organic compounds
2-Amino-4,6-dimethylpyridinium benzoate
aPharmaceutical Design and Simulation Laboratory, School of Pharmaceutical Sciences, Universiti Sains Malaysia, 11800 USM, Penang, Malaysia, bInstitute of Pharmaceutical and Neutraceuticals, Malaysia Ministry of Science and Technology and Innovation, Science Complex, 11900, Malaysia, and cX-ray Crystallography Unit, School of Physics, Universiti Sains Malaysia, 11800 USM, Penang, Malaysia
*Correspondence e-mail: hkfun@usm.my
In the title compound, C7H11N2+·C7H5O2−, the 2-amino-4,6-dimethylpyridinium cation and the benzoate anion are linked by two N—H⋯O hydrogen bonds, forming an R22(8) ring motif. The H atoms in both the methyl groups are rotationally disordered, with fixed site occupancies of 0.50. In the the molecules are stabilized by intermolecular N—H⋯O hydrogen bonds. A π–π interaction, with a centroid–centroid distance of 3.661 (2) Å, is also observed.
Related literature
For the biological activity of ). For hydrogen bonding, see: Jeffrey (1997); Jeffrey & Saenger (1991). For graph-set descriptions of hydrogen-bond ring motifs, see: Bernstein et al. (1995).
with azomethine linkages, see Dhar & Taploo (1982Experimental
Crystal data
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Refinement
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Data collection: APEX2 (Bruker, 2009); cell SAINT (Bruker, 2009); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009).
Supporting information
10.1107/S1600536810034811/fj2327sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536810034811/fj2327Isup2.hkl
An ethanol solution (20 ml) of 2-amino-4,6-dimethylpyridine (1.22 g, Aldrich) and benzaldehyde (1.06 g, Merck) were mixed, heated on a hot plate and stirred with a magnetic stirrer. The reaction mixture was refluxed for 4h. The resulting condensation solution was allowed to cool slowly at room temperature to form brownish materials. Purification was done using thin layer
(TLC) and silica gel (CC) eluted by chloroform:methanol and n-hexane:ethyl acetate solvent system. Finally the pure compound was recrystallized in ethanol which afforded the C7H11N2+.C7H5O2- salt.N bound H atoms was located from a difference Fourier map and were refined using a riding model, with Uiso(H) = 1.2Ueq(N). The methyl hydrogen atoms were located from the difference Fourier map and refined freely with the parent atom [Uiso(H) = 1.5Ueq(C)]. The rest of the hydrogen atoms were positioned geometrically and refined as riding model [Uiso(H) = 1.2Ueq(C)].
Data collection: APEX2 (Bruker, 2009); cell
SAINT (Bruker, 2009); data reduction: SAINT (Bruker, 2009); program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).C7H11N2+·C7H5O2− | F(000) = 520 |
