Home Physical Sciences Synthesis and crystal structure of 3-(((7-hydroxy-3-(4-hydroxy-3,5-dinitrophenyl)-4-oxo-4H-chromen-8-yl)methyl)(nitroso)amino)propanoic acid, C19H14N4O11
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Synthesis and crystal structure of 3-(((7-hydroxy-3-(4-hydroxy-3,5-dinitrophenyl)-4-oxo-4H-chromen-8-yl)methyl)(nitroso)amino)propanoic acid, C19H14N4O11

  • Hai-Lin Chen ORCID logo , Dong-Mei Yao EMAIL logo , Ze-Ping Luo , Yan-Ping Wang and Li-Sheng Luo
Published/Copyright: September 2, 2022

Abstract

C19H14N4O11, monoclinic, C2/c (no. 15), a = 17.855(4) Å, b = 18.214(4) Å, c = 14.193(3) Å, β = 124.32(3)°, V = 3812.3(17) Å3, Z = 8, R gt(F) = 0.0639, wR ref(F 2) = 0.1897, T = 100.01(10) K.

CCDC no.: 2201784

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal: Yellow needle
Size: 0.16 × 0.15 × 0.13 mm
Wavelength: Cu Kα radiation (1.54184 Å)
μ: 1.21 mm−1
Diffractometer, scan mode: ROD, Synergy Custom DW system, HyPix, ω
θ max, completeness: 76.0°, >99%
N(hkl)measured, N(hkl)unique, R int: 22401, 3922, 0.036
Criterion for I obs, N(hkl)gt: I obs > 2 σ(I obs), 3642
N(param)refined: 310
Programs: CrysAlisPRO [1], Diamond [2], SHELX [3, 4]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

Atom x y z U iso*/U eq
O1 0.41842 (12) 0.75141 (10) 0.59460 (17) 0.0433 (5)
H1 0.459174 0.781386 0.608362 0.065*
O2 0.61633 (11) 0.44611 (10) 0.66783 (16) 0.0386 (4)
O3 0.36247 (10) 0.49885 (9) 0.57871 (13) 0.0311 (4)
O4 0.55097 (13) 0.10154 (11) 0.65625 (19) 0.0520 (5)
H4 0.504685 0.074731 0.620907 0.078*
O5 0.74165 (13) 0.22064 (12) 0.7455 (2) 0.0540 (5)
O6 0.70933 (14) 0.15637 (13) 0.8465 (2) 0.0632 (6)
O7 0.37366 (14) 0.08431 (11) 0.5171 (2) 0.0539 (5)
O8 0.28466 (13) 0.17743 (12) 0.43951 (19) 0.0536 (5)
O9 0.06091 (12) 0.65749 (11) 0.16331 (19) 0.0522 (5)
O10 0.01959 (13) 0.54286 (12) 0.10801 (19) 0.0532 (5)
H10 −0.032897 0.557603 0.083855 0.080*
O11 0.14065 (12) 0.59314 (12) 0.50754 (16) 0.0450 (5)
N1 0.69023 (14) 0.19739 (12) 0.76802 (19) 0.0407 (5)
N2 0.35914 (14) 0.15051 (13) 0.5052 (2) 0.0430 (5)
N3 0.22516 (13) 0.61294 (12) 0.44628 (18) 0.0367 (5)
N4 0.14853 (14) 0.59104 (12) 0.42407 (19) 0.0392 (5)
C1 0.44960 (15) 0.68240 (14) 0.60597 (19) 0.0338 (5)
C2 0.53806 (15) 0.66754 (14) 0.63625 (19) 0.0336 (5)
H2 0.577899 0.706906 0.649847 0.040*
C3 0.56669 (14) 0.59649 (14) 0.64611 (18) 0.0312 (5)
H3 0.626299 0.587052 0.666068 0.037*
C4 0.50916 (14) 0.53725 (13) 0.62712 (18) 0.0299 (5)
C5 0.42220 (14) 0.55376 (13) 0.59781 (18) 0.0296 (5)
C6 0.39035 (14) 0.62511 (14) 0.58651 (19) 0.0324 (5)
C7 0.53902 (14) 0.46122 (14) 0.63885 (18) 0.0306 (5)
C8 0.47051 (14) 0.40536 (14) 0.61473 (18) 0.0303 (5)
C9 0.38864 (15) 0.42859 (14) 0.58833 (19) 0.0316 (5)
H9 0.346022 0.391905 0.575502 0.038*
C10 0.49002 (14) 0.32579 (14) 0.62129 (19) 0.0321 (5)
C11 0.57895 (15) 0.29840 (14) 0.6874 (2) 0.0343 (5)
H11 0.628579 0.331499 0.726628 0.041*
C12 0.59472 (16) 0.22430 (15) 0.6958 (2) 0.0373 (5)
C13 0.52612 (17) 0.17105 (15) 0.6409 (2) 0.0385 (5)
C14 0.43715 (16) 0.20018 (15) 0.5716 (2) 0.0372 (5)
C15 0.42013 (15) 0.27468 (14) 0.5618 (2) 0.0339 (5)
H15 0.359401 0.291583 0.513389 0.041*
C16 0.29740 (15) 0.63892 (15) 0.5603 (2) 0.0379 (5)
H16A 0.291928 0.613779 0.617953 0.046*
H16B 0.289668 0.692242 0.565652 0.046*
C17 0.23513 (17) 0.61555 (18) 0.3510 (2) 0.0469 (7)
H17A 0.298798 0.603827 0.379912 0.056*
H17B 0.222922 0.666290 0.320750 0.056*
C18 0.17316 (18) 0.56341 (17) 0.2535 (2) 0.0456 (6)
H18A 0.200362 0.552822 0.210502 0.055*
H18B 0.169127 0.516519 0.285670 0.055*
C19 0.07842 (16) 0.59348 (15) 0.1720 (2) 0.0380 (5)

