Three novel piperazinium salts are described. Their crystal structure is based on layers formed by hydrogen bonding, halogen bonding and other weak interactions. One exhibits an asymmetric unit containing a 1-ethylpiperazinium cation and a 3,5-dinitrobenzoate anion while the other two salts have asymmetric units containing 1-methylpiperazinium as a common cation and a 3,5-dinitrobenzoate anion or a 4-iodobenzoate anion.
Keywords: crystal structure, piperazinium salts, benzoate anion, biological activity
Abstract
As part of our ongoing investigation on the chemical and biological properties of piperazinium salts, we synthesized three novel compounds: 1-ethylpiperazinium 3,5-dinitrobenzoate (I), 1-methylpiperazinium 3,5-dinitrobenzoate (II) and 1-methylpiperazinium 4-iodobenzoate (III). The crystal structures of these compounds are built up of organic layers formed by the strong connection between the molecules by hydrogen bonds of type N—H⋯O. These layers are linked through N—H⋯O hydrogen bonds and C—H⋯O interactions or C—I⋯N halogen bonding, leading to the formation of a three-dimensional network.
Chemical context
Piperazines and substituted piperazines are important pharmacophores that can be found in many biologically active compounds across a number of different therapeutic areas (Berkheij, 2005 ▸) such as antifungal (Upadhayaya et al., 2004 ▸), anti-bacterial, anti-malarial and anti-psychotic agents (Choudhary et al., 2006 ▸). A valuable insight into recent advances on antimicrobial activity of piperazine derivatives has been reported (Kharb et al., 2012 ▸).
Piperazines are among the most important building blocks in today’s drug discovery efforts and are found in biologically active compounds across a number of different therapeutic areas (Brockunier et al., 2004 ▸; Bogatcheva et al., 2006 ▸). A review of the current pharmacological and toxicological information for piperazine derivatives is given by Elliott (2011 ▸).
1-Ethylpiperazine is used in the synthesis of 2-{2-methoxy-5-[(4-methylpiperazin-1-yl)sulfonyl]phenyl}-1H-benzo[d]imidazole hydrochloride and 2-{5-[(4-ethylpiperazin-1-yl)sulfonyl]-2-methoxyphenyl}-1H-benzo[d]imidazole hydrochloride as benzimidazole analogs of sildenafil, which is marketed for the treatment of erectile dysfunction (Qandil, 2012 ▸). It is also employed as an intermediate in veterinary medicine and serves as a precursor in the preparation of dyes. N-Ethyl piperazine is used in the synthesis of enrofloxacin, which is an antibiotic used to treat bacterial infections. It is also used in the synthesis of dyes, agrochemicals and other pharmaceutical compounds. The crystal structures of compounds derived from 1-ethylpiperazine, viz., chlorobis(2-chlorobenzyl)(4-ethylpiperazine-1-dithiocarbamato-κ2 S,S′)tin(IV) (Li & Li, 2007 ▸), 1-diphenylmethyl-4-ethylpiperazine-1,4-diium dichloride (Qiao et al., 2010 ▸), (S)-3-chloro-4-(4-ethylpiperazin-1-yl)-5-[(1R,2S,5R)-2-isopropyl-5-methylcyclohexyloxy]furan-2(5H)-one (Fu et al., 2010 ▸), 4-{[5-(4-chlorophenyl)-1-(4-fluorophenyl)-1H-pyrazol-3-yl]carbonyl}-N-ethylpiperazine-1-carboxamide (Shahani et al., 2011 ▸), 2-[4-(2-methoxyphenyl)piperazin-1-yl]-N-(pyridin-2-yl)acetamide (Lu & Jiang, 2011 ▸), N-(4-chlorophenyl)-4-ethylpiperazine-1-carboxamide (Li, 2011 ▸) and trichlorido(1-ethylpiperazin-1-ium)cobalt(II) (Dhieb et al., 2014 ▸) have been reported.
1-Methylpiperazine is used in the preparation of 2-(4-methyl-1-piperazinylmethyl)acrylophenone as an antimicrotubular drug (Mallevais et al., 1984 ▸). It is involved in the preparation of 1-(4-methoxyphenyl)-4-methylpiperazine by reaction with 1-chloro-4-methoxy-benzene. It acts as an intermediate in the synthesis of active pharmaceutical ingredients such as ofloxacin, rifampicin, clozapine, sildenafil, trifluoperazine and zopiclone. The crystal structures of 1-methylpiperazine-1,4-diium 4-nitrophthalate(2−) 4-nitrophthalic acid monohydrate (Guo, 2004 ▸), (−)-2-methylpiperazin-1-ium perchlorate (Peng, 2010 ▸), 1-methylpiperazine-1,4-diium dipicrate (Dutkiewicz et al., 2011 ▸), 1-methylpiperazine-1,4-dium bis(hydrogen oxalate) (Essid et al., 2014 ▸), 2-methylpiperazine-1,4-diium bis(hydrogen maleate) (Wecharine et al., 2015 ▸) and 2-methylpiperazine-1,4-diium bis(hydrogen maleate) (Wecharine & Arto, 2015 ▸), have been reported.
We have recently reported the crystal structures of some salts of 4-methoxyphenylpiperazine (Kiran Kumar et al., 2019 ▸) and also 2-methoxyphenylpiperazine (Harish Chinthal et al., 2020 ▸). In view of the importance of piperazines in general and the use of 1-ethyl/methylpiperazine in particular, the present paper reports the crystal structure of salts 1-ethylpiperazinium 3,5-dinitrobenzoate (I), 1-methylpiperazinium 3,5-dinitrobenzoate (II) and 1-methylpiperazinium 4-iodobenzoate (III).
Structural commentary
The molecular structures of the title salts (I), (II) and (III) are illustrated in Figs. 1 ▸, 2 ▸ and 3 ▸, respectively. The asymmetric unit of compound (I) is composed of one 1-ethylpiperazinium cation and one 3,5-dinitrobenzoate anion while (II) consists of a 1-methylpiperazinium cation and a 3,5-dinitrobenzoate anion. Compound (III) crystallizes with one 1-methylpiperazinium cation and one 4-iodobenzoate anion in the asymmetric unit. In all compounds, the piperazine rings have a chair conformation with a positively charged protonated N atom with a maximum deviation from their mean plane of 0.239 (2), 0.258 (2) and 0.238 (2) Å at atom N1, for the three title compounds, respectively. The benzene rings are almost planar, with maximum deviations of 0.010 (2), 0.006 (2) and 0.006 (3) Å at atoms C8, C10 and C8 for (I), (II) and (III) respectively. The substituents of the benzene rings in all compounds are approximately in the same plane and do not deviate significantly from planarity.
Figure 1.
The molecular structure of compound (I), showing the atom labelling. Displacement ellipsoids are drawn at the 50% probability level.
Figure 2.
The molecular structure of compound (II), showing the atom labelling. Displacement ellipsoids are drawn at the 50% probability level.
Figure 3.
The molecular structure of compound (III), showing the atom labelling. Displacement ellipsoids are drawn at the 50% probability level.
Supramolecular features
In the crystal of (I), the cation and anion are linked by N2—H21⋯O1 hydrogen bonds, forming layers extending along the c-axis direction. The layers are connected via N2—H22⋯O2 hydrogen bonds, forming sheets lying parallel to the ac plane (Table 1 ▸ and Fig. 4 ▸). The crystal structure of compound (II) is built up of N2—H21⋯O2 and N2—H22⋯O1 hydrogen bonds that connect the molecules in strong layers along the c-axis direction. The layers are linked via weak interactions of the type C—H⋯O, giving a three-dimensional network along the b axis (Table 2 ▸ and Fig. 5 ▸). The molecules in the crystal of (III) are linked by N2—H21⋯O2, N2—H22⋯O1, C—H⋯O and C—H⋯π interactions, forming layers along the b axis. The layers are linked through C—I⋯N halogen bonding with C9—I1 and I1⋯N1(1 − x, 1 − y, −z) bond distnces of 2.103 (2) and 3.073 (2) Å, respectively, and bond angle of 174.33 (8)°, leading to a three-dimensional structure (Table 3 ▸ and Fig. 6 ▸).
Table 1. Hydrogen-bond geometry (Å, °) for (I) .
D—H⋯A | D—H | H⋯A | D⋯A | D—H⋯A |
---|---|---|---|---|
N2—H21⋯O1 | 0.91 (2) | 1.88 (2) | 2.768 (2) | 168 (3) |
N2—H22⋯O2i | 0.92 (2) | 1.77 (2) | 2.684 (2) | 171 (3) |
Symmetry code: (i) -x, -y, -z.
