research communications
accessSynthesis and structure of 2-amino-4-nitro-1H-imidazol-3-ium chloride
aSchool of Chemistry and Chemical Engineering, North University of China, Taiyuan 030051, People's Republic of China, and bGansu Yin Guang Chemical Industry Group Co. Ltd., Baiyin 730900, People's Republic of China
*Correspondence e-mail: [email protected]
Single crystals of 2-amino-4-nitro-1H-imidazol-3-ium chloride, C3H5N4O2+·Cl−, were synthesized by slow evaporation and characterized by X-ray diffraction. The crystal structure features a planar imidazolium cation and a chloride anion, forming a three-dimensional supramolecular network via N—H⋯Cl and N—H⋯O hydrogen bonds. Hirshfeld surface analysis reveals that O⋯H/H⋯O contacts (28.7%) and Cl⋯H/H⋯Cl interactions (24.2%) dominate the intermolecular packing, with C⋯O/O⋯C contacts (5.1%) indicating significant C—H⋯O hydrogen-bonding contributions. Additional consolidation arises from van der Waals interactions (H⋯H, 13.4%), while π–π stacking remains negligible. The synergy of strong hydrogen bonds and weaker interactions underpins the robust supramolecular architecture, providing insights into crystal engineering strategies for nitroimidazole-based functional materials.
Keywords: crystal structure; 2-amino-4-nitroimidazole hydrochloride; hydrogen bonding; supramolecular architecture; Hirshfeld surface analysis.
CCDC reference: 2517048
1. Chemical context
2-Amino-4-nitroimidazole hydrochloride represents an important nitroimidazole derivative whose physicochemical properties are significantly influenced by hydrochloride salt formation. The incorporation of a chloride counter-ion establishes characteristic charge-assisted hydrogen-bonding networks (Brammer et al., 2001
), a structural motif widely recognized to enhance stability and modify solubility profiles in pharmaceutical salts (Childs et al., 2007
). The structural chemistry of such hydrochloride salts consistently reveals robust N—H⋯Cl hydrogen-bonding patterns that dictate molecular organization (Aakeroy et al., 2010
), generating extended supramolecular architectures through well-defined synthons (Desiraju, 1995
).
The presence of complementary nitro and amino substituents creates a complex electronic environment where the nitro group serves as a multifunctional hydrogen-bond acceptor in both strong N—H⋯O and weaker C—H⋯O interactions (Etter, 1990
). This versatile hydrogen-bonding capability aligns with established crystal engineering principles (Laus et al., 2006
), where protonation-induced modification of the electron distribution creates distinctive intermolecular interaction patterns (Bernstein et al., 1995
). These structural features directly influence thermal stability and decomposition pathways, particularly relevant for energetic materials applications (Bolton et al., 2012
). From a biological perspective, the enhanced aqueous solubility of hydrochloride salts frequently translates to improved bioavailability, making them preferred forms for pharmaceutical development (Phan et al., 2016
). This structural paradigm demonstrates how targeted manipulation of intermolecular interactions enables precise control over solid-state properties (Cruz-Cabeza et al., 2015
). The present work reports the synthesis and crystal structure of 2-amino-4-nitroimidazole hydrochloride.
2. Structural commentary
As shown in Fig. 1
, the asymmetric unit of the crystal structure consists of one 2-amino-4-nitroimidazolium cation and one chloride counter-anion. Structural analysis reveals that when the imidazole ring is modified with small substituents such as amino and nitro groups, it exhibits excellent overall planarity. The core imidazolium ring system (comprising atoms N2, C1, C2, N3, C3) shows near-perfect planarity with a root-mean-square (r.m.s.) deviation of merely 0.002 (1) Å from the least-squares plane. Furthermore, the amino group at the C3 position and the nitro group at the C1 position demonstrate high coplanarity with the heterocyclic ring, with dihedral angles of only 0.5 (2) and 2.8 (2)°, respectively. This exceptional flatness, achieved by the amino-nitro substitution pattern, provides an ideal foundation for electronic delocalization and robust intermolecular interactions, which is crucial for forming well-defined supramolecular architectures. This phenomenon is consistent with previous findings showing that other small substituents (e.g., methyl, halogens) generally preserve the ring's planarity (Li et al., 2008
; Palumbo et al., 2008
; Kannoujia et al., 2023
; Andra et al., 2010
). In stark contrast, bulky groups like adamantyl induce significant ring distortion due to steric hindrance (Cabildo, 1985
).
