schiff base ligand have been further structurally identified by single crystal X-ray and ¹H and ¹³C-NMR, respectively.

2. Results and Discussion

2.1. Synthesis

The Schiff base 3 was synthesized in one step by mixing equimolar quantities of ortho-vanillin 1 and gamma-aminobutyric acid 2 in the minimum amount of refluxing MeOH (Scheme 1). After filtration and washing, product 3 was obtained in very good yield (76%). In order to further improve the yield of the reaction, the application of (a) glacial acetic acid as a mild acidic agent appropriate for such couplings [15,16], (b) sulfuric acid as a dehydrating acid [17], and (c) piperidine as one the most commonly used bases for Schiff base formation of vanillin derivatives [18] was explored (

Table 1. Optimization of the reaction conditions regarding the additive ^a.

Entry	Additive	Yield (%) b
1	none	76
2	CH3COOH	86
3	H2SO4 c	trace amount
4	piperidine	58 c

^a The reactions were carried out using 1.0 mmol of each starting compound and 2 drops of each additive (0.1 mL), under reflux for 2 h. ^b Isolated yield after concentration of the solvent to 2/3 of its volume. ^c Isolated yield, after further concentration of the solvent to 1/3 of its volume and storage at −18 °C for 48 h.

). Piperidine seemed to partially “quench” the coupling, leading to lower yields, even after forcing the product precipitation. The presence of glacial acetic acid increased the yield of the reaction to almost quantitative (86%), whereas using concentrated sulfuric acid was proved to be unsuccessful.

The structure and purity of compound 3 was confirmed by ¹H and ¹³C-NMR (Supplementary Information, Figures S1–S6). As expected, the methylene protons of the amino acid unit appeared in the aliphatic region of the ¹H-NMR spectrum. H-4 protons (see Figure 1A numbering) were shifted downfield at 3.60 ppm because of the nitrogen atom. The aromatic protons appeared according to the standard shift and splitting pattern of 1,2,3-trisubstituted benzene rings at 6.79, 7.00, and 7.02 ppm. The ¹³C-NMR spectrum is in good agreement with the structure and reported data [19,20]. The low-field signals of azomethine, C-7 and carboxylic carbons were assigned by 2D-NMR experiments (Supplementary Information, Figures S3–S6) at 166.2, 151.9, and 174.0 ppm, respectively.

NOESY experiment demonstrated that 3 has the same configuration with the coordinated ligand, since a signal corresponding to azomethine proton (8.53 ppm) and H-9 of the ring (7.02 ppm) proximity was detected, thus proving the expected E-configuration.

Under standard NMR experiment conditions (0.05 M in DMSO-d₆) we were not able to distinguish the phenolic OH proton from the carboxylic OH proton, due to broadening of these peaks, leading to the absence of 2D signals. Even by modifying the conditions (concentration, temperature, and/or solvent) we did not observe the desired peak sharpening or appearance of any additional clarifying 2D signals. Since the structural elucidation by NMR of similar Schiff bases systems incorporating an ortho-hydroxy phenyl unit have been reported in the literature [19,20], the broad peak at 12.2 ppm was assigned to the carboxylic proton, whereas the lower-field broad peak at 13.7 ppm was assigned to the deshielded phenolic proton.

For the synthesis of the heteroleptic Cu(II)-Schiff base complex (4) (Scheme 2) a thorough exploration of the experimental conditions regarding solvent system, pH, temperature, metal:ligand stoichiometry, and crystallization process was performed. Subsequently, complex 4 was synthesized from the reaction of Cu(NO₃)₂·3H₂O with the Schiff base in MeOH at 60 °C under reflux conditions, in the presence of sodium hydroxide (NaOH). The overall stoichiometric reaction leading to complex 4 is shown schematically below:

The reaction mixture was left to evaporate slowly at room temperature. Dark green crystalline material emerged in the reaction described above, the analytical composition of which was consistent with the formulation in complex 4. Positive identification of the crystalline product was achieved by elemental analysis, FT-IR, HR-ESI-MS, and X-ray crystallographic analysis of isolated single crystals from complex 4.

