organic compounds
N-(4-Amino-1,2,5-oxadiazol-3-yl)formamide
aKosygin State University of Russia, 117997 Moscow, Russian Federation, bN. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, 119991 Moscow, Russian Federation, cHacettepe University, Department of Physics, 06800 Beytepe-Ankara, Türkiye, dAzerbaijan State Pedagogical University, 68 Uzeyir Hajibeyov St., AZ 1000, Baku, Azerbaijan, eAzerbaijan Medical University, Scientific Research Centre (SRC), A. Kasumzade St. 14, AZ1022 Baku, Azerbaijan, and fChemistry Department, Faculty of Science, Hadhramout University, Mukalla, Hadhramout, Yemen
*Correspondence e-mail: [email protected]
The of the title compound, C3H4N4O2, contains two coplanar molecules (A and B) completely located on mirror planes. In the crystal, N—H⋯O, N—H⋯N, C—H⋯O and C—H⋯N hydrogen bonds link the molecules into sheets parallel to (010). There are neither significant π–π nor C—H⋯π(ring) interactions. Hirshfeld surface analysis indicates that the most important contributions to the crystal packings of molecules A and B are from H⋯O/O⋯H (32.4% for A, 30.1% for B), H⋯N/N⋯H (28.2%, 31.5%) and H⋯H (12.3%, 8.0%) interactions.
CCDC reference: 2480423
Structure description
Oxadiazole is a five-membered heterocyclic compound with one oxygen and two nitrogen atoms. The oxadiazole scaffold is a commonly utilized pharmacophore and has been subjected to extensive studies in recent years because of its metabolic profile and ability to engage in hydrogen-bonding with receptor sites (Khan et al., 2017
; Khalilov, 2021
). Oxadiazole derivatives have also attracted significant attention because of their reactivity (Guseinov et al., 2024
), diverse functional (Aliyeva et al., 2024
) and pharmacological properties, including anti-inflammatory, antibacterial, antihypertension, muscle relaxing and anticancer activities (Boström et al., 2012
). Moreover, derivatization of the oxadiazole synthon with non-covalent donor or acceptor sites for hydrogen-bonding interactions can be applied as a synthetic strategy in the improvement of functional properties of its metal complexes (Mahmudov et al., 2022
). Herein, we report synthesis, molecular and crystal structures together with Hirshfeld surface analysis of a new aldehyde and NH-functionalized oxadiazole derivative, C3H4N4O2.
The asymmetric unit contains two molecules (A and B, Fig. 1
) completely located on mirror planes, making the molecules exactly planar. Small variations are observed in the C8A—N7A—C3A [125.88 (14)°] and C8B—N7B—C3B [125.04 (14)°], N2A—C3A—N7A [125.07 (14)°] and N2B—C3B—N7B [125.41 (14)°], N7A—C3A—C4A [124.71 (14)°] and N7B—C3B—C4B [124.10 (14)°], N5A—C4A—N6A [124.68 (15)°] and N5B—C4B—N6B [125.28 (15)°], N6A—C4A—C3A [127.25 (15)°] and N6B—C4B—C3B [126.16 (15)°], O9A—C8A—N7A [125.23 (15)°] and O9B—C8B—N7B [123.42 (15)°] bond angles due to the strengths of the N—H⋯O and N—H⋯N hydrogen-bonding interactions (Fig. 2
,Table 1
). Next to these classical hydrogen-bonding interactions, weaker C—H⋯O and C—H⋯N interactions are also present (Table 1
), linking the molecules into sheets extending parallel to (010). There are neither significant π–π nor C—H⋯π(ring) interactions present between molecules.