| Figure 1 The molecular structure of 2-amino-4-nitroimidazole hydrochloride with displacement ellipsoids drawn at the 50% probability level. The dashed line indicates the hydrogen bond forming an S(6) pseudo-ring. |
The C3—N4 bond length of 1.310 (2) Å provides compelling evidence for substantial electron delocalization across the N4—C3—N2 fragment. This value is significantly shorter than a typical C—N single bond (1.47 Å) and approaches the length of a formal C=N double bond, indicating pronounced double-bond character resulting from resonance interactions. This phenomenon, well-documented in 2-aminoimidazole derivatives (Tabatabaee et al., 2012
), involves delocalization of the amino nitrogen lone pair into the aromatic system, generating partial double-bond character between N4 and C3. The near-perfect coplanarity of the amino group, with N4 deviating only 0.008 (3) Å from the ring plane, provides complementary structural evidence for this π delocalization, as optimal orbital overlap for conjugation requires this spatial alignment. The chloride anion resides in close proximity to the cationic plane, positioned 0.124 (3) Å from the mean plane of the imidazolium ring, facilitating strong electrostatic and hydrogen-bonding interactions in the crystal packing.
3. Supramolecular features
The of 2-amino-4-nitroimidazole hydrochloride features a sophisticated three-dimensional supramolecular architecture constructed through an elaborate hydrogen-bonding network, as shown in Table 1
and Fig. 2
. The chloride anion (Cl1) serves as a crucial structural bridge, participating in multiple N—H⋯Cl hydrogen bonds that connect the cations into an extensive three-dimensional framework. Within this network, Cl1 and adjacent cations form a characteristic R21(6) hydrogen-bonding motif through N—H⋯Cl interactions, which serves as a key building block supporting the entire architectural framework. This network represents a classic example of charge-assisted hydrogen bonding, where the complementary electrostatic properties of the imidazolium cation and chloride anion enhance both the strength and directionality of the intermolecular interactions. More precisely, Cl1 functions as a multipoint acceptor, engaging in four distinct N—H⋯Cl hydrogen bonds with precise geometric parameters. Two interactions originate from the reference molecule: N2—H2⋯Cl1 (H2⋯Cl1 = 2.33 Å) and N4—H4a⋯Cl1 (H4a⋯Cl1 = 2.54 Å). Two additional connections are established with symmetry-related molecules: N3—H3⋯Cl1i (H3⋯Cl1i = 2.40 Å) and N4—H4b⋯Cl1i (H4b⋯Cl1i = 2.50 Å) [symmetry code: (i) x, −y + , z +
]. The geometric consistency of these interactions, with D—H⋯A angles consistently exceeding 140°, confirms their strength and directional preference. An auxiliary N3—H3⋯O2ii hydrogen bond [H3⋯O2ii = 2.514 (2) Å; symmetry code: (ii) x, −y +
, z +
] provides additional consolidation within the overall architecture. Although this interaction is weaker, as indicated by the suboptimal angle, it serves as an important structural element that cross-links the primary hydrogen-bonded framework, adding dimensionality and robustness to the supramolecular assembly.
|
| | Figure 2 Hydrogen-bonding network of 2-amino-4-nitroimidazole hydrochloride [symmetry codes: (i) x, −y + |
The hydrogen-bonding network propagates in three dimensions with distinct directional preferences. Well-defined chains extend along the b-axis direction through the N—H⋯Cl hydrogen bonds, creating linear motifs that serve as the primary structural elements. These chains are subsequently interconnected in the ac plane through a combination of N—H⋯Cl and N—H⋯O interactions, establishing layered substructures within the crystal. This hierarchical organization – from one-dimensional chains to two-dimensional layers and finally to a three-dimensional network – demonstrates the sophisticated level of structural control achievable through charge-assisted hydrogen bonding.
Beyond these specific directional interactions, the three-dimensional framework is further consolidated by operating between adjacent molecular layers (Fig. 3
). These ubiquitous though weaker interactions play a crucial role in filling the voids within the crystal structure and providing additional cohesive energy between the hydrogen-bonded layers. The van der Waals contacts ensure efficient space filling and contribute to the overall lattice energy, while the directional hydrogen bonds define the specific molecular arrangement.
| Figure 3 View of the crystal packing in the structure of 2-amino-4-nitroimidazole hydrochloride viewed along the c axis. |
The interplay between the strong, directional charge-assisted hydrogen bonds and the omnipresent, non-directional van der Waals contacts creates a robust and highly stable supramolecular framework. This structural pattern is consistent with observations in other imidazolium chloride salts (Liao et al., 2011
), highlighting the general importance of charge-assisted hydrogen bonding in ionic crystal engineering.