Figure 4.
Molecular packing of (I) with hydrogen bonding shown as dashed lines.
Table 2. Hydrogen-bond geometry (Å, °) for (II) .
D—H⋯A | D—H | H⋯A | D⋯A | D—H⋯A |
---|---|---|---|---|
N2—H21⋯O2i | 0.91 (2) | 1.82 (2) | 2.728 (2) | 175 (2) |
N2—H22⋯O1ii | 0.91 (2) | 1.78 (2) | 2.691 (2) | 172 (2) |
Symmetry codes: (i) x, y+1, z; (ii) -x+1, -y, -z+1.
Figure 5.
Molecular packing of (II) with hydrogen bonding shown as dashed lines..
Table 3. Hydrogen-bond geometry (Å, °) for (III) .
Cg2 is the centroid of the C6–C11 ring.
D—H⋯A | D—H | H⋯A | D⋯A | D—H⋯A |
---|---|---|---|---|
C3—H3A⋯O2i | 0.97 | 2.56 | 3.272 (3) | 130 |
C5—H5A⋯O1ii | 0.97 | 2.56 | 3.469 (3) | 156 |
N2—H21⋯O2ii | 0.87 (2) | 1.83 (2) | 2.696 (3) | 172 (3) |
N2—H22⋯O1iii | 0.88 (2) | 1.83 (2) | 2.700 (3) | 172 (3) |
C4—H4B⋯Cg2iv | 0.97 | 2.59 | 3.473 (3) | 152 |
Symmetry codes: (i) x, y+1, z; (ii) -x+2, -y+1, -z+1; (iii) -x+1, -y+1, -z+1; (iv) -x, -y, -z.
Figure 6.
Molecular packing of (III) with hydrogen bonding shown as dashed lines..
Database survey
A search of the Cambridge Structural Database (Version 2020.3.0, last update March 2021; Groom et al., 2016 ▸) for the piperazinium cation and benzoate anion involved in the three salts gave 62 hits, 60 of which have branched aromatic substituents either on the piperazinium cation, the benzoate anion or both, that make their structures extremely different from those of the title salts. The other two compounds are quite similar to the title molecules: 4-methylpiperazin-1-ium 2-amino-5-iodobenzoate (MAVMEC: Zhu & Guo, 2005 ▸) and 1-methylpiperazine-1,4-diium 4-nitrophthalate(2-) 4-nitrophthalic acid monohydrate (IZEFY: Guo, 2004 ▸), which share the cationic part and its chair conformation with salts (II) and (III). The crystal structures of the two compounds are based on differently sized rings formed through hydrogen-bond contacts, which then aggregate into a 3D framework.
Synthesis and crystallization
For the synthesis of (I), a solution of commercially available 1-ethylpiperazine (100 mg, 0.88 mol) (from Sigma-Aldrich) in methanol (10 ml) was mixed with an equimolar solution of 3,5-dinitrobenzoic acid (186.6 mg, 0.88 mol). Compounds (II) and (III) were prepared by the same method in which 1-methylpiperazine (100 mg, 1.0 mol) in methanol (10 ml) was mixed with an equimolar solution of 3,5-dinitrobenzoic acid (212 mg, 1.0 mol) for (II) or with an equimolar solution of 4-iodobenzoic acid (248 mg, 1.0 mol) for (III). The corresponding mixtures were stirred for 30 min at 323 K and allowed to stand at room temperature. X-ray quality crystals were formed upon slow evaporation in a week time (m.p. 453–455 K, 459–461 K and 410–412 K, respectively).
Refinement
Crystal data, data collection and structure refinement details are summarized in Table 4 ▸. The H atoms bound to C were positioned with idealized geometry and refined using a riding model with aromatic C—H = 0.93 Å, 0.96 Å (methyl) or 0.97 Å (methylene). The H atoms of the N atom were located in a difference map and later restrained to the distance N—H = 0.86 (2) Å. All H atoms were refined with isotropic displacement parameters set at 1.2U eq (C-aromatic, C-methylene, N) or 1.5U eq (C-methyl) of the parent atom.
Table 4. Experimental details.
(I) | (II) | (III) | |
---|---|---|---|
Crystal data | |||
Chemical formula | C6H15N2 +·C7H3N2O6 − | C5H13N2 +·C7H3N2O6 − | C5H13N2 +·C7H4IO2 − |
M r | 326.31 | 312.29 | 348.17 |
Crystal system, space group | Monoclinic, C2/c | Triclinic, P\overline{1} | Triclinic, P\overline{1} |
Temperature (K) | 293 | 293 | 293 |
a, b, c (Å) | 19.362 (1), 8.6279 (7), 19.318 (1) | 7.8023 (6), 10.3920 (8), 10.4770 (8) | 6.2418 (4), 9.5465 (8), 12.5346 (9) |
α, β, γ (°) | 90, 97.261 (8), 90 | 73.578 (8), 74.289 (8), 71.828 (7) | 110.708 (8), 90.235 (5), 101.559 (6) |
V (Å3) | 3201.3 (4) | 758.49 (11) | 682.19 (9) |
Z | 8 | 2 | 2 |
Radiation type | Mo Kα | Mo Kα | Mo Kα |
μ (mm−1) | 0.11 | 0.11 | 2.34 |
Crystal size (mm) | 0.46 × 0.28 × 0.24 | 0.48 × 0.48 × 0.44 | 0.48 × 0.24 × 0.2 |
Data collection | |||
Diffractometer | Oxford Diffraction Xcalibur | Oxford Diffraction Xcalibur | Oxford Diffraction Xcalibur |
Absorption correction | Multi-scan (CrysAlis RED; Oxford Diffraction, 2009 ▸) | Multi-scan (CrysAlis RED; Oxford Diffraction, 2009 ▸) | Multi-scan (CrysAlis RED; Oxford Diffraction, 2009 ▸) |
T min, T max | 0.964, 0.974 | 0.948, 0.952 | 0.515, 0.626 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 6345, 2943, 1968 | 4819, 2774, 1935 | 4189, 2492, 2324 |
R int | 0.016 | 0.010 | 0.011 |
(sin θ/λ)max (Å−1) | 0.602 | 0.602 | 0.602 |
Refinement | |||
R[F 2 > 2σ(F 2)], wR(F 2), S | 0.048, 0.123, 1.04 | 0.044, 0.129, 1.03 | 0.020, 0.051, 1.11 |
No. of reflections | 2943 | 2774 | 2492 |
No. of parameters | 214 | 206 | 160 |
No. of restraints | 2 | 2 | 2 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement | H atoms treated by a mixture of independent and constrained refinement | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.20, −0.17 | 0.28, −0.15 | 0.37, −0.95 |
Supplementary Material
Crystal structure: contains datablock(s) global, I, II, III. DOI: 10.1107/S2056989021010689/dj2037sup1.cif
Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989021010689/dj2037Isup2.hkl
Structure factors: contains datablock(s) II. DOI: 10.1107/S2056989021010689/dj2037IIsup3.hkl
Structure factors: contains datablock(s) III. DOI: 10.1107/S2056989021010689/dj2037IIIsup4.hkl
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037Isup5.cml
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037IIsup6.cml
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037IIIsup7.cml
Additional supporting information: crystallographic information; 3D view; checkCIF report
Acknowledgments
SDA is grateful to the University of Mysore for research facilities. HSY thanks the UGC for a BSR Faculty fellowship for three years. SGG gratefully acknowledges financial support from the Spanish Ministerio de Ciencia e Innovación (PID2020–113558RB-C41) and Gobierno del Principado de Asturias (GRUPIN-ID2018–170).