|
| Figure 1 The asymmetric unit of the title compound with the atom-numbering scheme and 50% probability ellipsoids. |
| | Figure 2 Partial packing diagram of the title compound, highlighting the layered arrangement. Intermolecular N—H⋯N, N—H⋯O, C—H⋯O and C—H⋯N hydrogen bonds are shown as dashed lines. |
A Hirshfeld surface (HS) analysis was carried out using CrystalExplorer (Spackman et al., 2021
) to visualize and quantify the intermolecular interactions. In the HSs plotted over dnorm (Fig. 3
a,b), the contact distances equal, shorter and longer with respect to the sum of van der Waals radii are shown by white, red and blue colours, respectively. According to the two-dimensional fingerprint plots, H⋯O/O⋯H, H⋯N/N⋯H and H⋯H contacts make the most important contributions to the HSs (Table 2
, Figs. 4
and 5
), and they have significant differences due to the different numbers and values of the close contacts.
| |||||||||||||||||||||||||||||||||||
| | Figure 3 Views of the three-dimensional Hirshfeld surfaces for (a) molecule A and (b) molecule B plotted over dnorm. |
| Figure 4 The full two-dimensional fingerprint plots for molecule A, showing (a) all interactions, and delineated into (b) H⋯O/O⋯H, (c) H⋯N/N⋯H, (d) H⋯H, (e) H⋯C/C⋯H, (f) N⋯O/O⋯N, (g) O⋯O, (h) C⋯O/O⋯C, (i) C⋯N/N⋯C and (j) N⋯N interactions. The di and de values are the closest internal and external distances (in Å) from given points on the Hirshfeld surface contacts. |
| Figure 5 The full two-dimensional fingerprint plots for molecule B; subdivisions are the same as in Fig. 4 |
Synthesis and crystallization
A mixture of diaminofurazan (20 mg, 0.2 mmol) and 2,2-dichloro-3-oxo-3-phenylpropanal (42.4 mg, 0.2 mmol) in 15 ml of CCl4 (dry) was boiled for 30 min. The reaction mixture was then cooled to room temperature, the precipitate filtered and recrystallized from chloroform solution. Yield 15.4 mg (62%), 1H NMR (300 MHz, DMSO-d6): 10.40 (1H, NH), 8.75 (1H, CHO), 6.11 (2H, NH2). 13C NMR (200 MHz, DMSO-d6): 143.89, 147.78, 165.90.
Refinement
Crystal data, data collection and structure details are summarized in Table 3
.
|
Structural data
CCDC reference: 2480423
contains datablock I. DOI: https://doi.org/10.1107/S2414314625007205/wm4232sup1.cif
Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2414314625007205/wm4232Isup2.hkl
| C3H4N4O2 | F(000) = 264 |
| Mr = 128.10 | Dx = 1.701 Mg m−3 |
| Monoclinic, P121/m1 | Cu Kα radiation, λ = 1.54184 Å |