Both compounds are stable in air for fairly long periods of time. They readily dissolve in H₂O, methanol (MeOH), dimethylacetamide (DMA), dimethyl sulfoxide (DMSO), and dimethylformamide (DMF) and are insoluble in acetone, acetonitrile, and dichloromethane at room temperature.

2.2. Description of X-ray Crystallographic Structure

The X-ray crystal structure of 4 reveals a discrete solid-state lattice. The molecular structure of 2 is given in Figure 1A; selected bond distances and angles are listed in

Table 2. Bond lengths [Å] and angles [^o] for 4.

Bond Lengths (Å)
Cu(1)—O(1) i	2.6167 (19)	O(4)—C(12)	1.429 (3)
Cu(1)—O(1) ii	2.6167 (19)	O(5)—O(5) iv	1.449 (5)
Cu(1)—N(1) iii	2.005 (2)	C(1)—C(2)	1.505 (4)
Cu(1)—O3 iii	1.9272 (16)	C(2)—C(3)	1.514 (3)
Cu(1)—N(1)	2.005 (2)	C(3)—C(4)	1.510 (3)
Cu(1)—O(3)	1.9272 (16)	C(5)—C(6)	1.443 (4)
N(1)—C(4)	1.476 (3)	C(6)—C(7)	1.392 (4)
N(1)—C(5)	1.282 (3)	C(6)—C(11)	1.406 (4)
O(1)—C(1)	1.203 (3)	C(7)—C(8)	1.421 (3)
O(2)—C(1)	1.308 (3)	C(8)—C(9)	1.389 (5)
O(3)—C(7)	1.325 (3)	C(9)—C(10)	1.373 (5)
O(4)—C(8)	1.363 (4)	C(10)—C(11)	1.354 (5)
Angles (°)
O(1) i—Cu(1)—O(1) ii	180	C(8)—O(4)—C(12)	117.5 (3)
O(1) i—Cu(1)—N(1) iii	93.65 (7)	O(2)—C(1)—O(1)	122.9 (2)
O(1) ii—Cu(1)—N(1) iii	86.35 (7)	O(2)—C(1)—C(2)	114.0 (2)
O(1) i—Cu(1)—O(3) iii	83.34 (7)	O(1)—C(1)—C(2)	123.1 (2)
O(1) ii—Cu(1)—O(3) iii	96.66 (7)	C(1)—C(2)—C(3)	112.2 (2)
N(1) iii—Cu(1)—O(3) iii	90.23 (8)	C(2)—C(3)—C(4)	112.8 (2)
O(1) i—Cu(1)—N(1)	86.35 (7)	C(3)—C(4)—N(1)	110.5 (2)
O(1) ii—Cu(1)—N(1)	93.65 (7)	N(1)—C(5)—C(6)	126.7 (2)
N(1) iii—Cu(1)—N(1)	180	C(5)—C(6)—C(7)	121.9 (2)
O(3) iii—Cu(1)—N(1)	89.77 (8)	C(5)—C(6)—C(11)	117.6 (3)
O(1) i—Cu(1)—O(3)	96.66 (7)	C(7)—C(6)—C(11)	120.5 (3)
O(1) ii—Cu(1)—O(3)	83.34 (7)	C(6)—C(7)—O(3)	123.9 (2)
N(1) iii—Cu(1)—O(3)	89.77 (8)	C(6)—C(7)—C(8)	118.2 (3)
O(3) iii—Cu(1)—O(3)	180	O(3)—C(7)—C(8)	117.8 (3)
N(1)—Cu(1)—O(3)	90.23 (8)	C(7)—C(8)—O(4)	114.6 (3)
Cu(1)—N(1)—C(4)	120.85 (16)	C(7)—C(8)—C(9)	119.2 (3)
Cu(1)—N(1)—C(5)	122.71 (18)	O(4)—C(8)—C(9)	126.2 (3)
C(4)—N(1)—C(5)	116.4 (2)	C(8)—C(9)—C(10)	121.5 (3)
Cu(1) v—O(1)—C(1)	124.19 (17)	C(9)—C(10)—C(11)	120.1 (3)
Cu(1)—O(3)—C(7)	123.43 (16)	C(6)—C(11)—C(10)	120.5 (3)
Cu(1)—O(1) i	2.6167 (19)	O(4)—C(12)	1.429 (3)
Cu(1)—O(1) ii	2.6167 (19)	O(5)—O(5) iv	1.449 (5)