Mr = 244.29 | Dx = 1.215 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 1881 reflections |
a = 7.5362 (16) Å | θ = 2.8–30.1° |
b = 22.937 (4) Å | µ = 0.08 mm−1 |
c = 8.2124 (14) Å | T = 296 K |
β = 109.820 (2)° | Plate, colourless |
V = 1335.5 (4) Å3 | 0.57 × 0.23 × 0.05 mm |
Z = 4 |
Bruker SMART APEXII CCD area-detector diffractometer | 2336 independent reflections |
Radiation source: fine-focus sealed tube | 1527 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.029 |
ϕ and ω scans | θmax = 25.0°, θmin = 2.8° |
Absorption correction: multi-scan (SADABS;p Bruker, 2009) | h = −8→8 |
Tmin = 0.954, Tmax = 0.996 | k = −27→26 |
7639 measured reflections | l = −9→9 |
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: inferred from neighbouring sites |
wR(F2) = 0.127 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.02 | w = 1/[σ2(Fo2) + (0.0636P)2 + 0.0715P] where P = (Fo2 + 2Fc2)/3 |
2336 reflections | (Δ/σ)max < 0.001 |
199 parameters | Δρmax = 0.10 e Å−3 |
0 restraints | Δρmin = −0.14 e Å−3 |
C7H11N2+·C7H5O2− | V = 1335.5 (4) Å3 |
Mr = 244.29 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 7.5362 (16) Å | µ = 0.08 mm−1 |
b = 22.937 (4) Å | T = 296 K |
c = 8.2124 (14) Å | 0.57 × 0.23 × 0.05 mm |
β = 109.820 (2)° |
Bruker SMART APEXII CCD area-detector diffractometer | 2336 independent reflections |
Absorption correction: multi-scan (SADABS;p Bruker, 2009) | 1527 reflections with I > 2σ(I) |
Tmin = 0.954, Tmax = 0.996 | Rint = 0.029 |
7639 measured reflections |
R[F2 > 2σ(F2)] = 0.044 | 0 restraints |
wR(F2) = 0.127 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.02 | Δρmax = 0.10 e Å−3 |
2336 reflections | Δρmin = −0.14 e Å−3 |
199 parameters |
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. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > 2sigma(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger. |
x | y | z | Uiso*/Ueq | Occ. (<1) | |
O1 | 0.5868 (2) | 0.30973 (6) | 0.23891 (18) | 0.0874 (5) | |
O2 | 0.5079 (2) | 0.40213 (6) | 0.18422 (17) | 0.0833 (5) | |
C1 | 0.6431 (3) | 0.42956 (9) | 0.5357 (3) | 0.0703 (5) | |
H1A | 0.5807 | 0.4584 | 0.4578 | 0.084* | |
C2 | 0.7115 (3) | 0.44196 (11) | 0.7090 (3) | 0.0868 (6) | |
H2A | 0.6943 | 0.4789 | 0.7480 | 0.104* | |
C3 | 0.8046 (3) | 0.40029 (12) | 0.8240 (3) | 0.0924 (7) | |
H3A | 0.8500 | 0.4087 | 0.9418 | 0.111* | |
C4 | 0.8316 (3) | 0.34597 (11) | 0.7670 (3) | 0.0872 (7) | |
H4A | 0.8968 | 0.3177 | 0.8460 | 0.105* | |
C5 | 0.7621 (3) | 0.33309 (9) | 0.5921 (3) | 0.0722 (5) | |
H5A | 0.7807 | 0.2962 | 0.5535 | 0.087* | |
C6 | 0.6651 (2) | 0.37496 (8) | 0.4747 (2) | 0.0583 (5) | |
C7 | 0.5808 (3) | 0.36135 (8) | 0.2857 (2) | 0.0635 (5) | |
N1 | 0.33910 (19) | 0.38091 (6) | −0.15464 (18) | 0.0574 (4) | |
H1N1 | 0.3994 | 0.3858 | −0.0211 | 0.069* | |