4. Hirshfeld surface analysis
Hirshfeld surface analysis was employed to quantitatively investigate the intermolecular interactions in 2-amino-4-nitroimidazole hydrochloride. The three-dimensional Hirshfeld surface mapped over normalized contact distance provides clear visualization of the intermolecular contacts, as shown in Fig. 4
. The surface exhibits distinct red spots in regions corresponding to close contacts, particularly near the chloride anion (Cl1), nitro group oxygen atoms (O1, O2), and hydrogen atoms of both the protonated imidazolium N3—H and amino N4—H groups. These characteristic red regions unequivocally identify the key participants in the hydrogen-bonding network.
| Figure 4 View of the three-dimensional Hirshfeld surface of 2-amino-4-nitroimidazole hydrochloride. |
The quantitative decomposition of the Hirshfeld surface reveals several significant interaction types (Fig. 5
). O⋯H/H⋯O contacts represent the most substantial contribution at 28.7%, primarily attributed to N—H⋯O and C—H⋯O hydrogen bonds involving the nitro group oxygen atoms as acceptors. Particularly noteworthy is the considerable contribution from C⋯O/O⋯C contacts (5.1%), which provides clear evidence for the presence of C—H⋯O hydrogen bonds in the crystal structure. This type of weak hydrogen bonding, though less energetically favorable than conventional N—H⋯O bonds, plays a structurally significant role in the overall crystal packing.
| Figure 5 The two-dimensional fingerprint plots for 2-amino-4-nitroimidazole hydrochloride, showing all interactions and different contact types. The di and de values represent the closest internal and external distances (in Å) from given points. |
Cl⋯H/H⋯Cl interactions constitute the second largest contribution at 24.2%, reflecting the formation of strong N—H⋯Cl hydrogen bonds between the chloride anion and both the imidazolium and amino N—H donors. This pattern is characteristic of hydrochloride salts and has been consistently observed in related nitrogen-rich (Belfilali et al., 2015
). The coexistence of these directional N—H⋯Cl hydrogen bonds creates a robust ionic framework that significantly influences the molecular arrangement.
Additional contributions include H⋯H contacts (13.4%), indicative of van der Waals interactions that contribute to efficient molecular close-packing, and N⋯H/H⋯N interactions (8.5%), representing N—H⋯N hydrogen bonds within the structure. The minimal contributions from C⋯C (0.2%) and C⋯N/N⋯C (0.3%) contacts suggest that conventional π–π stacking interactions play a negligible role in the crystal packing, which is typical for polar ionic compounds where strong, directional hydrogen bonds dominate the supramolecular architecture. The two-dimensional fingerprint plots provide further insight into the nature of these interactions. The plot for O⋯H/H⋯O contacts displays characteristic symmetric spikes, consistent with well-defined hydrogen-bonding geometry. Similarly, the Cl⋯H/H⋯Cl fingerprint shows sharp, distinctive spikes, reflecting the strong ionic hydrogen-bonding environment around the chloride anion.
In conclusion, the crystal packing of 2-amino-4-nitroimidazole hydrochloride is predominantly consolidated by a sophisticated hierarchy of intermolecular interactions. Strong N—H⋯Cl and N—H⋯O hydrogen bonds form the primary structural framework, while weaker C—H⋯O hydrogen bonds and van der Waals interactions provide additional consolidation, collectively generating a cohesive three-dimensional supramolecular architecture. This complementary interplay of strong and weak forces follows established patterns observed in pharmaceutical salts and energetic materials, where such combinations frequently enhance structural stability and influence material properties (Richter et al., 2020
).
5. Synthesis and crystallization
A suspension of 2,4-dinitroimidazole (0.32 g, 2.0 mmol) in glacial acetic acid (25 mL) was treated with iron powder (0.37 g, 6.6 mmol) at room temperature. The reaction mixture was stirred for 30 minutes, then filtered through a sintered glass funnel. The filtrate was carefully poured into ice-cold water, and the pH was adjusted to 4–6 using dilute sodium hydroxide solution. The aqueous mixture was extracted with ethyl acetate, and the combined organic layers were dried over anhydrous sodium sulfate. After filtration, the solvent was removed under reduced pressure to yield the crude product as a brown solid.
Initial attempts to grow single crystals of the free base (2-amino-4-nitroimidazole) from various solvent systems were unsuccessful. However, acidification with 10% hydrochloric acid followed by slow evaporation yielded high-quality single crystals of the hydrochloride salt suitable for X-ray The target compound, 2-amino-4-nitroimidazole hydrochloride, was ultimately obtained in pure form through recrystallization from 10% HCl solution.