Symmetry codes: ⁱ x, y, z − 1; ⁱⁱ –x + 3/2, −y + 3/2, −z + 3; ⁱⁱⁱ −x + 3/2, −y + 3/2, −z + 2; ^iv −x + 1, y, −z + 1/2; ^v x, y, z + 1.

. Complex 4 crystallizes in the monoclinic space group C2/c. The crystal structure reflects an one-dimensional polymeric compound forming infinite chains along the c crystallographic axis. The unit cell contains four mononuclear [Cu(C₁₂H₁₄NO₄)₂] monomeric complex units and half of a badly disordered lattice MeOH molecule. The molecular structure of the monomer 4 consists of a Cu(II) ion bound to two singly deprotonated Schiff base bridging ligands which coordinate through their deprotonated phenolato oxygen atom, the imino nitrogen atom, and the double bonded oxygen atoms of the protonated carboxylic acid moieties from two neighboring molecules, thereby giving rise to a Cu^IIN₂O₄ chelation environment, and a coordination sphere reflecting a disordered octahedral geometry (Figure 1A). The Cu-N bond lengths are 2.005(2) Å whereas the Cu-O bond lengths are in the range between 1.9272(16) and 2.6167(19) Å. These values are very similar to the related bond distances reported in the literature [21]. Intermolecular hydrogen-bonding interactions arise between the deprotonated phenolic oxygen atoms and the protonated oxygen atoms of the carboxylic groups from the neighboring monomeric complex units enforcing the polymeric chains formation and resulting in the final 1D crystal lattice (Figure 1B, Supplementary Information Table S1).

2.3. FT-IR Spectroscopy

The FT-IR spectrum of the Schiff base 3 (Supplementary Information, Figure S7) shows a weak band at 3419 cm⁻¹, characteristic of the ν(OH) vibrations [22], which disappears in the spectrum of complex 4 (Supplementary Information, Figure S7), indicating deprotonation of the OH group upon binding with the Cu(II) ion. The ν(C=N) vibrations are observed at 1643 cm⁻¹ for Schiff base 3 and at 1598 cm⁻¹ for complex 4, respectively. This lowering of resonance frequency by 45 cm⁻¹ for the C=N vibration clearly reveals the coordination of the Cu(II) ion with the imine nitrogen. Moreover, both spectra show broad absorption bands at about 3068–2758 cm⁻¹ and 3089–2818 cm⁻¹, respectively, which are assigned to the ν(C–H) stretching vibrations of the aromatic moieties. The absorption bands located at 526 cm⁻¹ and 465 cm⁻¹ in the spectrum of complex 4 can be assigned to the ν(Cu-O) and ν(Cu-N) vibrations, respectively.

2.4. UV-Vis Spectroscopy

The UV–Vis spectra of the Schiff base 3 and complex 4 were recorded in MeOH at a concentration of 10⁻⁵ M (Figure 2). The electronic absorption spectrum of the Schiff base shows an absorption band at 293 nm and 417 nm that can be assigned to the π→π* transitions in the aromatic ring and n→π* transitions of the imine moiety, respectively. In the spectrum of 4, both absorption bands present significant hypsochromic and hyperchromic shifts compared to the free Schiff base, which can be attributed to the increased conjugation of the Cu(II)-Schiff base system. More specifically, the absorption band, indicative of the π→π* transitions, appears at 274 nm whereas the absorption band that arises from the n→π* transitions is located at 381 nm. No d→d transitions were observed in the spectrum of 4, potentially because of the low concentration (10⁻⁵ M) of the solution. However, additional measurements at a higher concentration (10⁻³ M) (inset graph in Figure 2) showed a broad absorption band at 682 nm, indicative of d→d transitions.