| a = 7.98085 (8) Å | Cell parameters from 9316 reflections |
| b = 6.17409 (7) Å | θ = 4.4–78.3° |
| c = 10.19204 (9) Å | µ = 1.26 mm−1 |
| β = 95.2595 (9)° | T = 100 K |
| V = 500.09 (1) Å3 | Prism, colorless |
| Z = 4 | 0.28 × 0.22 × 0.04 mm |
| XtaLAB Synergy, Dualflex, HyPix diffractometer | 1182 independent reflections |
| Radiation source: micro-focus sealed X-ray tube, PhotonJet (Cu) X-ray Source | 1153 reflections with I > 2σ(I) |
| Mirror monochromator | Rint = 0.031 |
| Detector resolution: 10.0000 pixels mm-1 | θmax = 79.7°, θmin = 4.4° |
| ω scans | h = −10→10 |
| Absorption correction: gaussian (CrysAlisPro; Rigaku OD, 2023) | k = −7→7 |
| Tmin = 0.503, Tmax = 1.000 | l = −12→12 |
| 13311 measured reflections |
| Refinement on F2 | Secondary atom site location: difference Fourier map |
| Least-squares matrix: full | Hydrogen site location: mixed |
| R[F2 > 2σ(F2)] = 0.035 | H atoms treated by a mixture of independent and constrained refinement |
| wR(F2) = 0.095 | w = 1/[σ2(Fo2) + (0.0568P)2 + 0.2125P] where P = (Fo2 + 2Fc2)/3 |
| S = 1.06 | (Δ/σ)max < 0.001 |
| 1182 reflections | Δρmax = 0.45 e Å−3 |
| 128 parameters | Δρmin = −0.26 e Å−3 |
| 0 restraints | Extinction correction: SHELXL-2018/3 (Sheldrick 2015b), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
| Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.0043 (10) |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes. |
Refinement. The NH hydrogen atomss were located in difference-Fourier maps and were refined isotropically. |
| x | y | z | Uiso*/Ueq | ||
| O1A | 0.21691 (14) | 0.750000 | −0.13259 (11) | 0.0213 (3) | |
| O9A | −0.19240 (15) | 0.750000 | 0.09542 (12) | 0.0223 (3) | |
| N2A | 0.08834 (16) | 0.750000 | −0.04954 (13) | 0.0183 (3) | |
| N5A | 0.37506 (17) | 0.750000 | −0.05892 (14) | 0.0212 (3) | |
| N6A | 0.46198 (18) | 0.750000 | 0.16804 (16) | 0.0309 (4) | |
| H6A | 0.569 (4) | 0.750000 | 0.154 (3) | 0.034 (6)* | |
| H6B | 0.433 (3) | 0.750000 | 0.245 (3) | 0.029 (6)* | |
| N7A | 0.08165 (16) | 0.750000 | 0.18320 (13) | 0.0181 (3) | |
| H7A | 0.141 (3) | 0.750000 | 0.259 (3) | 0.027 (6)* | |
| C3A | 0.16276 (19) | 0.750000 | 0.06877 (15) | 0.0163 (3) | |
| C4A | 0.34342 (19) | 0.750000 | 0.06452 (16) | 0.0191 (3) | |
| C8A | −0.0871 (2) | 0.750000 | 0.18991 (16) | 0.0205 (4) | |
| H8A | −0.126486 | 0.750000 | 0.275080 | 0.025* | |
| O1B | 0.19712 (15) | 0.250000 | 0.50920 (12) | 0.0247 (3) | |