6. Refinement details
Crystal data, data collection and structure details are summarized in Table 2
. Hydrogen atoms were placed in calculated positions and refined using a riding model: C—H = 0.95 Å, N—H = 0.88 Å with Uiso(H) = 1.2Ueq of the parent atom.
|
Supporting information
CCDC reference: 2517048
contains datablocks global, I. DOI: https://doi.org/10.1107/S2056989025011399/ee2023sup1.cif
Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2056989025011399/ee2023Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S2056989025011399/ee2023Isup3.cml
| C3H5N4O2+·Cl− | F(000) = 336.836 |
| Mr = 164.55 | Dx = 1.641 Mg m−3 |
| Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
| a = 8.2117 (9) Å | Cell parameters from 2844 reflections |
| b = 6.3777 (6) Å | θ = 2.5–27.6° |
| c = 12.7216 (12) Å | µ = 0.52 mm−1 |
| β = 91.626 (3)° | T = 293 K |
| V = 665.98 (11) Å3 | Block, colourless |
| Z = 4 | 0.13 × 0.12 × 0.09 mm |
| Bruker PHOTON II diffractometer | 1523 independent reflections |
| Radiation source: Bruker D8 VENTURE TXS PHOTON II | 1312 reflections with I ≥ 2u(I) |
| Detector resolution: 7.41 pixels mm-1 | Rint = 0.035 |
| ω and φ shutterless scans | θmax = 27.6°, θmin = 2.5° |
| Absorption correction: multi-scan (SADABS; Krause et al., 2015) | h = −10→10 |
| Tmin = 0.551, Tmax = 0.746 | k = −8→8 |
| 5324 measured reflections | l = −15→16 |
| Refinement on F2 | 0 restraints |
| Least-squares matrix: full | All H-atom parameters refined |
| R[F2 > 2σ(F2)] = 0.037 | w = 1/[s2(Fo2) + (0.0388P)2 + 0.2321P] where P = (Fo2 + 2Fc2)/3 |
| wR(F2) = 0.096 | (Δ/σ)max = 0.0003 |
| S = 1.06 | Δρmax = 0.25 e Å−3 |
| 1523 reflections | Δρmin = −0.29 e Å−3 |
| 91 parameters |
Refinement. The final refinement converged to R_1=0.0370 for 1312 reflections with I>2σ(I) and ωR2=0.0955 for all 1523 independent reflections. The goodness-of-fit on F2 was 1.057. In the final difference Fourier map, the maximum and minimum residual electron density peaks were 0.249 and -0.290 eÅ-3, respectively. |
| x | y | z | Uiso*/Ueq | ||
| Cl1 | 0.89095 (6) | 0.35044 (7) | 0.12243 (3) | 0.05441 (18) | |
| N2 | 0.75517 (17) | 0.5736 (2) | 0.31487 (9) | 0.0386 (3) | |
| H2 | 0.77073 (17) | 0.5608 (2) | 0.24860 (9) | 0.0463 (4)* | |
| O2 | 0.6497 (2) | 0.9190 (2) | 0.21110 (10) | 0.0613 (4) | |
| N3 | 0.7533 (2) | 0.5142 (2) | 0.48269 (10) | 0.0471 (4) | |
| H3 | 0.7686 (2) | 0.4540 (2) | 0.54264 (10) | 0.0565 (4)* | |
| O1 | 0.5401 (2) | 1.0442 (2) | 0.35036 (13) | 0.0713 (5) | |
| N1 | 0.61748 (19) | 0.9106 (2) | 0.30400 (12) | 0.0466 (4) | |
| N4 | 0.8887 (2) | 0.2681 (2) | 0.37526 (12) | 0.0580 (4) | |
| H4a | 0.9168 (2) | 0.2338 (2) | 0.31297 (12) | 0.0696 (5)* | |
| H4b | 0.9158 (2) | 0.1898 (2) | 0.42795 (12) | 0.0696 (5)* | |
| C1 | 0.6751 (2) | 0.7355 (3) | 0.36250 (12) | 0.0387 (3) | |
