organic compounds
4-(Dimethylamino)benzohydrazide
aDepartment of Chemistry, University of Missouri, Columbia, MO 65211, USA, and bDepartment of Biochemistry, University of Missouri, Columbia, MO 65211, USA
*Correspondence e-mail: MossineV@missouri.edu
The title compound, C9H13N3O, crystallizes in the monoclinic C2/c and all non-hydrogen atoms are within 0.1 Å of the molecular mean plane. In the crystal, the hydrogen-bonding pattern results in [001] chains built up from fused R22(6) and R22(10) rings; the former consists of N—H⋯N bonds and the latter N—H⋯O bonds. Electrostatic and dispersion forces are major contributors to the lattice energy, which was estimated by DFT calculations to be −215.7 kJ mol−1.
CCDC reference: 2032776
Structure description
For decades, there has been an interest in aroyl ) or anticancer (Kumar & Narasimhan, 2013) drugs, in addition to their own anti-tubercular activities (Sah & Peoples, 1954). In our search for inhibitors of bacterial virulence factors (Mossine et al., 2016, 2020), we turned our attention to the title compound, which can be viewed as a structural analogue of isoniazid (Andrade et al., 2008) and a potential precursor for pharmacologically active, iron-binding hydrazide-hydrazones. We now report its crystal structure.
because of their numerous applications, for instance, as synthetic precursors to a large number of potential antimicrobial (Popiołek, 2017The title compound crystallizes in the monoclinic C2/c, with eight molecules per The contains one molecule of the hydrazide (I), as shown in Fig. 1. All bond lengths and angles are within their expected ranges. The molecule is essentially flat, with the greatest deviation from the average molecular plane, among the non-hydrogen atoms, found for atom N1 at 0.074 (1) Å. The aromatic ring plane is at 1.08 (4)° to the molecular plane. The spatial arrangement of the hydrazido group, as defined by the torsion angle H2—N2—N3—H3B = 119.3 (15)°, corresponds to the lowest energy conformation that has been calculated for acyl (Centore et al., 2010).
The conventional hydrogen bonding in the extended structure of (I) is limited to two intermolecular heteroatom contacts (Table 1) involving the hydrazido groups only and is shown in Fig. 2. The hydrogen-bonding pattern includes infinite chains that propagate in the [001] direction and consist of fused R22(10) and R22(6) rings (Fig. 2a). The R22(10) motif is formed by pairs of molecules linked by the N3—H3B⋯O1 hydrogen bonds related by twofold rotation symmetry, while the R22(6) motif is formed by centrosymmetric dimers of (I) linked by the N2—H2⋯N3 hydrogen bonds. In addition, one short intermolecular contact, C6—H6⋯O1, which satisfies the distance and directionality conditions [C6⋯O1iii = 3.4111 (13) Å, C6—H6⋯O1iii = 172°; symmetry code: (iii) x, 1 − y, ½ + z], and which is shown in Fig. 3 as a dotted line, may also contribute to the stability of the molecular packing in the crystal. The intermolecular non-polar interactions are dominated by hydrogen–hydrogen contacts between the methyl groups; the shortest of these contacts, H8C⋯H9B, is about 0.1 Å less than the sum of the VdW radii. These interactions form a pattern of infinite chains, propagating in the [001] direction, in parallel to the hydrogen-bonded chains (Fig. 2b and 2c). The lacks any strong π–π stacking interactions. However, a short N3—H3A⋯Cg1 [H3A⋯Cg1iv = 2.614 (15) Å; symmetry code: (iv) x, y − 1, z] contact is present.
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To account for all interactions involved in the build-up of the I) we have performed DFT calculations, at the B3LYP/6–31 G(d,p) theory level (Mackenzie et al., 2017; Thomas et al., 2018), of the electrostatic, dispersion, polarization, and repulsion energies. According to these calculations, the interactions between hydrogen-bonded pairs of molecules contribute about 50% to the lattice energy, with the dispersion energy providing most of the attractive forces between non-hydrogen-bonded molecules of (I) (i.e. Eele = −9.2 kJ mol−1, Edis = −44.2 kJ mol−1 for symmetry code = x, y, z). To estimate the lattice energy, all total energies of unique pairwise interactions between molecules were summed up, thus yielding El (l = lattice) = −216 kJ mol−1 for the crystal of (I). The calculated contributions to the overall lattice energy (kJ mol−1) are as follows: Eele = −165.3; Epol = −46.0; Edis = −173.9; Erep = 234.1. The spatial distribution of the energetically most significant interactions is illustrated in Fig. 4, showing the interactions energy frameworks as cylinders penetrating the molecular packing of (I). As expected, the most extensive intermolecular interactions occur in the hydrogen-bonded chain direction parallel to [001].
of (Synthesis and crystallization
A sample of commercial 4-dimethylaminobenzhydrazide was recrystallized from hot 95% ethanol solution, affording colorless needles.