3. Materials and Methods

The following starting materials were purchased from commercial sources (Sigma, Fluka, St. Louis, MO, USA) and were used without further purification: Gamma-aminobutyric acid, ortho-vanillin, copper nitrate trihydrate [Cu(NO₃)₂·3H₂O], and sodium hydroxide (NaOH) pellets. Solvents: ethanol (EtOH), methanol (MeOH). The isolated and dried under vacuum at room temperature compounds are air-stable. Fourier transform-infrared (FT-IR) spectra were recorded on a Perkin Elmer 1760X spectrometer (Perkin-Elmer, San Francisco, CA, USA). A ThermoFinnigan Flash EA 1112 CHNS elemental analyzer (Waltham, MA, USA) was used for the simultaneous determination of carbon, hydrogen, and nitrogen (%). The analyzer operation is based on the dynamic flash combustion of the sample (at 1800 °C) followed by reduction, trapping, complete GC separation, and detection of the products. The instrument is fully automated and controlled by PC via the Eager 300 dedicated software (Thermo Fischer, Waltham, MA, USA). High resolution electrospray spray ionization mass spectra (HR-ESI-MS) of the Schiff base (1) and its Cu(II) complex (2) were obtained on UHPLC LC-MSn Orbitrap Velos-Thermo instrument (Thermo Scientific; Bremen, Germany) in the Institute of Biology, Medicinal Chemistry and Biotechnology of the National Hellenic Research Foundation. NMR spectra were recorded with a Bruker Avance 500 MHz spectrometer (Bruker, Rheinstetten, Germany) operating at 500 MHz (¹H) and 125 MHz (¹³C). Chemical shifts are reported in ppm relative to DMSO-d₆ (¹H: δ = 2.50 ppm, ¹³C: δ = 39.52 ± 0.06 ppm). NMR spectra assignments follow the numbering of the crystallographic analysis (Figure 1A). UV-Visible (UV-Vis) measurements were carried out on a Hitachi U2001 spectrophotometer (Hitachi, Tokyo, Japan) in the range from 200 to 800 nm.

3.1. Synthesis

3.1.1. (E)-4-[(2-Hydroxy-3-methoxybenzylidene)amino]butanoic Acid (3)

Ortho-vanillin 1 (152 mg, 1.0 mmol) dissolved in 0.5 mL MeOH, was added in a refluxing methanolic solution (6.5 mL) of gamma-aminobutyric acid 2 (103 mg, 1.0 mmol). Two drops of glacial acetic acid (0.1 mL, 1.75 mmol) were added and the resulting clear solution was stirred for 2 h. Upon completion of the reaction, the solvent was allowed to distill off by removing the reflux apparatus until reaching approximately 2/3 of its volume. Then, the solution was cooled to room temperature to afford the product as crystal needles. The bright yellow product (204 mg, 0.86 mmol, 86%) was filtered, washed once with a small volume of ice-cold MeOH and dried under vacuum. ¹H-NMR (500 MHz, DMSO-d₆): 1.86 (quint, J = 7.0 Hz, 2H, H-3), 2.29 (t, J = 7.0 Hz, 2H, H-2), 3.60 (t, J = 7.0 Hz, 2H, H-4), 3.77 (s, 3H, OMe), 6.79 (t, J = 7.9 Hz, 1H, H-10), 7.00 (t, J = 7.9 Hz, 1H, H-11), 7.02 (t, J = 7.9 Hz, 1H, H-9), 8.53 (s, 1H, H-5), 12.2 (br, 1H, COOH), 13.7 (br, 1H, OH) ppm; ¹³C-NMR (125 MHz, DMSO-d₆): 25.8 (C-3), 31.2 (C-2), 55.7 (OMe), 57.0 (C-4), 114.7 (C-9), 117.5 (C-10), 118.2 (C-6), 123.1 (H-11), 148.1 (C-8), 151.9 (C-7), 166.2 (C-5), 174.0 (COOH) ppm; Anal. Calcd for 1, C₁₂H₁₅NO₄: C, 60.75; H, 6.37; N, 5.90. Found: C, 60.69; H, 6.31; N, 5.94. HR-ESI-MS (positive mode), calcd. for [(C₁₂H₁₅NO₄) + H]⁺ m/z = 238.1079, found m/z = 238.1076.