| O9B | 0.71609 (15) | 0.250000 | 0.57695 (12) | 0.0226 (3) | |
| N2B | 0.37256 (17) | 0.250000 | 0.52444 (14) | 0.0230 (3) | |
| N5B | 0.13570 (18) | 0.250000 | 0.37538 (14) | 0.0213 (3) | |
| N6B | 0.26997 (19) | 0.250000 | 0.17935 (14) | 0.0259 (4) | |
| H6C | 0.365 (3) | 0.250000 | 0.141 (2) | 0.023 (5)* | |
| H6D | 0.177 (4) | 0.250000 | 0.130 (3) | 0.039 (7)* | |
| N7B | 0.58111 (16) | 0.250000 | 0.37086 (13) | 0.0187 (3) | |
| H7B | 0.595 (3) | 0.250000 | 0.283 (3) | 0.028 (6)* | |
| C3B | 0.4166 (2) | 0.250000 | 0.40507 (15) | 0.0176 (3) | |
| C4B | 0.26997 (19) | 0.250000 | 0.31096 (16) | 0.0170 (3) | |
| C8B | 0.7209 (2) | 0.250000 | 0.45783 (16) | 0.0201 (4) | |
| H8B | 0.827870 | 0.250000 | 0.423922 | 0.024* |
| U11 | U22 | U33 | U12 | U13 | U23 | |
| O1A | 0.0133 (5) | 0.0377 (7) | 0.0134 (5) | 0.000 | 0.0029 (4) | 0.000 |
| O9A | 0.0136 (5) | 0.0363 (7) | 0.0165 (6) | 0.000 | 0.0000 (4) | 0.000 |
| N2A | 0.0123 (6) | 0.0303 (7) | 0.0130 (6) | 0.000 | 0.0045 (5) | 0.000 |
| N5A | 0.0117 (6) | 0.0342 (8) | 0.0178 (7) | 0.000 | 0.0018 (5) | 0.000 |
| N6A | 0.0101 (7) | 0.0663 (12) | 0.0164 (7) | 0.000 | 0.0013 (5) | 0.000 |
| N7A | 0.0109 (6) | 0.0326 (8) | 0.0106 (6) | 0.000 | 0.0005 (5) | 0.000 |
| C3A | 0.0107 (7) | 0.0246 (8) | 0.0136 (7) | 0.000 | 0.0017 (5) | 0.000 |
| C4A | 0.0117 (7) | 0.0286 (8) | 0.0170 (8) | 0.000 | 0.0019 (6) | 0.000 |
| C8A | 0.0159 (7) | 0.0315 (9) | 0.0145 (7) | 0.000 | 0.0025 (6) | 0.000 |
| O1B | 0.0137 (6) | 0.0467 (8) | 0.0141 (6) | 0.000 | 0.0026 (4) | 0.000 |
| O9B | 0.0177 (6) | 0.0349 (7) | 0.0143 (6) | 0.000 | −0.0027 (4) | 0.000 |
| N2B | 0.0126 (6) | 0.0404 (9) | 0.0159 (7) | 0.000 | 0.0017 (5) | 0.000 |
| N5B | 0.0150 (6) | 0.0361 (8) | 0.0127 (6) | 0.000 | 0.0006 (5) | 0.000 |
| N6B | 0.0116 (7) | 0.0540 (10) | 0.0117 (6) | 0.000 | −0.0012 (5) | 0.000 |
| N7B | 0.0113 (6) | 0.0338 (8) | 0.0109 (7) | 0.000 | 0.0005 (5) | 0.000 |
| C3B | 0.0136 (7) | 0.0257 (8) | 0.0133 (7) | 0.000 | 0.0008 (6) | 0.000 |
| C4B | 0.0128 (7) | 0.0238 (8) | 0.0142 (7) | 0.000 | 0.0004 (5) | 0.000 |
| C8B | 0.0137 (7) | 0.0294 (9) | 0.0169 (8) | 0.000 | −0.0010 (6) | 0.000 |
| O1A—N2A | 1.3888 (16) | O1B—N2B | 1.3945 (17) |
| O1A—N5A | 1.4082 (17) | O1B—N5B | 1.4064 (17) |
| O9A—C8A | 1.219 (2) | O9B—C8B | 1.218 (2) |
| N2A—C3A | 1.294 (2) | N2B—C3B | 1.297 (2) |
| N5A—C4A | 1.306 (2) | N5B—C4B | 1.307 (2) |
| N6A—H6A | 0.88 (3) | N6B—H6C | 0.88 (2) |
| N6A—H6B | 0.83 (3) | N6B—H6D | 0.85 (3) |