| C3 | 0.8045 (2) | 0.4396 (3) | 0.38987 (12) | 0.0405 (4) | |
| C2 | 0.6737 (2) | 0.7002 (3) | 0.46675 (13) | 0.0466 (4) | |
| H2a | 0.6280 (2) | 0.7850 (3) | 0.51754 (13) | 0.0559 (5)* |
| U11 | U22 | U33 | U12 | U13 | U23 | |
| Cl1 | 0.0764 (4) | 0.0530 (3) | 0.0343 (2) | −0.0076 (2) | 0.0095 (2) | −0.01106 (17) |
| N2 | 0.0507 (8) | 0.0421 (7) | 0.0230 (6) | 0.0027 (6) | −0.0004 (5) | −0.0010 (5) |
| O2 | 0.0884 (11) | 0.0546 (8) | 0.0406 (7) | −0.0041 (7) | −0.0022 (7) | 0.0113 (6) |
| N3 | 0.0636 (9) | 0.0533 (8) | 0.0243 (6) | 0.0047 (7) | 0.0003 (6) | 0.0031 (6) |
| O1 | 0.0810 (11) | 0.0628 (9) | 0.0699 (10) | 0.0293 (8) | −0.0026 (8) | −0.0072 (7) |
| N1 | 0.0536 (9) | 0.0427 (8) | 0.0430 (8) | 0.0008 (6) | −0.0070 (6) | 0.0004 (6) |
| N4 | 0.0813 (12) | 0.0525 (9) | 0.0401 (8) | 0.0200 (8) | −0.0002 (8) | 0.0024 (7) |
| C1 | 0.0444 (8) | 0.0418 (8) | 0.0299 (7) | 0.0005 (7) | 0.0003 (6) | −0.0017 (6) |
| C3 | 0.0489 (9) | 0.0434 (8) | 0.0291 (7) | 0.0011 (7) | −0.0013 (6) | −0.0004 (6) |
| C2 | 0.0555 (10) | 0.0535 (10) | 0.0308 (7) | 0.0059 (8) | 0.0038 (7) | −0.0051 (7) |
| N2—H2 | 0.8600 | O1—N1 | 1.224 (2) |
| N2—C1 | 1.374 (2) | N1—C1 | 1.416 (2) |
| N2—C3 | 1.335 (2) | N4—H4a | 0.8600 |
| O2—N1 | 1.220 (2) | N4—H4b | 0.8600 |
| N3—H3 | 0.8600 | N4—C3 | 1.310 (2) |
| N3—C3 | 1.351 (2) | C1—C2 | 1.345 (2) |
| N3—C2 | 1.366 (2) | C2—H2a | 0.9300 |
| C1—N2—H2 | 126.12 (8) | C3—N4—H4b | 120.0 |
| C3—N2—H2 | 126.12 (9) | N1—C1—N2 | 121.18 (14) |
| C3—N2—C1 | 107.76 (13) | C2—C1—N2 | 109.04 (14) |
| C3—N3—H3 | 125.21 (9) | C2—C1—N1 | 129.66 (15) |
| C2—N3—H3 | 125.21 (9) | N3—C3—N2 | 107.67 (14) |
| C2—N3—C3 | 109.59 (13) | N4—C3—N2 | 125.70 (15) |
| O1—N1—O2 | 124.47 (16) | N4—C3—N3 | 126.62 (15) |
| C1—N1—O2 | 117.75 (15) | C1—C2—N3 | 105.92 (14) |
| C1—N1—O1 | 117.77 (15) | H2a—C2—N3 | 127.04 (9) |
| H4b—N4—H4a | 120.0 | H2a—C2—C1 | 127.04 (10) |
| C3—N4—H4a | 120.0 | ||
| N2—C1—N1—O2 | −4.27 (19) | O1—N1—C1—C2 | −8.1 (2) |
| N2—C1—N1—O1 | 176.41 (17) | N1—C1—N2—C3 | 175.77 (16) |
| N2—C1—C2—N3 | −0.22 (15) | N4—C3—N2—C1 | −178.22 (19) |
| N2—C3—N3—C2 | −1.35 (17) | N4—C3—N3—C2 | 178.0 (2) |
| O2—N1—C1—C2 | 171.27 (16) | C1—C2—N3—C3 | 0.96 (18) |
| N3—C3—N2—C1 | 1.18 (16) | C3—N2—C1—C2 | −0.60 (15) |
| N3—C2—C1—N1 | −176.18 (12) |
| D—H···A | D—H | H···A | D···A | D—H···A |
| N2—H2···Cl1 | 0.86 | 2.33 | 3.0686 (13) | 144 |
| N3—H3···Cl1i | 0.86 | 2.40 | 3.1198 (15) | 142 |
| N3—H3···O2ii | 0.86 | 2.51 | 3.0804 (19) | 124 |
| N4—H4a···Cl1 | 0.86 | 2.54 | 3.2595 (16) | 142 |
| N4—H4b···Cl1i | 0.86 | 2.50 | 3.2336 (16) | 144 |
| Symmetry codes: (i) x, −y+1/2, z+1/2; (ii) x, −y+3/2, z+1/2. |
Funding information
Funding for this research was provided by: Research Project supported by Shanxi Scholarship Council of China (grant No. 2022-184).
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