supplementary crystallographic information
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Crystal data
C6H15N2+·C7H3N2O6− | F(000) = 1376 |
Mr = 326.31 | Dx = 1.354 Mg m−3 |
Monoclinic, C2/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -C 2yc | Cell parameters from 6345 reflections |
a = 19.362 (1) Å | θ = 2.6–25.4° |
b = 8.6279 (7) Å | µ = 0.11 mm−1 |
c = 19.318 (1) Å | T = 293 K |
β = 97.261 (8)° | Prism, orange |
V = 3201.3 (4) Å3 | 0.46 × 0.28 × 0.24 mm |
Z = 8 |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Data collection
Oxford Diffraction Xcalibur diffractometer | 1968 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.016 |
ω scans | θmax = 25.4°, θmin = 2.6° |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | h = −23→23 |
Tmin = 0.964, Tmax = 0.974 | k = −10→10 |
6345 measured reflections | l = −9→23 |
2943 independent reflections |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Refinement
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.048 | Hydrogen site location: mixed |
wR(F2) = 0.123 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.04 | w = 1/[σ2(Fo2) + (0.0507P)2 + 1.8986P] where P = (Fo2 + 2Fc2)/3 |
2943 reflections | (Δ/σ)max < 0.001 |
214 parameters | Δρmax = 0.20 e Å−3 |
2 restraints | Δρmin = −0.17 e Å−3 |
0 constraints |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Special details
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. |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2)
x | y | z | Uiso*/Ueq | ||
C1 | 0.18587 (15) | 0.3364 (3) | 0.30396 (15) | 0.0884 (9) | |
H1A | 0.232834 | 0.339426 | 0.326863 | 0.133* | |
H1B | 0.177587 | 0.424858 | 0.273903 | 0.133* | |
H1C | 0.154108 | 0.338102 | 0.338302 | 0.133* | |
C2 | 0.17517 (12) | 0.1925 (3) | 0.26195 (13) | 0.0655 (7) | |
H2A | 0.208261 | 0.190584 | 0.228215 | 0.079* | |
H2B | 0.184798 | 0.103891 | 0.292568 | 0.079* | |
C3 | 0.08924 (11) | 0.2969 (3) | 0.17179 (12) | 0.0533 (6) | |
H3A | 0.12338 | 0.291797 | 0.13919 | 0.064* | |
H3B | 0.092984 | 0.397926 | 0.194012 | 0.064* | |
C4 | 0.01736 (11) | 0.2779 (3) | 0.13276 (13) | 0.0589 (6) | |
H4A | −0.017049 | 0.290226 | 0.164733 | 0.071* | |
H4B | 0.009231 | 0.357361 | 0.097152 | 0.071* | |
C5 | 0.02593 (11) | 0.0011 (3) | 0.15297 (12) | 0.0563 (6) | |
H5A | 0.023563 | −0.099603 | 0.130507 | 0.068* | |
H5B | −0.008248 | 0.003405 | 0.185592 | 0.068* | |
C6 | 0.09733 (11) | 0.0253 (3) | 0.19161 (12) | 0.0538 (6) | |
H6A | 0.106657 | −0.054243 | 0.227061 | 0.065* | |
H6B | 0.131632 | 0.015195 | 0.159377 | 0.065* | |
C7 | 0.22610 (9) | 0.0114 (2) | 0.00395 (10) | 0.0389 (5) | |
C8 | 0.25500 (10) | 0.1070 (2) | 0.05725 (10) | 0.0431 (5) | |
H8 | 0.226597 | 0.164062 | 0.08315 | 0.052* | |
C9 | 0.32638 (10) | 0.1168 (2) | 0.07159 (10) | 0.0449 (5) | |
C10 | 0.37088 (10) | 0.0395 (2) | 0.03386 (11) | 0.0468 (5) | |
H10 | 0.418946 | 0.049122 | 0.043855 | 0.056* | |
C11 | 0.34091 (9) | −0.0527 (2) | −0.01928 (11) | 0.0442 (5) | |
C12 | 0.26950 (9) | −0.0699 (2) | −0.03464 (10) | 0.0428 (5) | |
H12 | 0.250959 | −0.135397 | −0.070496 | 0.051* | |
C13 | 0.14743 (10) | −0.0038 (3) | −0.01245 (10) | 0.0440 (5) | |
N1 | 0.10398 (8) | 0.1771 (2) | 0.22445 (8) | 0.0478 (5) | |
N2 | 0.00983 (8) | 0.1234 (2) | 0.09987 (9) | 0.0502 (5) | |
N3 | 0.35665 (12) | 0.2143 (3) | 0.13029 (11) | 0.0657 (6) | |
N4 | 0.38632 (9) | −0.1369 (2) | −0.06158 (12) | 0.0612 (5) | |
O1 | 0.11149 (7) | 0.0962 (2) | 0.01190 (8) | 0.0621 (5) | |
O2 | 0.12597 (7) | −0.1160 (2) | −0.05004 (9) | 0.0653 (5) | |
O3 | 0.31860 (12) | 0.3056 (3) | 0.15461 (11) | 0.0980 (7) | |
O4 | 0.41795 (10) | 0.1972 (3) | 0.15171 (10) | 0.0987 (7) | |
O5 | 0.44928 (7) | −0.1316 (2) | −0.04397 (10) | 0.0829 (6) | |
O6 | 0.35960 (9) | −0.2085 (3) | −0.11194 (11) | 0.0962 (7) | |
H21 | 0.0381 (14) | 0.116 (4) | 0.0660 (13) | 0.115* | |
H22 | −0.0355 (10) | 0.114 (4) | 0.0790 (14) | 0.115* |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Atomic displacement parameters (Å2)
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.084 (2) | 0.088 (2) | 0.085 (2) | −0.0122 (16) | −0.0206 (15) | −0.0224 (17) |
C2 | 0.0594 (14) | 0.0728 (18) | 0.0585 (14) | −0.0020 (12) | −0.0150 (11) | 0.0000 (13) |
C3 | 0.0511 (12) | 0.0460 (13) | 0.0597 (13) | −0.0019 (10) | −0.0053 (10) | −0.0028 (11) |
C4 | 0.0477 (12) | 0.0602 (15) | 0.0652 (14) | 0.0061 (11) | −0.0069 (11) | −0.0037 (13) |
C5 | 0.0538 (13) | 0.0543 (14) | 0.0608 (14) | −0.0136 (11) | 0.0072 (11) | −0.0063 (12) |
C6 | 0.0546 (13) | 0.0483 (14) | 0.0563 (13) | −0.0017 (10) | −0.0015 (10) | 0.0037 (12) |
C7 | 0.0330 (9) | 0.0390 (11) | 0.0437 (11) | −0.0016 (8) | 0.0007 (8) | 0.0063 (10) |
C8 | 0.0431 (11) | 0.0413 (12) | 0.0448 (11) | −0.0019 (9) | 0.0053 (9) | 0.0024 (10) |
C9 | 0.0460 (11) | 0.0423 (12) | 0.0439 (11) | −0.0114 (10) | −0.0043 (9) | 0.0027 (10) |
C10 | 0.0331 (10) | 0.0478 (12) | 0.0565 (13) | −0.0072 (9) | −0.0057 (9) | 0.0094 (11) |