| N6A—C4A | 1.351 (2) | N6B—C4B | 1.341 (2) |
| N7A—H7A | 0.87 (3) | N7B—H7B | 0.91 (3) |
| N7A—C3A | 1.385 (2) | N7B—C3B | 1.389 (2) |
| N7A—C8A | 1.355 (2) | N7B—C8B | 1.360 (2) |
| C3A—C4A | 1.446 (2) | C3B—C4B | 1.444 (2) |
| C8A—H8A | 0.9500 | C8B—H8B | 0.9500 |
| O1A···N7Bi | 3.0352 (18) | H6B···O9Bii | 2.26 (3) |
| O1B···C8Bii | 3.1671 (5) | N2A···N6Bx | 3.039 (2) |
| O9A···N6Biii | 2.812 (2) | N2B···C8Bv | 3.1849 (5) |
| O9A···N2A | 2.7947 (18) | N6A···N7A | 3.054 (2) |
| N6A···O9Aiv | 2.9206 (19) | N6B···N7B | 3.014 (2) |
| O9B···N7Av | 2.8032 (18) | N2A···H6Diii | 2.20 (3) |
| O9B···N6Avi | 3.074 (2) | H6B···N2Bii | 2.69 (3) |
| O9B···N2B | 2.7448 (19) | N5A···H7Bvii | 2.32 (3) |
| O1A···H7Bvii | 2.24 (3) | N5A···H6Cvii | 2.31 (2) |
| O1B···H8Aviii | 2.3189 | H8B···N5Bxi | 2.55 |
| H6D···O9Aix | 2.31 (3) | N6B···H7B | 2.72 (3) |
| O9A···H6Ciii | 2.66 (2) | C8A···H6Axii | 2.74 (3) |
| H6A···O9Aiv | 2.06 (3) | H6B···H7A | 2.35 (3) |
| H6D···O9Aiii | 2.31 (3) | H6C···H7B | 2.24 (4) |
| O9B···H7Avi | 1.94 (3) | ||
| N2A—O1A—N5A | 110.56 (11) | N2B—O1B—N5B | 111.41 (11) |
| C3A—N2A—O1A | 105.44 (12) | C3B—N2B—O1B | 104.56 (13) |
| C4A—N5A—O1A | 105.71 (12) | C4B—N5B—O1B | 104.97 (13) |
| H6A—N6A—H6B | 120 (2) | H6C—N6B—H6D | 118 (2) |
| C4A—N6A—H6A | 119.8 (17) | C4B—N6B—H6C | 121.3 (15) |
| C4A—N6A—H6B | 119.8 (17) | C4B—N6B—H6D | 120.5 (18) |
| C3A—N7A—H7A | 119.6 (16) | C3B—N7B—H7B | 116.9 (15) |
| C8A—N7A—H7A | 114.5 (16) | C8B—N7B—H7B | 118.0 (15) |
| C8A—N7A—C3A | 125.88 (14) | C8B—N7B—C3B | 125.04 (14) |
| N2A—C3A—N7A | 125.07 (14) | N2B—C3B—N7B | 125.41 (14) |
| N2A—C3A—C4A | 110.23 (13) | N2B—C3B—C4B | 110.49 (14) |
| N7A—C3A—C4A | 124.71 (14) | N7B—C3B—C4B | 124.10 (14) |
| N5A—C4A—N6A | 124.68 (15) | N5B—C4B—N6B | 125.28 (15) |
| N5A—C4A—C3A | 108.07 (14) | N5B—C4B—C3B | 108.56 (14) |
| N6A—C4A—C3A | 127.25 (15) | N6B—C4B—C3B | 126.16 (15) |
| O9A—C8A—N7A | 125.23 (15) | O9B—C8B—N7B | 123.42 (15) |
| O9A—C8A—H8A | 117.4 | O9B—C8B—H8B | 118.3 |
| N7A—C8A—H8A | 117.4 | N7B—C8B—H8B | 118.3 |
| O1A—N2A—C3A—N7A | 180.000 (1) | O1B—N2B—C3B—N7B | 180.000 (1) |
| O1A—N2A—C3A—C4A | 0.0 | O1B—N2B—C3B—C4B | 0.000 (1) |
| O1A—N5A—C4A—N6A | 180.000 (1) | O1B—N5B—C4B—N6B | 180.000 (1) |
| O1A—N5A—C4A—C3A | 0.0 | O1B—N5B—C4B—C3B | 0.000 (1) |
| N2A—O1A—N5A—C4A | 0.000 (1) | N2B—O1B—N5B—C4B | 0.000 (1) |
| N2A—C3A—C4A—N5A | 0.0 | N2B—C3B—C4B—N5B | 0.000 (1) |
| N2A—C3A—C4A—N6A | 180.000 (1) | N2B—C3B—C4B—N6B | 180.000 (1) |