Refinement
Crystal data, data collection and structure .
details are summarized in Table 2Structural data
CCDC reference: 2032776
https://doi.org/10.1107/S2414314620013103/hb4366sup1.cif
contains datablock I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2414314620013103/hb4366Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S2414314620013103/hb4366Isup3.cml
Data collection: APEX3 (Bruker, 2016); cell
APEX3 and SAINT (Bruker, 2016); data reduction: APEX3 and SAINT (Bruker, 2016); program(s) used to solve structure: SHELXS (Sheldrick, 2008); program(s) used to refine structure: SHELXL (Sheldrick, 2015); molecular graphics: OLEX2 (Dolomanov et al., 2009), CrystalExplorer17.5 (Mackenzie et al., 2017) and Mercury (Macrae et al., 2020); software used to prepare material for publication: publCIF (Westrip, 2010).C9H13N3O | F(000) = 768 |
Mr = 179.22 | Dx = 1.310 Mg m−3 |
Monoclinic, C2/c | Cu Kα radiation, λ = 1.54178 Å |
a = 24.7018 (6) Å | Cell parameters from 9928 reflections |
b = 6.3093 (1) Å | θ = 4.1–72.3° |
c = 13.2103 (3) Å | µ = 0.72 mm−1 |
β = 118.0496 (8)° | T = 100 K |
V = 1817.01 (7) Å3 | Irregular, colourless |
Z = 8 | 0.25 × 0.24 × 0.23 mm |
Bruker APEXII CCD diffractometer | 1786 independent reflections |
Radiation source: Incoatec IMuS microfocus Cu tube | 1770 reflections with I > 2σ(I) |
Multi-layer optics monochromator | Rint = 0.019 |
φ and ω scans | θmax = 72.4°, θmin = 4.1° |
Absorption correction: multi-scan (AXScale; Bruker, 2016) | h = −29→26 |
Tmin = 0.684, Tmax = 0.754 | k = −7→7 |
15813 measured reflections | l = −16→16 |
Refinement on F2 | Secondary atom site location: difference Fourier map |
Least-squares matrix: full | Hydrogen site location: mixed |
R[F2 > 2σ(F2)] = 0.036 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.098 | w = 1/[σ2(Fo2) + (0.0541P)2 + 1.3587P] where P = (Fo2 + 2Fc2)/3 |
S = 1.07 | (Δ/σ)max < 0.001 |
1786 reflections | Δρmax = 0.22 e Å−3 |
130 parameters | Δρmin = −0.22 e Å−3 |
0 restraints | Extinction correction: SHELXL2017/1 (Sheldrick 2015), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.0036 (3) |
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 hydrazide H2, H3A, and H3B atoms were located in difference-Fourier maps while all other hydrogen atoms were initially placed in calculated positions with their coordinates constrained to ride on their carrier atoms [C—H(aromatic) = 0.95?Å, C—H(methyl) = 0.98?Å]. The constraint Uiso(H) = 1.2Ueq(carrier) or 1.5Ueq(methyl carrier) was applied in all cases. |
x | y | z | Uiso*/Ueq | ||
O1 | 0.07812 (3) | 0.16597 (12) | 0.32634 (6) | 0.0191 (2) | |
N2 | 0.03227 (4) | 0.11655 (14) | 0.43722 (7) | 0.0155 (2) | |
H2 | 0.0261 (6) | 0.151 (2) | 0.4964 (12) | 0.023* | |
N3 | 0.00327 (4) | −0.07477 (14) | 0.38183 (7) | 0.0155 (2) | |