3.1.2. Synthesis of [Cu(C₁₂H₁₄NO₄)₂]_n·nO (4)

To a solution of ortho-vanillin 1 (0.15 g, 1.0 mmol) in MeOH (10 mL) gamma-aminobutyric acid 2 (0.10 g, 1.0 mmol) was added under stirring. The resulting yellow solution was refluxed for two hours at 60 °C under continuous stirring and then cooled to room temperature. Subsequently, a solution of Cu(NO₃)₂·3H₂O (0.12 g, 0.5 mmol) in MeOH (10 mL) was added under continuous stirring. The resulting clear, green reaction mixture was refluxed for an additional 2 h at 60 °C and then cooled to room temperature. To that, NaOH (0.04 g, 1 mmol) was added under continuous stirring. The resulting homogeneous dark green reaction mixture was refluxed at 60 °C for an additional 2 h and then cooled to room temperature. Subsequently, the reaction flask was left to evaporate slowly at room temperature. One week later, dark green plate-like crystalline material precipitated at the bottom of the flask. The product was isolated by filtration and dried in vacuo. Yield: 0.14 g (52%). Anal. Calcd for 2, [Cu(C₁₂H₁₄NO₄)₂]_n·nO. (C₂₄H₂₈CuN₂O₉, M_r 540.04): C, 53.38; H, 5.23; N, 5.19. Found: C, 53.36; H, 5.18; N, 5.14. HR-ESI-MS (positive mode), calcd, for {[Cu(C₁₂H₁₄NO₄)₂] + H}⁺ m/z = 536.1219, found m/z = 536.1215.

3.2. X-ray Crystal Structure Determination

X-ray quality crystals of 4 were grown from MeOH. Crystals of 4 suitable for X-ray diffraction, with dimensions 0.14 × 0.09 × 0.05 mm were taken from the mother liquor and mounted at room temperature on a Bruker Kappa APEX 2 diffractometer (Bruker AXS, Madison, WI, USA), equipped with a triumph monochromator, using Mo Kα radiation. Cell dimensions and crystal system determination were performed using 172 high θ reflections with 10° < θ < 20°. Data collection (φ- and ω- scans) and processing (cell refinement, data reduction and numerical absorption correction based on dimensions) were performed using the SAINT and SADABS programs [23,24]. The structure was solved by the SUPERFLIP package [25]. The CRYSTALS version 14.61 build 6236 program package was used for structure refinement (full-matrix least-squares methods on F²) and all subsequently remaining calculations [26]. Molecular illustrations were drawn using the CAMERON crystallographic package [27]. All non-hydrogen non-disordered atoms were anisotropically refined. All hydrogen atoms were found at their expected positions and were refined using proper riding constraints to the pivot atoms. Crystallographic details for 4 are summarized in Table S3 (Supplementary Information). Further details on the crystallographic studies as well as atomic displacement parameters are given as Supporting Information as well as in the form of cif file.

4. Conclusions

Two novel compounds, the Schiff base (E)-4-[(2-hydroxy-3-methoxybenzylidene)amino]butanoic acid and its Cu(II) complex were prepared in good yields and purity. The compounds have been physico-chemically and structurally characterized via elemental analysis, HR-ESI-MS, FT-IR, UV-Vis, NMR, and single crystal X-ray diffraction. The crystal structure of the produced Cu(II) complex reflects an one-dimensional polymeric compound. The Cu(II) ion is bound to two singly deprotonated Schiff base bridging ligands forming a Cu^IIN₂O₄ chelation environment, and a coordination sphere with a disordered octahedral geometry. Further investigation is underway to determine the biological activities of a library of analogue derivatives.