C11 | 0.0332 (10) | 0.0446 (12) | 0.0547 (12) | 0.0004 (9) | 0.0049 (9) | 0.0032 (11) |
C12 | 0.0370 (10) | 0.0422 (12) | 0.0479 (11) | −0.0039 (9) | −0.0002 (9) | 0.0008 (10) |
C13 | 0.0329 (10) | 0.0542 (14) | 0.0443 (11) | −0.0017 (10) | 0.0026 (9) | 0.0081 (11) |
N1 | 0.0446 (9) | 0.0524 (11) | 0.0437 (10) | −0.0038 (8) | −0.0048 (8) | −0.0025 (9) |
N2 | 0.0331 (9) | 0.0683 (13) | 0.0477 (10) | −0.0049 (9) | −0.0013 (7) | −0.0090 (10) |
N3 | 0.0674 (14) | 0.0690 (15) | 0.0579 (12) | −0.0222 (12) | −0.0030 (11) | −0.0041 (12) |
N4 | 0.0428 (11) | 0.0591 (13) | 0.0833 (14) | 0.0009 (9) | 0.0135 (10) | −0.0068 (12) |
O1 | 0.0415 (8) | 0.0734 (11) | 0.0735 (11) | 0.0069 (8) | 0.0153 (7) | −0.0026 (9) |
O2 | 0.0340 (8) | 0.0748 (11) | 0.0837 (11) | −0.0064 (8) | −0.0057 (7) | −0.0170 (10) |
O3 | 0.1085 (17) | 0.0929 (16) | 0.0892 (15) | −0.0096 (13) | −0.0011 (12) | −0.0405 (13) |
O4 | 0.0675 (12) | 0.1305 (19) | 0.0900 (14) | −0.0337 (12) | −0.0219 (10) | −0.0182 (13) |
O5 | 0.0337 (9) | 0.0929 (14) | 0.1238 (16) | 0.0008 (9) | 0.0167 (9) | −0.0136 (12) |
O6 | 0.0624 (11) | 0.1236 (18) | 0.1026 (14) | 0.0096 (11) | 0.0109 (10) | −0.0556 (14) |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Geometric parameters (Å, º)
C1—C2 | 1.484 (3) | C7—C8 | 1.381 (3) |
C1—H1A | 0.96 | C7—C12 | 1.383 (3) |
C1—H1B | 0.96 | C7—C13 | 1.522 (2) |
C1—H1C | 0.96 | C8—C9 | 1.377 (3) |
C2—N1 | 1.480 (3) | C8—H8 | 0.93 |
C2—H2A | 0.97 | C9—C10 | 1.370 (3) |
C2—H2B | 0.97 | C9—N3 | 1.473 (3) |
C3—N1 | 1.453 (3) | C10—C11 | 1.368 (3) |
C3—C4 | 1.506 (3) | C10—H10 | 0.93 |
C3—H3A | 0.97 | C11—C12 | 1.385 (2) |
C3—H3B | 0.97 | C11—N4 | 1.467 (3) |
C4—N2 | 1.476 (3) | C12—H12 | 0.93 |
C4—H4A | 0.97 | C13—O1 | 1.238 (2) |
C4—H4B | 0.97 | C13—O2 | 1.250 (2) |
C5—N2 | 1.477 (3) | N2—H21 | 0.907 (17) |
C5—C6 | 1.500 (3) | N2—H22 | 0.922 (17) |
C5—H5A | 0.97 | N3—O3 | 1.213 (3) |
C5—H5B | 0.97 | N3—O4 | 1.216 (2) |
C6—N1 | 1.454 (3) | N4—O6 | 1.212 (2) |
C6—H6A | 0.97 | N4—O5 | 1.224 (2) |
C6—H6B | 0.97 | ||
C2—C1—H1A | 109.5 | C8—C7—C12 | 119.22 (17) |
C2—C1—H1B | 109.5 | C8—C7—C13 | 120.47 (18) |
H1A—C1—H1B | 109.5 | C12—C7—C13 | 120.31 (18) |
C2—C1—H1C | 109.5 | C9—C8—C7 | 119.24 (19) |
H1A—C1—H1C | 109.5 | C9—C8—H8 | 120.4 |
H1B—C1—H1C | 109.5 | C7—C8—H8 | 120.4 |
N1—C2—C1 | 113.6 (2) | C10—C9—C8 | 123.05 (19) |
N1—C2—H2A | 108.9 | C10—C9—N3 | 118.16 (18) |
C1—C2—H2A | 108.9 | C8—C9—N3 | 118.8 (2) |
N1—C2—H2B | 108.9 | C11—C10—C9 | 116.52 (17) |
C1—C2—H2B | 108.9 | C11—C10—H10 | 121.7 |
H2A—C2—H2B | 107.7 | C9—C10—H10 | 121.7 |
N1—C3—C4 | 111.11 (18) | C10—C11—C12 | 122.71 (19) |
N1—C3—H3A | 109.4 | C10—C11—N4 | 118.60 (17) |
C4—C3—H3A | 109.4 | C12—C11—N4 | 118.69 (18) |
N1—C3—H3B | 109.4 | C7—C12—C11 | 119.23 (19) |
C4—C3—H3B | 109.4 | C7—C12—H12 | 120.4 |
H3A—C3—H3B | 108 | C11—C12—H12 | 120.4 |
N2—C4—C3 | 110.43 (17) | O1—C13—O2 | 126.81 (18) |
N2—C4—H4A | 109.6 | O1—C13—C7 | 117.20 (19) |
C3—C4—H4A | 109.6 | O2—C13—C7 | 115.98 (18) |
N2—C4—H4B | 109.6 | C3—N1—C6 | 109.69 (16) |
C3—C4—H4B | 109.6 | C3—N1—C2 | 111.54 (17) |
H4A—C4—H4B | 108.1 | C6—N1—C2 | 108.66 (17) |
N2—C5—C6 | 110.30 (17) | C4—N2—C5 | 110.20 (17) |
N2—C5—H5A | 109.6 | C4—N2—H21 | 110 (2) |
C6—C5—H5A | 109.6 | C5—N2—H21 | 111 (2) |
N2—C5—H5B | 109.6 | C4—N2—H22 | 108 (2) |
C6—C5—H5B | 109.6 | C5—N2—H22 | 110.3 (19) |
H5A—C5—H5B | 108.1 | H21—N2—H22 | 108 (3) |
N1—C6—C5 | 111.54 (18) | O3—N3—O4 | 124.2 (2) |
N1—C6—H6A | 109.3 | O3—N3—C9 | 117.8 (2) |
C5—C6—H6A | 109.3 | O4—N3—C9 | 118.0 (2) |
N1—C6—H6B | 109.3 | O6—N4—O5 | 123.5 (2) |
C5—C6—H6B | 109.3 | O6—N4—C11 | 118.33 (18) |
H6A—C6—H6B | 108 | O5—N4—C11 | 118.2 (2) |
N1—C3—C4—N2 | −57.7 (2) | C12—C7—C13—O2 | 15.6 (3) |
N2—C5—C6—N1 | 57.5 (2) | C4—C3—N1—C6 | 58.2 (2) |
C12—C7—C8—C9 | −1.2 (3) | C4—C3—N1—C2 | 178.59 (18) |
C13—C7—C8—C9 | 179.11 (18) | C5—C6—N1—C3 | −58.3 (2) |
C7—C8—C9—C10 | 2.1 (3) | C5—C6—N1—C2 | 179.54 (18) |
C7—C8—C9—N3 | −177.62 (17) | C1—C2—N1—C3 | 65.2 (3) |
C8—C9—C10—C11 | −1.2 (3) | C1—C2—N1—C6 | −173.8 (2) |
N3—C9—C10—C11 | 178.58 (18) | C3—C4—N2—C5 | 56.1 (2) |
C9—C10—C11—C12 | −0.6 (3) | C6—C5—N2—C4 | −55.9 (2) |
C9—C10—C11—N4 | 179.50 (18) | C10—C9—N3—O3 | 165.7 (2) |
C8—C7—C12—C11 | −0.5 (3) | C8—C9—N3—O3 | −14.5 (3) |
C13—C7—C12—C11 | 179.18 (18) | C10—C9—N3—O4 | −15.0 (3) |
C10—C11—C12—C7 | 1.5 (3) | C8—C9—N3—O4 | 164.7 (2) |
N4—C11—C12—C7 | −178.69 (18) | C10—C11—N4—O6 | −174.2 (2) |
C8—C7—C13—O1 | 16.0 (3) | C12—C11—N4—O6 | 5.9 (3) |
C12—C7—C13—O1 | −163.64 (18) | C10—C11—N4—O5 | 6.0 (3) |
C8—C7—C13—O2 | −164.73 (18) | C12—C11—N4—O5 | −173.9 (2) |
4-Ethylpiperazin-1-ium 3,5-dinitrobenzoate (I). Hydrogen-bond geometry (Å, º)
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H21···O1 | 0.91 (2) | 1.88 (2) | 2.768 (2) | 168 (3) |
N2—H22···O2i | 0.92 (2) | 1.77 (2) | 2.684 (2) | 171 (3) |
Symmetry code: (i) −x, −y, −z.