| N5A—O1A—N2A—C3A | 0.000 (1) | N5B—O1B—N2B—C3B | 0.000 (1) |
| N7A—C3A—C4A—N5A | 180.0 | N7B—C3B—C4B—N5B | 180.000 (1) |
| N7A—C3A—C4A—N6A | 0.000 (1) | N7B—C3B—C4B—N6B | 0.000 (1) |
| C3A—N7A—C8A—O9A | 0.000 (1) | C3B—N7B—C8B—O9B | 0.000 (1) |
| C8A—N7A—C3A—N2A | 0.000 (1) | C8B—N7B—C3B—N2B | 0.000 (1) |
| C8A—N7A—C3A—C4A | 180.000 (1) | C8B—N7B—C3B—C4B | 180.000 (1) |
| Symmetry codes: (i) −x+1, y+1/2, −z; (ii) −x+1, y+1/2, −z+1; (iii) −x, −y+1, −z; (iv) x+1, y, z; (v) −x+1, y−1/2, −z+1; (vi) −x+1, −y+1, −z+1; (vii) −x+1, −y+1, −z; (viii) −x, −y+1, −z+1; (ix) −x, y−1/2, −z; (x) −x, y+1/2, −z; (xi) x+1, −y+1/2, z; (xii) x−1, y, z. |
| D—H···A | D—H | H···A | D···A | D—H···A |
| N6A—H6A···O9Aiv | 0.88 (3) | 2.05 (3) | 2.9207 (19) | 172 (2) |
| N6A—H6B···O9Bvi | 0.83 (3) | 2.26 (3) | 3.074 (2) | 164 (2) |
| N7A—H7A···O9Bii | 0.87 (3) | 1.93 (3) | 2.8033 (18) | 177 (2) |
| N7A—H7A···O9Bvi | 0.87 (3) | 1.93 (3) | 2.8033 (18) | 177 (2) |
| N6B—H6C···N5Avii | 0.88 (2) | 2.31 (2) | 3.189 (2) | 175 (2) |
| N6B—H6D···O9Aiii | 0.85 (3) | 2.31 (3) | 2.8121 (19) | 118 (2) |
| N6B—H6D···N2Aiii | 0.85 (3) | 2.20 (3) | 3.0387 (19) | 166 (3) |
| N7B—H7B···O1Avii | 0.91 (3) | 2.24 (3) | 3.0354 (17) | 145 (2) |
| N7B—H7B···N5Avii | 0.91 (3) | 2.32 (3) | 3.2302 (19) | 179 (2) |
| C8A—H8A···O1Bviii | 0.95 | 2.32 | 3.266 (2) | 175 |
| C8B—H8B···N5Bxi | 0.95 | 2.55 | 3.489 (2) | 170 |
| Symmetry codes: (ii) −x+1, y+1/2, −z+1; (iii) −x, −y+1, −z; (iv) x+1, y, z; (vi) −x+1, −y+1, −z+1; (vii) −x+1, −y+1, −z; (viii) −x, −y+1, −z+1; (xi) x+1, −y+1/2, z. |
| Contacts | A | B |
| H···O/O···H | 32.4 | 30.1 |
| H···N/N···H | 28.2 | 31.5 |
| H···H | 12.3 | 8.0 |
| H···C/C···H | 7.2 | 6.9 |
| N···O/O···N | 5.3 | 4.3 |
| O···O | 4.6 | 1.5 |
| C···O/O···C | 3.9 | 7.2 |
| C···N/N···C | 3.3 | 5.6 |
| N···N | 2.9 | 5.0 |
Acknowledgements
The crystal-structure determination was performed in the Department of Structural Studies of the Zelinsky Institute of Organic Chemistry, Moscow. This work has been supported by the Azerbaijan State Pedagological University and Azerbaijan Medical University. The author's contributions are as follows. Conceptualization, FIG and ANB; synthesis, EVS; X-ray analysis, AIS and TH; Hirshfeld surface analysis, TH; writing (review and editing of the manuscript), TH, NAE and KIH; funding acquisition, NAE and KIH; supervision, FIG, TH and ANB.
References
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