H3A | 0.0319 (7) | −0.162 (2) | 0.3826 (12) | 0.023* | |
H3B | −0.0235 (6) | −0.037 (2) | 0.3076 (13) | 0.023* | |
N1 | 0.18614 (4) | 0.97723 (15) | 0.64989 (8) | 0.0218 (3) | |
C5 | 0.08706 (4) | 0.50333 (16) | 0.56022 (8) | 0.0147 (2) | |
H5 | 0.060886 | 0.428200 | 0.582134 | 0.018* | |
C6 | 0.11601 (4) | 0.68522 (16) | 0.61942 (8) | 0.0155 (2) | |
H6 | 0.109206 | 0.733294 | 0.680648 | 0.019* | |
C1 | 0.15565 (4) | 0.80037 (16) | 0.58975 (8) | 0.0156 (2) | |
C2 | 0.16280 (5) | 0.72556 (17) | 0.49598 (9) | 0.0174 (3) | |
H2A | 0.188258 | 0.801208 | 0.472528 | 0.021* | |
C4 | 0.09528 (4) | 0.42708 (16) | 0.46894 (8) | 0.0144 (2) | |
C3 | 0.13326 (5) | 0.54379 (17) | 0.43786 (9) | 0.0166 (2) | |
H3 | 0.138925 | 0.496951 | 0.375132 | 0.020* | |
C7 | 0.06791 (4) | 0.22760 (16) | 0.40464 (8) | 0.0141 (2) | |
C8 | 0.17404 (5) | 1.06515 (18) | 0.73873 (9) | 0.0210 (3) | |
H8A | 0.131656 | 1.116555 | 0.704356 | 0.032* | |
H8B | 0.202237 | 1.183084 | 0.776385 | 0.032* | |
H8C | 0.180052 | 0.955197 | 0.795469 | 0.032* | |
C9 | 0.22406 (5) | 1.09916 (18) | 0.61407 (10) | 0.0222 (3) | |
H9A | 0.258398 | 1.011548 | 0.620994 | 0.033* | |
H9B | 0.239960 | 1.224711 | 0.662961 | 0.033* | |
H9C | 0.199403 | 1.143461 | 0.534079 | 0.033* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.0220 (4) | 0.0209 (4) | 0.0193 (4) | −0.0049 (3) | 0.0137 (3) | −0.0052 (3) |
N2 | 0.0196 (4) | 0.0142 (4) | 0.0150 (4) | −0.0038 (3) | 0.0101 (4) | −0.0026 (3) |
N3 | 0.0172 (4) | 0.0139 (4) | 0.0148 (4) | −0.0023 (3) | 0.0071 (4) | −0.0015 (3) |
N1 | 0.0232 (5) | 0.0217 (5) | 0.0240 (5) | −0.0086 (4) | 0.0140 (4) | −0.0071 (4) |
C5 | 0.0137 (5) | 0.0157 (5) | 0.0156 (5) | 0.0009 (4) | 0.0077 (4) | 0.0024 (4) |
C6 | 0.0157 (5) | 0.0171 (5) | 0.0143 (5) | 0.0016 (4) | 0.0075 (4) | 0.0006 (4) |
C1 | 0.0130 (5) | 0.0153 (5) | 0.0160 (5) | 0.0007 (4) | 0.0049 (4) | 0.0007 (4) |
C2 | 0.0167 (5) | 0.0182 (5) | 0.0194 (5) | −0.0023 (4) | 0.0103 (4) | 0.0012 (4) |
C4 | 0.0135 (5) | 0.0143 (5) | 0.0145 (5) | 0.0010 (4) | 0.0058 (4) | 0.0012 (4) |
C3 | 0.0176 (5) | 0.0188 (5) | 0.0165 (5) | 0.0006 (4) | 0.0105 (4) | −0.0001 (4) |
C7 | 0.0125 (5) | 0.0159 (5) | 0.0133 (5) | 0.0018 (4) | 0.0055 (4) | 0.0016 (4) |
C8 | 0.0214 (5) | 0.0185 (5) | 0.0225 (5) | −0.0020 (4) | 0.0098 (4) | −0.0054 (4) |
C9 | 0.0197 (5) | 0.0199 (6) | 0.0270 (6) | −0.0059 (4) | 0.0109 (5) | −0.0024 (4) |
O1—C7 | 1.2371 (12) | N2—H2 | 0.891 (15) |
N2—N3 | 1.4187 (12) | N3—H3A | 0.892 (17) |
N2—C7 | 1.3444 (13) | N3—H3B | 0.920 (15) |
N1—C1 | 1.3715 (14) | C2—H2A | 0.95 |
N1—C8 | 1.4506 (14) | C3—H3 | 0.95 |
N1—C9 | 1.4526 (14) | C5—H5 | 0.95 |
C5—C6 | 1.3835 (14) | C6—H6 | 0.95 |
C5—C4 | 1.3989 (14) | C8—H8A | 0.98 |
C6—C1 | 1.4146 (14) | C8—H8B | 0.98 |