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Crystal data
C5H13N2+·C7H3N2O6− | Z = 2 |
Mr = 312.29 | F(000) = 328 |
Triclinic, P1 | Dx = 1.367 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 7.8023 (6) Å | Cell parameters from 4819 reflections |
b = 10.3920 (8) Å | θ = 2.6–25.4° |
c = 10.4770 (8) Å | µ = 0.11 mm−1 |
α = 73.578 (8)° | T = 293 K |
β = 74.289 (8)° | Prism, orange |
γ = 71.828 (7)° | 0.48 × 0.48 × 0.44 mm |
V = 758.49 (11) Å3 |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Data collection
Oxford Diffraction Xcalibur diffractometer | 1935 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.010 |
ω scans | θmax = 25.4°, θmin = 2.6° |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | h = −9→7 |
Tmin = 0.948, Tmax = 0.952 | k = −12→8 |
4819 measured reflections | l = −12→12 |
2774 independent reflections |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Refinement
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.044 | Hydrogen site location: mixed |
wR(F2) = 0.129 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.03 | w = 1/[σ2(Fo2) + (0.0593P)2 + 0.1428P] where P = (Fo2 + 2Fc2)/3 |
2774 reflections | (Δ/σ)max < 0.001 |
206 parameters | Δρmax = 0.28 e Å−3 |
2 restraints | Δρmin = −0.15 e Å−3 |
0 constraints |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Special details
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. |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2)
x | y | z | Uiso*/Ueq | ||
O1 | 0.4259 (3) | −0.25601 (14) | 0.60539 (19) | 0.1005 (6) | |
O2 | 0.3187 (2) | −0.28191 (15) | 0.44153 (17) | 0.0950 (5) | |
O3 | 0.2206 (3) | 0.1945 (2) | 0.7260 (2) | 0.1219 (7) | |
O4 | 0.1284 (3) | 0.37901 (16) | 0.5805 (2) | 0.1139 (7) | |
O5 | 0.0144 (3) | 0.3389 (2) | 0.16451 (19) | 0.1237 (7) | |
O6 | 0.0455 (3) | 0.1363 (3) | 0.1329 (2) | 0.1293 (8) | |
N3 | 0.1771 (3) | 0.25321 (19) | 0.6173 (2) | 0.0806 (5) | |
N4 | 0.0540 (3) | 0.2122 (3) | 0.1988 (2) | 0.0877 (6) | |
C6 | 0.2667 (2) | −0.05607 (17) | 0.47269 (17) | 0.0500 (4) | |
C7 | 0.2608 (2) | 0.02602 (17) | 0.55809 (18) | 0.0535 (4) | |
H7 | 0.307549 | −0.013627 | 0.637091 | 0.064* | |
C8 | 0.1847 (2) | 0.16762 (17) | 0.52500 (19) | 0.0569 (4) | |
C9 | 0.1152 (2) | 0.23142 (19) | 0.4090 (2) | 0.0625 (5) | |
H9 | 0.064143 | 0.326656 | 0.38815 | 0.075* | |
C10 | 0.1249 (2) | 0.1477 (2) | 0.32539 (19) | 0.0606 (5) | |
C11 | 0.1974 (2) | 0.00621 (19) | 0.35514 (18) | 0.0568 (5) | |
H11 | 0.199786 | −0.047271 | 0.29663 | 0.068* | |
C12 | 0.3453 (3) | −0.21207 (18) | 0.5093 (2) | 0.0606 (5) | |
N1 | 0.4346 (2) | 0.71225 (17) | 0.02379 (16) | 0.0702 (5) | |
N2 | 0.4591 (3) | 0.52702 (16) | 0.28262 (17) | 0.0687 (5) | |
C1 | 0.3857 (4) | 0.8479 (3) | −0.0671 (3) | 0.1066 (9) | |
H1A | 0.493157 | 0.865009 | −0.133097 | 0.16* | |
H1B | 0.338418 | 0.918742 | −0.015173 | 0.16* | |
H1C | 0.293597 | 0.849066 | −0.112598 | 0.16* | |
C2 | 0.2725 (3) | 0.6783 (2) | 0.1169 (2) | 0.0697 (5) | |
H2A | 0.184008 | 0.681477 | 0.06581 | 0.084* | |
H2B | 0.21612 | 0.74668 | 0.172715 | 0.084* | |
C3 | 0.3197 (3) | 0.5366 (2) | 0.2067 (2) | 0.0739 (6) | |
H3A | 0.209494 | 0.517861 | 0.270132 | 0.089* | |
H3B | 0.366896 | 0.467313 | 0.15165 | 0.089* | |
C4 | 0.6227 (3) | 0.5678 (2) | 0.1885 (2) | 0.0809 (6) | |
H4A | 0.684243 | 0.501297 | 0.131159 | 0.097* | |
H4B | 0.708662 | 0.568073 | 0.240126 | 0.097* | |
C5 | 0.5641 (3) | 0.7102 (2) | 0.1016 (2) | 0.0767 (6) | |
H5A | 0.50716 | 0.777105 | 0.15895 | 0.092* | |
H5B | 0.671413 | 0.736436 | 0.040146 | 0.092* | |
H21 | 0.412 (3) | 0.586 (2) | 0.340 (2) | 0.092* | |
H22 | 0.494 (3) | 0.4374 (18) | 0.329 (2) | 0.092* |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Atomic displacement parameters (Å2)
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.1400 (15) | 0.0432 (8) | 0.1110 (13) | 0.0019 (8) | −0.0587 (12) | −0.0017 (8) |
O2 | 0.1243 (14) | 0.0579 (9) | 0.0982 (12) | −0.0057 (8) | −0.0139 (10) | −0.0373 (9) |
O3 | 0.188 (2) | 0.0895 (13) | 0.1115 (15) | −0.0329 (13) | −0.0574 (15) | −0.0344 (12) |
O4 | 0.1277 (14) | 0.0523 (10) | 0.1664 (18) | −0.0016 (9) | −0.0407 (13) | −0.0441 (11) |
O5 | 0.1127 (14) | 0.1017 (15) | 0.1015 (13) | 0.0206 (11) | −0.0330 (11) | 0.0208 (11) |
O6 | 0.1450 (19) | 0.149 (2) | 0.0972 (14) | −0.0207 (14) | −0.0625 (13) | −0.0148 (14) |
N3 | 0.0813 (12) | 0.0582 (11) | 0.1069 (16) | −0.0145 (9) | −0.0177 (11) | −0.0297 (11) |
N4 | 0.0675 (12) | 0.0988 (16) | 0.0703 (13) | −0.0021 (10) | −0.0176 (9) | 0.0047 (12) |
C6 | 0.0438 (9) | 0.0429 (9) | 0.0544 (10) | −0.0084 (7) | −0.0007 (7) | −0.0086 (8) |
C7 | 0.0489 (9) | 0.0469 (10) | 0.0578 (10) | −0.0098 (7) | −0.0088 (8) | −0.0053 (8) |
C8 | 0.0514 (10) | 0.0439 (10) | 0.0721 (12) | −0.0111 (7) | −0.0067 (9) | −0.0140 (9) |
C9 | 0.0484 (10) | 0.0435 (10) | 0.0788 (13) | −0.0071 (7) | −0.0067 (9) | 0.0018 (9) |
C10 | 0.0448 (10) | 0.0617 (12) | 0.0590 (11) | −0.0073 (8) | −0.0074 (8) | 0.0023 (9) |
C11 | 0.0487 (10) | 0.0597 (11) | 0.0562 (10) | −0.0122 (8) | −0.0013 (8) | −0.0142 (9) |
C12 | 0.0630 (11) | 0.0420 (10) | 0.0627 (12) | −0.0068 (8) | 0.0020 (9) | −0.0110 (9) |
N1 | 0.0768 (11) | 0.0689 (11) | 0.0543 (9) | −0.0116 (8) | −0.0144 (8) | −0.0036 (8) |
N2 | 0.0975 (13) | 0.0401 (8) | 0.0587 (10) | 0.0023 (8) | −0.0235 (9) | −0.0102 (7) |
C1 | 0.123 (2) | 0.0942 (19) | 0.0786 (16) | −0.0234 (15) | −0.0293 (15) | 0.0223 (14) |
C2 | 0.0695 (13) | 0.0647 (12) | 0.0737 (13) | −0.0130 (10) | −0.0253 (10) | −0.0075 (10) |
C3 | 0.0870 (15) | 0.0604 (12) | 0.0751 (13) | −0.0214 (10) | −0.0180 (11) | −0.0115 (10) |
C4 | 0.0717 (14) | 0.0743 (14) | 0.0922 (16) | 0.0063 (11) | −0.0325 (12) | −0.0237 (12) |