Source of material

All reagents and chemicals were purchased from commercial sources and used without further purification. The starting material sodium 5-(8-(((2-carboxyethyl)amino)methyl)-7-hydroxy-4-oxo-4H-chromen-3-yl)-2-hydroxybenzenesulfonate was synthesized following the literature procedures [5]. A mixture of sodium salt described before (0.022 g), sodium nitrite (0.035 g), 6 mol/L nitric acid (0.4 mL) and water (3 mL) was sealed in a 20 mL vial and sonicated for 5 min. Then the mixture was heated at 363 K for three days. Yellow needle crystals of 3-(((7-hydroxy-3-(4-hydroxy-3,5-dinitrophenyl)-4-oxo-4H-chromen-8-yl)methyl)(nitroso)amino)propanoic acid were obtained. 1 H–NMR (400 MHz, DMSO-d 6) δ:11.37 (s, 1H, H4), 8.68 (s, 1H, H9), 8.51 (s, 2H, H11, H15), 7.98 (d, J = 8.8 Hz, 1H, H3), 7.07 (d, J = 8.8 Hz, 1H, H2), 4.92 (s, 2H, H16A, H16B), 4.22 (s, 2H, H17A, H17B), 2.74 (s, 2H, H18A, H18B). 13 C–NMR (100 MHz, DMSO-d 6) δ:174.10 (C7), 172.06 (C19), 161.30 (C1), 155.56 (C5), 154.97 (C13), 145.51 (C9), 139.90 (C12, C14), 129.58 (C11, C15), 129.54 (C3), 126.68 (C10) 119.50 (C8), 116.30 (C4), 114.71 (C6), 107.53 (C2), 47.25 (C17), 36.16 (C16), 32.93 (C18). IR spectra (potassium bromide pellet) were recorded on a Nicolet 6700. IR (v/cm−1): 3437, 1625, 1543, 1444, 1345, 1311, 1261, 1173, 1128, 1033, 917, 903, 849, 785, 746, 730, 689, 649, 547, 502.

Experimental details

All the H atoms were placed in calculated positions and were included in the refinement in the riding model approximation, with U iso(H) set to 1.2 U eq(C) or 1.5 U eq(O).

Comment

Numerous publications describe the nitration of flavonoids [6], [7], [8], [9]. Some of nitro derivatives of flavonoids possess various biological activities such as antioxidant, anti-inflammatory, and anti-cancer [9]. The goal of our work is to synthesize nitro derivatives of daidzein to improve its’ biological activity. In this paper, we used sodium 5-(8-(((2-carboxyethyl)amino)methyl)-7-hydroxy-4-oxo-4H-chromen-3-yl)-2-hydroxybenzenesulfonate to react with nitrating agent and got the title compound. The molecular structure contains a nitrosamine group. Studies of the pharmacological activities of the title compound are in progress. The asymmetric unit of the title structure has one 3-(((7-hydroxy-3-(4-hydroxy-3,5-dinitrophenyl)-4-oxo-4H-chromen-8-yl)methyl)(nitroso)amino)propanoic acid molecule (cf. the figure). The dihedral angle between planar rings B (C10—C15) and C (C7—C9/O3/C5/C4) is 23.92°. The molecule shows an intramolecular O4—H4⃛O7 hydrogen bond of length 1.946 Å. There exist various O—H⃛O hydrogen bonds. There are two ππ stacking interactions between phenyl rings from adjacent molecules. The centroid-centroid distance of C1—C6 phenyl rings is 3.4246(15) Å and the centroid-centroid distance of C10—C15 phenyl rings is 3.5776(17) Å. Together with intermolecular hydrogen bonds and ππ stacking interactions a two-dimensional layer is obtained.


Corresponding author: Dong-Mei Yao, School of Chemical and Biological Engineering, Hechi University, Yizhou District, 546300 Hechi, Guangxi, P. R. China, E-mail:

Funding source: Guangxi Natural Science Foundation of China

Award Identifier / Grant number: 2020GXNSFBA297138

Funding source: 2021 High-Level Talents Scientific Research Startup Fund of Hechi University

Award Identifier / Grant number: 2021GCC021

  1. Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.

  2. Research funding: This work was financially supported by Guangxi Natural Science Foundation of China (No. 2020GXNSFBA297138) and 2021 High-Level Talents Scientific Research Startup Fund of Hechi University (No. 2021GCC021).

  3. Conflict of interest statement: The authors declare no conflicts of interest regarding this article.

References

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Received: 2022-07-11
Accepted: 2022-08-16
Published Online: 2022-09-02
Published in Print: 2022-12-16

© 2022 the author(s), published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 International License.

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  68. The crystal structure of (E)-2-((5-bromo-2-hydroxybenzylidene)amino)-3′,6′-bis(ethylamino)-2′, 7′-dimethylspiro[isoindoline-1,9′-xanthen]-3-one, C33H31BrN4O3
  69. The crystal structure of dimethanol-5,15-diphenylporphyrin-21,23-diido-κ4 N,Nʹ,Nʺ,Nʹʺ-manganese(III) trans-dicyanido-bis(acetylacetonato-κ2O,Oʹ)ruthenium(III), C46H42N6O6RuMn
  70. Crystal structure of 1,4,8,11-tetraazacyclotetradecane-1,8-diium bis(3,5-dicarboxybenzoate), C28H36N4O12
  71. Bifurcated halogen bonds in the crystal structure of 2,2′-bi(1,8-naphthyridine)—1,4-diiodotetrafluorobenzene (1/1), C22H10F4I2N4
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