C1—C2 | 1.4120 (14) | C8—H8C | 0.98 |
C2—C3 | 1.3821 (15) | C9—H9A | 0.98 |
C4—C3 | 1.3976 (14) | C9—H9B | 0.98 |
C4—C7 | 1.4909 (14) | C9—H9C | 0.98 |
C7—N2—N3 | 121.75 (8) | H3A—N3—H3B | 109.9 (13) |
C1—N1—C8 | 120.93 (9) | C1—C2—H2A | 120 |
C1—N1—C9 | 120.31 (9) | C3—C2—H2A | 120 |
C8—N1—C9 | 118.09 (9) | C2—C3—H3 | 119 |
C6—C5—C4 | 121.76 (9) | C4—C3—H3 | 119 |
C5—C6—C1 | 120.70 (9) | C4—C5—H5 | 119 |
N1—C1—C6 | 121.36 (9) | C6—C5—H5 | 119 |
N1—C1—C2 | 121.27 (9) | C1—C6—H6 | 120 |
C2—C1—C6 | 117.37 (9) | C5—C6—H6 | 120 |
C3—C2—C1 | 120.90 (9) | N1—C8—H8A | 109 |
C5—C4—C7 | 124.79 (9) | N1—C8—H8B | 109 |
C3—C4—C5 | 117.50 (9) | N1—C8—H8C | 109 |
C3—C4—C7 | 117.69 (9) | H8A—C8—H8B | 109 |
C2—C3—C4 | 121.73 (9) | H8A—C8—H8C | 109 |
O1—C7—N2 | 121.71 (10) | H8B—C8—H8C | 109 |
O1—C7—C4 | 121.71 (9) | N1—C9—H9A | 109 |
N2—C7—C4 | 116.58 (9) | N1—C9—H9B | 109 |
N3—N2—H2 | 114.0 (9) | N1—C9—H9C | 109 |
C7—N2—H2 | 124.2 (9) | H9A—C9—H9B | 109 |
N2—N3—H3A | 108.3 (10) | H9A—C9—H9C | 109 |
N2—N3—H3B | 105.4 (8) | H9B—C9—H9C | 109 |
C8—N1—C1—C2 | 173.90 (10) | C1—N1—C9—H9A | −64 |
C8—N1—C1—C6 | −6.35 (15) | C1—N1—C9—H9B | 176 |
C9—N1—C1—C2 | 3.50 (16) | C1—N1—C9—H9C | 56 |
C9—N1—C1—C6 | −176.75 (10) | C8—N1—C9—H9A | 125 |
N3—N2—C7—O1 | −1.50 (15) | C8—N1—C9—H9B | 5 |
N3—N2—C7—C4 | 179.43 (9) | C8—N1—C9—H9C | −115 |
N1—C1—C2—C3 | 178.16 (11) | C7—N2—N3—H3A | 54.0 (10) |
C6—C1—C2—C3 | −1.60 (16) | C7—N2—N3—H3B | −63.6 (11) |
N1—C1—C6—C5 | −177.96 (10) | H2—N2—N3—H3A | −123.2 (14) |
C2—C1—C6—C5 | 1.79 (15) | H2—N2—N3—H3B | 119.3 (15) |
C1—C2—C3—C4 | 0.07 (18) | H2—N2—C7—O1 | 175.4 (11) |
C2—C3—C4—C5 | 1.28 (16) | H2—N2—C7—C4 | −3.7 (11) |
C2—C3—C4—C7 | −177.07 (10) | N1—C1—C2—H2A | −2 |
C3—C4—C5—C6 | −1.08 (15) | C6—C1—C2—H2A | 178 |
C7—C4—C5—C6 | 177.14 (10) | N1—C1—C6—H6 | 2 |
C3—C4—C7—O1 | −0.02 (15) | C2—C1—C6—H6 | −178 |
C3—C4—C7—N2 | 179.06 (10) | C1—C2—C3—H3 | −180 |
C5—C4—C7—O1 | −178.23 (10) | H2A—C2—C3—C4 | −180 |
C5—C4—C7—N2 | 0.84 (15) | H2A—C2—C3—H3 | 0 |
C4—C5—C6—C1 | −0.47 (16) | H3—C3—C4—C5 | −179 |
C1—N1—C8—H8A | −65 | H3—C3—C4—C7 | 3 |
C1—N1—C8—H8B | 175 | C3—C4—C5—H5 | 179 |
C1—N1—C8—H8C | 55 | C7—C4—C5—H5 | −3 |
C9—N1—C8—H8A | 106 | C4—C5—C6—H6 | 180 |
C9—N1—C8—H8B | −14 | H5—C5—C6—C1 | 180 |
C9—N1—C8—H8C | −134 | H5—C5—C6—H6 | 0 |
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H2···N3i | 0.89 (2) | 2.11 (2) | 2.9203 (13) | 151 (1) |
N3—H3B···O1ii | 0.92 (2) | 2.09 (1) | 2.9516 (11) | 157 (1) |
Symmetry codes: (i) −x, −y, −z+1; (ii) −x, y, −z+1/2. |
Funding information
Funding for this research was provided by: National Institute of Food and Agriculture (award No. Hatch 1023929); University of Missouri, Agriculture Experiment Station Chemical Laboratories .
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