C5 | 0.0638 (12) | 0.0790 (14) | 0.0780 (14) | −0.0189 (10) | −0.0099 (11) | −0.0061 (11) |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Geometric parameters (Å, º)
O1—C12 | 1.233 (2) | N1—C5 | 1.452 (3) |
O2—C12 | 1.241 (2) | N1—C1 | 1.464 (3) |
O3—N3 | 1.213 (3) | N2—C3 | 1.477 (3) |
O4—N3 | 1.219 (2) | N2—C4 | 1.483 (3) |
O5—N4 | 1.224 (3) | N2—H21 | 0.906 (16) |
O6—N4 | 1.212 (3) | N2—H22 | 0.913 (16) |
N3—C8 | 1.467 (3) | C1—H1A | 0.96 |
N4—C10 | 1.475 (3) | C1—H1B | 0.96 |
C6—C7 | 1.384 (2) | C1—H1C | 0.96 |
C6—C11 | 1.386 (2) | C2—C3 | 1.502 (3) |
C6—C12 | 1.519 (2) | C2—H2A | 0.97 |
C7—C8 | 1.384 (2) | C2—H2B | 0.97 |
C7—H7 | 0.93 | C3—H3A | 0.97 |
C8—C9 | 1.374 (3) | C3—H3B | 0.97 |
C9—C10 | 1.373 (3) | C4—C5 | 1.506 (3) |
C9—H9 | 0.93 | C4—H4A | 0.97 |
C10—C11 | 1.377 (2) | C4—H4B | 0.97 |
C11—H11 | 0.93 | C5—H5A | 0.97 |
N1—C2 | 1.446 (2) | C5—H5B | 0.97 |
O3—N3—O4 | 123.6 (2) | C3—N2—H22 | 108.4 (15) |
O3—N3—C8 | 117.95 (18) | C4—N2—H22 | 109.2 (14) |
O4—N3—C8 | 118.4 (2) | H21—N2—H22 | 111 (2) |
O6—N4—O5 | 124.2 (2) | N1—C1—H1A | 109.5 |
O6—N4—C10 | 117.9 (2) | N1—C1—H1B | 109.5 |
O5—N4—C10 | 117.8 (2) | H1A—C1—H1B | 109.5 |
C7—C6—C11 | 118.91 (16) | N1—C1—H1C | 109.5 |
C7—C6—C12 | 120.13 (16) | H1A—C1—H1C | 109.5 |
C11—C6—C12 | 120.95 (17) | H1B—C1—H1C | 109.5 |
C6—C7—C8 | 119.47 (17) | N1—C2—C3 | 111.25 (17) |
C6—C7—H7 | 120.3 | N1—C2—H2A | 109.4 |
C8—C7—H7 | 120.3 | C3—C2—H2A | 109.4 |
C9—C8—C7 | 122.55 (18) | N1—C2—H2B | 109.4 |
C9—C8—N3 | 118.53 (17) | C3—C2—H2B | 109.4 |
C7—C8—N3 | 118.92 (18) | H2A—C2—H2B | 108 |
C10—C9—C8 | 116.73 (16) | N2—C3—C2 | 110.67 (16) |
C10—C9—H9 | 121.6 | N2—C3—H3A | 109.5 |
C8—C9—H9 | 121.6 | C2—C3—H3A | 109.5 |
C9—C10—C11 | 122.66 (18) | N2—C3—H3B | 109.5 |
C9—C10—N4 | 118.52 (19) | C2—C3—H3B | 109.5 |
C11—C10—N4 | 118.8 (2) | H3A—C3—H3B | 108.1 |
C10—C11—C6 | 119.67 (18) | N2—C4—C5 | 109.78 (16) |
C10—C11—H11 | 120.2 | N2—C4—H4A | 109.7 |
C6—C11—H11 | 120.2 | C5—C4—H4A | 109.7 |
O1—C12—O2 | 126.92 (18) | N2—C4—H4B | 109.7 |
O1—C12—C6 | 116.25 (18) | C5—C4—H4B | 109.7 |
O2—C12—C6 | 116.81 (19) | H4A—C4—H4B | 108.2 |
C2—N1—C5 | 108.81 (15) | N1—C5—C4 | 110.61 (18) |
C2—N1—C1 | 110.74 (18) | N1—C5—H5A | 109.5 |
C5—N1—C1 | 110.91 (18) | C4—C5—H5A | 109.5 |
C3—N2—C4 | 110.66 (16) | N1—C5—H5B | 109.5 |
C3—N2—H21 | 110.0 (15) | C4—C5—H5B | 109.5 |
C4—N2—H21 | 107.1 (14) | H5A—C5—H5B | 108.1 |
C11—C6—C7—C8 | 0.5 (2) | C9—C10—C11—C6 | −1.0 (3) |
C12—C6—C7—C8 | −178.42 (15) | N4—C10—C11—C6 | 179.18 (15) |
C6—C7—C8—C9 | −0.6 (3) | C7—C6—C11—C10 | 0.2 (2) |
C6—C7—C8—N3 | 179.23 (15) | C12—C6—C11—C10 | 179.17 (15) |
O3—N3—C8—C9 | 172.3 (2) | C7—C6—C12—O1 | −10.5 (2) |
O4—N3—C8—C9 | −8.0 (3) | C11—C6—C12—O1 | 170.56 (17) |
O3—N3—C8—C7 | −7.5 (3) | C7—C6—C12—O2 | 168.17 (16) |
O4—N3—C8—C7 | 172.18 (18) | C11—C6—C12—O2 | −10.8 (2) |
C7—C8—C9—C10 | −0.2 (3) | C5—N1—C2—C3 | −60.3 (2) |
N3—C8—C9—C10 | −179.99 (15) | C1—N1—C2—C3 | 177.52 (19) |
C8—C9—C10—C11 | 1.0 (3) | C4—N2—C3—C2 | −54.0 (2) |
C8—C9—C10—N4 | −179.21 (15) | N1—C2—C3—N2 | 57.2 (2) |
O6—N4—C10—C9 | −172.5 (2) | C3—N2—C4—C5 | 54.9 (2) |
O5—N4—C10—C9 | 10.3 (3) | C2—N1—C5—C4 | 61.4 (2) |
O6—N4—C10—C11 | 7.3 (3) | C1—N1—C5—C4 | −176.53 (19) |
O5—N4—C10—C11 | −169.91 (18) | N2—C4—C5—N1 | −59.1 (2) |
4-Methylpiperazin-1-ium 3,5-dinitrobenzoate (II). Hydrogen-bond geometry (Å, º)
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H21···O2i | 0.91 (2) | 1.82 (2) | 2.728 (2) | 175 (2) |
N2—H22···O1ii | 0.91 (2) | 1.78 (2) | 2.691 (2) | 172 (2) |
Symmetry codes: (i) x, y+1, z; (ii) −x+1, −y, −z+1.
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Crystal data
C5H13N2+·C7H4IO2− | Z = 2 |
Mr = 348.17 | F(000) = 344 |
Triclinic, P1 | Dx = 1.695 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 6.2418 (4) Å | Cell parameters from 4189 reflections |
b = 9.5465 (8) Å | θ = 3.3–25.4° |
c = 12.5346 (9) Å | µ = 2.34 mm−1 |
α = 110.708 (8)° | T = 293 K |
β = 90.235 (5)° | Rods, colourless |
γ = 101.559 (6)° | 0.48 × 0.24 × 0.2 mm |
V = 682.19 (9) Å3 |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Data collection
Oxford Diffraction Xcalibur diffractometer | 2324 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.011 |
ω scans | θmax = 25.4°, θmin = 3.3° |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | h = −7→7 |
Tmin = 0.515, Tmax = 0.626 | k = −11→11 |
4189 measured reflections | l = −15→14 |
2492 independent reflections |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Refinement
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.020 | Hydrogen site location: mixed |
wR(F2) = 0.051 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.11 | w = 1/[σ2(Fo2) + (0.0289P)2 + 0.2845P] where P = (Fo2 + 2Fc2)/3 |
2492 reflections | (Δ/σ)max < 0.001 |
160 parameters | Δρmax = 0.37 e Å−3 |
2 restraints | Δρmin = −0.95 e Å−3 |
0 constraints |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Special details
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. |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2)
x | y | z | Uiso*/Ueq | ||
C1 | 1.2514 (5) | 0.7762 (5) | 0.1396 (3) | 0.0712 (11) | |
H1A | 1.242455 | 0.690853 | 0.068934 | 0.107* | |
H1B | 1.283901 | 0.870031 | 0.124947 | 0.107* | |
H1C | 1.365551 | 0.776131 | 0.19115 | 0.107* | |
C2 | 1.0513 (4) | 0.8911 (3) | 0.2981 (2) | 0.0429 (6) | |
H2A | 1.085517 | 0.986567 | 0.284191 | 0.051* | |
H2B | 1.167221 | 0.892502 | 0.350502 | 0.051* | |
C3 | 0.8371 (4) | 0.8786 (3) | 0.3512 (2) | 0.0428 (6) | |
H3A | 0.847548 | 0.963711 | 0.423379 | 0.051* | |
H3B | 0.722435 | 0.883465 | 0.301016 | 0.051* | |
C4 | 0.7745 (4) | 0.6017 (3) | 0.2629 (2) | 0.0432 (6) | |
H4A | 0.656473 | 0.596833 | 0.210215 | 0.052* | |
H4B | 0.745692 | 0.506984 | 0.277895 | 0.052* | |
C5 | 0.9887 (4) | 0.6188 (3) | 0.2099 (2) | 0.0424 (6) | |
H5A | 1.10447 | 0.614721 | 0.259906 | 0.051* | |
H5B | 0.980005 | 0.534325 | 0.137531 | 0.051* | |
C6 | 0.6076 (4) | 0.2567 (3) | 0.3636 (2) | 0.0296 (5) | |
C7 | 0.6850 (4) | 0.1909 (3) | 0.2577 (2) | 0.0339 (5) | |
H7 | 0.812059 | 0.153084 | 0.253927 | 0.041* | |
C8 | 0.5770 (4) | 0.1804 (3) | 0.1574 (2) | 0.0355 (5) | |
H8 | 0.629598 | 0.134593 | 0.086951 | 0.043* | |
C9 | 0.3881 (4) | 0.2396 (3) | 0.1635 (2) | 0.0312 (5) | |
C10 | 0.3100 (4) | 0.3057 (3) | 0.2684 (2) | 0.0332 (5) | |
H10 | 0.184232 | 0.345025 | 0.272511 | 0.04* | |
C11 | 0.4189 (4) | 0.3135 (3) | 0.3679 (2) | 0.0336 (5) | |
H11 | 0.364548 | 0.357276 | 0.438151 | 0.04* | |
C12 | 0.7285 (4) | 0.2674 (3) | 0.4722 (2) | 0.0345 (5) | |
I1 | 0.22668 (3) | 0.23210 (2) | 0.01333 (2) | 0.03947 (7) | |
N1 | 1.0417 (3) | 0.7631 (3) | 0.19094 (18) | 0.0384 (5) | |
N2 | 0.7815 (3) | 0.7327 (3) | 0.37083 (19) | 0.0393 (5) | |
O1 | 0.6295 (3) | 0.2895 (3) | 0.56080 (16) | 0.0567 (6) | |
O2 | 0.9237 (3) | 0.2528 (3) | 0.46569 (16) | 0.0467 (5) | |
H21 | 0.876 (4) | 0.728 (4) | 0.420 (2) | 0.056* | |
H22 | 0.653 (4) | 0.728 (4) | 0.400 (3) | 0.056* |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Atomic displacement parameters (Å2)
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0331 (15) | 0.135 (3) | 0.056 (2) | 0.0112 (18) | 0.0100 (14) | 0.051 (2) |
C2 | 0.0390 (14) | 0.0381 (14) | 0.0506 (16) | −0.0024 (11) | −0.0094 (12) | 0.0208 (12) |
C3 | 0.0459 (14) | 0.0405 (14) | 0.0395 (14) | 0.0171 (12) | −0.0055 (11) | 0.0075 (12) |
C4 | 0.0434 (14) | 0.0365 (14) | 0.0484 (16) | −0.0033 (11) | −0.0035 (12) | 0.0204 (12) |
C5 | 0.0455 (15) | 0.0428 (14) | 0.0373 (14) | 0.0159 (12) | 0.0009 (11) | 0.0092 (12) |
C6 | 0.0241 (10) | 0.0347 (12) | 0.0346 (12) | 0.0059 (9) | 0.0019 (9) | 0.0183 (10) |
C7 | 0.0272 (11) | 0.0423 (13) | 0.0378 (13) | 0.0142 (10) | 0.0040 (9) | 0.0174 (11) |
C8 | 0.0362 (13) | 0.0404 (13) | 0.0311 (12) | 0.0142 (10) | 0.0056 (10) | 0.0110 (11) |
C9 | 0.0291 (11) | 0.0343 (12) | 0.0326 (12) | 0.0050 (9) | −0.0031 (9) | 0.0162 (10) |
C10 | 0.0239 (11) | 0.0430 (13) | 0.0380 (13) | 0.0108 (10) | 0.0029 (9) | 0.0193 (11) |
C11 | 0.0299 (11) | 0.0446 (14) | 0.0321 (12) | 0.0117 (10) | 0.0066 (9) | 0.0186 (11) |
C12 | 0.0258 (11) | 0.0471 (14) | 0.0354 (13) | 0.0087 (10) | 0.0017 (9) | 0.0203 (11) |
I1 | 0.03737 (10) | 0.05212 (12) | 0.03188 (10) | 0.01315 (7) | −0.00148 (7) | 0.01691 (8) |
N1 | 0.0269 (10) | 0.0595 (14) | 0.0346 (11) | 0.0059 (9) | 0.0023 (8) | 0.0260 (10) |
N2 | 0.0279 (10) | 0.0639 (14) | 0.0327 (11) | 0.0124 (10) | 0.0036 (8) | 0.0241 (11) |
O1 | 0.0371 (10) | 0.1100 (18) | 0.0370 (11) | 0.0261 (11) | 0.0097 (8) | 0.0379 (12) |
O2 | 0.0319 (9) | 0.0780 (14) | 0.0400 (10) | 0.0216 (9) | 0.0035 (8) | 0.0278 (10) |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Geometric parameters (Å, º)
C1—N1 | 1.464 (3) | C5—H5B | 0.97 |
C1—H1A | 0.96 | C6—C11 | 1.386 (3) |
C1—H1B | 0.96 | C6—C7 | 1.388 (3) |
C1—H1C | 0.96 | C6—C12 | 1.514 (3) |
C2—N1 | 1.453 (4) | C7—C8 | 1.386 (4) |
C2—C3 | 1.498 (4) | C7—H7 | 0.93 |
C2—H2A | 0.97 | C8—C9 | 1.398 (3) |
C2—H2B | 0.97 | C8—H8 | 0.93 |
C3—N2 | 1.474 (4) | C9—C10 | 1.381 (3) |
C3—H3A | 0.97 | C9—I1 | 2.103 (2) |
C3—H3B | 0.97 | C10—C11 | 1.389 (3) |
C4—N2 | 1.475 (4) | C10—H10 | 0.93 |
C4—C5 | 1.501 (4) | C11—H11 | 0.93 |
C4—H4A | 0.97 | C12—O1 | 1.246 (3) |
C4—H4B | 0.97 | C12—O2 | 1.254 (3) |
C5—N1 | 1.454 (4) | N2—H21 | 0.874 (18) |
C5—H5A | 0.97 | N2—H22 | 0.881 (18) |
N1—C1—H1A | 109.5 | C11—C6—C7 | 118.6 (2) |
N1—C1—H1B | 109.5 | C11—C6—C12 | 120.8 (2) |
H1A—C1—H1B | 109.5 | C7—C6—C12 | 120.6 (2) |
N1—C1—H1C | 109.5 | C8—C7—C6 | 121.5 (2) |
H1A—C1—H1C | 109.5 | C8—C7—H7 | 119.3 |
H1B—C1—H1C | 109.5 | C6—C7—H7 | 119.3 |
N1—C2—C3 | 110.8 (2) | C7—C8—C9 | 119.1 (2) |
N1—C2—H2A | 109.5 | C7—C8—H8 | 120.4 |
C3—C2—H2A | 109.5 | C9—C8—H8 | 120.4 |
N1—C2—H2B | 109.5 | C10—C9—C8 | 119.9 (2) |
C3—C2—H2B | 109.5 | C10—C9—I1 | 120.07 (17) |
H2A—C2—H2B | 108.1 | C8—C9—I1 | 120.00 (18) |
N2—C3—C2 | 110.0 (2) | C9—C10—C11 | 120.1 (2) |
N2—C3—H3A | 109.7 | C9—C10—H10 | 119.9 |
C2—C3—H3A | 109.7 | C11—C10—H10 | 119.9 |
N2—C3—H3B | 109.7 | C6—C11—C10 | 120.8 (2) |
C2—C3—H3B | 109.7 | C6—C11—H11 | 119.6 |
H3A—C3—H3B | 108.2 | C10—C11—H11 | 119.6 |
N2—C4—C5 | 110.2 (2) | O1—C12—O2 | 124.5 (2) |
N2—C4—H4A | 109.6 | O1—C12—C6 | 118.7 (2) |
C5—C4—H4A | 109.6 | O2—C12—C6 | 116.7 (2) |
N2—C4—H4B | 109.6 | C2—N1—C5 | 110.3 (2) |
C5—C4—H4B | 109.6 | C2—N1—C1 | 110.5 (2) |
H4A—C4—H4B | 108.1 | C5—N1—C1 | 109.6 (2) |
N1—C5—C4 | 111.1 (2) | C3—N2—C4 | 110.6 (2) |
N1—C5—H5A | 109.4 | C3—N2—H21 | 112 (2) |
C4—C5—H5A | 109.4 | C4—N2—H21 | 108 (2) |
N1—C5—H5B | 109.4 | C3—N2—H22 | 108 (2) |
C4—C5—H5B | 109.4 | C4—N2—H22 | 111 (2) |
H5A—C5—H5B | 108 | H21—N2—H22 | 108 (3) |
N1—C2—C3—N2 | 58.1 (3) | C9—C10—C11—C6 | 0.6 (4) |
N2—C4—C5—N1 | −56.7 (3) | C11—C6—C12—O1 | 18.7 (4) |
C11—C6—C7—C8 | −0.4 (4) | C7—C6—C12—O1 | −161.8 (2) |
C12—C6—C7—C8 | −179.8 (2) | C11—C6—C12—O2 | −161.4 (2) |
C6—C7—C8—C9 | 1.0 (4) | C7—C6—C12—O2 | 18.0 (4) |
C7—C8—C9—C10 | −0.8 (4) | C3—C2—N1—C5 | −58.7 (3) |
C7—C8—C9—I1 | 177.94 (18) | C3—C2—N1—C1 | 180.0 (2) |
C8—C9—C10—C11 | 0.0 (4) | C4—C5—N1—C2 | 58.0 (3) |
I1—C9—C10—C11 | −178.72 (18) | C4—C5—N1—C1 | 179.9 (2) |
C7—C6—C11—C10 | −0.4 (4) | C2—C3—N2—C4 | −56.8 (3) |
C12—C6—C11—C10 | 179.0 (2) | C5—C4—N2—C3 | 56.1 (3) |
4-Methylpiperazin-1-ium 4-iodobenzoate (III). Hydrogen-bond geometry (Å, º)
Cg2 is the centroid of the C6–C11 ring.
D—H···A | D—H | H···A | D···A | D—H···A |
C3—H3A···O2i | 0.97 | 2.56 | 3.272 (3) | 130 |
C5—H5A···O1ii | 0.97 | 2.56 | 3.469 (3) | 156 |
N2—H21···O2ii | 0.87 (2) | 1.83 (2) | 2.696 (3) | 172 (3) |
N2—H22···O1iii | 0.88 (2) | 1.83 (2) | 2.700 (3) | 172 (3) |
C4—H4B···Cg2iv | 0.97 | 2.59 | 3.473 (3) | 152 |
Symmetry codes: (i) x, y+1, z; (ii) −x+2, −y+1, −z+1; (iii) −x+1, −y+1, −z+1; (iv) −x, −y, −z.
Funding Statement
This work was funded by Spanish Ministerio de Ciencia e Innovaci\’on grant PID2020-113558RB-C41 to Santiago Garcia-Granda; Gobierno del Principado de Asturias grant GRUPIN-ID2018-170 to Santiago Garcia-Granda; University of Mysore; Darmstadt University of Technology.
References
- Berkheij, M., van der Sluis, L., Sewing, C., den Boer, D. J., Terpstra, J. W., Hiemstra, H., Iwema Bakker, W. I., van den Hoogenband, A. & van Maarseveen, J. H. (2005). Tetrahedron Lett. 46, 2369–2371.
- Bogatcheva, E., Hanrahan, C., Nikonenko, B., Samala, R., Chen, P., Gearhart, J., Barbosa, F., Einck, L., Nacy, C. A. & Protopopova, M. (2006). J. Med. Chem. 49, 3045–3048. [DOI] [PMC free article] [PubMed]
- Brockunier, L. L., He, J., Colwell, L. F. Jr, Habulihaz, B., He, H., Leiting, B., Lyons, K. A., Marsilio, F., Patel, R. A., Teffera, Y., Wu, J. K., Thornberry, N. A., Weber, A. E. & Parmee, E. R. (2004). Bioorg. Med. Chem. Lett. 14, 4763–4766. [DOI] [PubMed]
- Chaudhary, P., Kumar, R., Verma, K., Singh, D., Yadav, V., Chhillar, A. K., Sharma, G. L. & Chandra, R. (2006). Bioorg. Med. Chem. 14, 1819–1826. [DOI] [PubMed]
- Dhieb, A. C., Janzen, D. E., Rzaigui, M. & Smirani Sta, W. (2014). Acta Cryst. E70, m166. [DOI] [PMC free article] [PubMed]
- Dutkiewicz, G., Samshuddin, S., Narayana, B., Yathirajan, H. S. & Kubicki, M. (2011). Acta Cryst. E67, o390–o391. [DOI] [PMC free article] [PubMed]
- Elliott, S. (2011). Drug Test. Anal. 3, 430–438. [DOI] [PubMed]
- Essid, M., Marouani, H. & Rzaigui, M. (2014). Acta Cryst. E70, o326–o327. [DOI] [PMC free article] [PubMed]
- Fu, J.-H., Wang, Z.-Y., Yang, K. & Mao, C.-X. (2010). Acta Cryst. E66, o2022. [DOI] [PMC free article] [PubMed]
- Groom, C. R., Bruno, I. J., Lightfoot, M. P. & Ward, S. C. (2016). Acta Cryst. B72, 171–179. [DOI] [PMC free article] [PubMed]
- Guo, M.-L. (2004). Acta Cryst. C60, o690–o692. [DOI] [PubMed]
- Harish Chinthal, C., Kavitha, C. N., Yathirajan, H. S., Foro, S., Rathore, R. S. & Glidewell, C. (2020). Acta Cryst. E76, 1779–1793. [DOI] [PMC free article] [PubMed]
- Kharb, R., Bansal, K. & Sharma, A. K. (2012). Der Pharma Chem. 4, 2470–2488.
- Kiran Kumar, H., Yathirajan, H. S., Foro, S. & Glidewell, C. (2019). Acta Cryst. E75, 1494–1506. [DOI] [PMC free article] [PubMed]
- Li, J.-Y. & Li, T.-D. (2007). Acta Cryst. E63, m708–m709.
- Li, Y.-F. (2011). Acta Cryst. E67, o2574. [DOI] [PMC free article] [PubMed]
- Lu, C. & Jiang, Q. (2011). Acta Cryst. E67, o223. [DOI] [PMC free article] [PubMed]
- Macrae, C. F., Sovago, I., Cottrell, S. J., Galek, P. T. A., McCabe, P., Pidcock, E., Platings, M., Shields, G. P., Stevens, J. S., Towler, M. & Wood, P. A. (2020). J. Appl. Cryst. 53, 226–235. [DOI] [PMC free article] [PubMed]
- Mallevais, M. L., Delacourte, A., Lesieur, I., Lesieur, D., Cazin, M., Brunet, C. & Luyckx, M. (1984). Biochimie, 66, 477. [DOI] [PubMed]
- Oxford Diffraction (2009). CrysAlis CCD and CrysAlis RED. Oxford Diffraction Ltd, Abingdon, England.
- Peng, C.-H. (2010). Acta Cryst. E66, o2114. [DOI] [PMC free article] [PubMed]
- Qandil, A. M. (2012). Pharmaceuticals. 5, 460. [DOI] [PMC free article] [PubMed]
- Qiao, H.-Y., Xu, S.-H. & Jiang, H.-X. (2010). Acta Cryst. E66, o1861. [DOI] [PMC free article] [PubMed]
- Shahani, T., Fun, H.-K., Vijayakumar, V., Ragavan, R. V. & Sarveswari, S. (2011). Acta Cryst. E67, o1747–o1748. [DOI] [PMC free article] [PubMed]
- Sheldrick, G. M. (2015a). Acta Cryst. A71, 3–8.
- Sheldrick, G. M. (2015b). Acta Cryst. C71, 3–8.
- Spek, A. L. (2020). Acta Cryst. E76, 1–11. [DOI] [PMC free article] [PubMed]
- Upadhayaya, P. S., Sinha, N., Jain, S., Kishore, N., Chandra, R. & Arora, S. K. (2004). Bioorg. Med. Chem. 12, 2225–2238. [DOI] [PubMed]
- Wecharine, I., Valkonen, A., Rzaigui, M. & Smirani Sta, W. (2015). Acta Cryst. E71, o193–o194. [DOI] [PMC free article] [PubMed]
- Wecharine, I., Valkonen, A., Rzaigui, M. & Smirani Sta, W. (2015). Acta Cryst. E71, o193–o194. [DOI] [PMC free article] [PubMed]
- Westrip, S. P. (2010). J. Appl. Cryst. 43, 920–925.
- Zhu, M.-L. & Guo, M.-L. (2005). Acta Cryst. E61, o3310–o3311.
Associated Data
This section collects any data citations, data availability statements, or supplementary materials included in this article.
Supplementary Materials
Crystal structure: contains datablock(s) global, I, II, III. DOI: 10.1107/S2056989021010689/dj2037sup1.cif
Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989021010689/dj2037Isup2.hkl
Structure factors: contains datablock(s) II. DOI: 10.1107/S2056989021010689/dj2037IIsup3.hkl
Structure factors: contains datablock(s) III. DOI: 10.1107/S2056989021010689/dj2037IIIsup4.hkl
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037Isup5.cml
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037IIsup6.cml
Supporting information file. DOI: 10.1107/S2056989021010689/dj2037IIIsup7.cml
Additional supporting information: crystallographic information; 3D view; checkCIF report