N2 | 0.4633 (2) | 0.28852 (6) | −0.1151 (2) | 0.0734 (5) | |
H1N2 | 0.5218 | 0.2955 | 0.0136 | 0.088* | |
H2N2 | 0.4965 | 0.2603 | −0.1752 | 0.088* | |
C8 | 0.2395 (2) | 0.42572 (7) | −0.2537 (2) | 0.0616 (5) | |
C9 | 0.1624 (3) | 0.41807 (9) | −0.4262 (3) | 0.0703 (5) | |
H9A | 0.0956 | 0.4485 | −0.4947 | 0.084* | |
C10 | 0.1811 (3) | 0.36533 (9) | −0.5041 (2) | 0.0692 (5) | |
C11 | 0.2816 (3) | 0.32162 (8) | −0.4016 (2) | 0.0660 (5) | |
H11A | 0.2959 | 0.2863 | −0.4511 | 0.079* | |
C12 | 0.3632 (3) | 0.32926 (7) | −0.2236 (2) | 0.0582 (5) | |
C13 | 0.2269 (4) | 0.47999 (10) | −0.1583 (4) | 0.0817 (7) | |
H13A | 0.086 (9) | 0.490 (3) | −0.181 (9) | 0.123* | 0.50 |
H13B | 0.285 (10) | 0.475 (3) | −0.023 (9) | 0.123* | 0.50 |
H13C | 0.298 (10) | 0.513 (2) | −0.195 (8) | 0.123* | 0.50 |
H13D | 0.155 (12) | 0.506 (3) | −0.232 (7) | 0.123* | 0.50 |
H13E | 0.344 (8) | 0.494 (3) | −0.087 (10) | 0.123* | 0.50 |
H13F | 0.184 (10) | 0.470 (3) | −0.045 (10) | 0.123* | 0.50 |
C14 | 0.0940 (5) | 0.3577 (2) | −0.6963 (3) | 0.0984 (8) | |
H14A | 0.143 (11) | 0.323 (5) | −0.738 (10) | 0.148* | 0.50 |
H14B | 0.117 (14) | 0.392 (3) | −0.758 (11) | 0.148* | 0.50 |
H14C | −0.041 (12) | 0.347 (3) | −0.724 (9) | 0.148* | 0.50 |
H14D | 0.071 (13) | 0.319 (5) | −0.722 (11) | 0.148* | 0.50 |
H14E | 0.179 (10) | 0.376 (5) | −0.759 (10) | 0.148* | 0.50 |
H14F | −0.037 (11) | 0.382 (3) | −0.749 (9) | 0.148* | 0.50 |
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.1331 (13) | 0.0527 (8) | 0.0720 (9) | −0.0037 (8) | 0.0288 (8) | 0.0009 (7) |
O2 | 0.1135 (12) | 0.0558 (8) | 0.0663 (9) | −0.0009 (7) | 0.0119 (8) | 0.0059 (7) |
C1 | 0.0710 (12) | 0.0710 (13) | 0.0675 (13) | 0.0012 (10) | 0.0216 (10) | −0.0006 (10) |
C2 | 0.0918 (16) | 0.0927 (16) | 0.0724 (15) | 0.0031 (12) | 0.0231 (12) | −0.0119 (13) |
C3 | 0.0939 (16) | 0.114 (2) | 0.0648 (14) | −0.0117 (14) | 0.0210 (12) | −0.0052 (14) |
C4 | 0.0785 (14) | 0.0990 (18) | 0.0745 (15) | −0.0042 (12) | 0.0135 (11) | 0.0235 (13) |
C5 | 0.0718 (12) | 0.0666 (12) | 0.0748 (14) | −0.0054 (9) | 0.0204 (10) | 0.0104 (10) |
C6 | 0.0551 (10) | 0.0569 (11) | 0.0638 (11) | −0.0076 (8) | 0.0212 (8) | 0.0039 (9) |
C7 | 0.0713 (12) | 0.0520 (11) | 0.0673 (12) | −0.0098 (9) | 0.0238 (9) | 0.0053 (10) |
N1 | 0.0639 (9) | 0.0481 (8) | 0.0611 (9) | −0.0003 (7) | 0.0223 (7) | 0.0034 (7) |
N2 | 0.1069 (13) | 0.0532 (9) | 0.0645 (10) | 0.0139 (8) | 0.0348 (9) | 0.0070 (8) |
C8 | 0.0552 (10) | 0.0549 (11) | 0.0730 (13) | 0.0005 (8) | 0.0192 (9) | 0.0079 (9) |
C9 | 0.0616 (11) | 0.0704 (13) | 0.0755 (14) | 0.0094 (9) | 0.0187 (10) | 0.0136 (10) |
C10 | 0.0580 (11) | 0.0871 (14) | 0.0641 (12) | 0.0035 (10) | 0.0228 (9) | 0.0068 (11) |
C11 | 0.0721 (12) | 0.0667 (12) | 0.0664 (12) | 0.0017 (9) | 0.0328 (10) | −0.0042 (9) |
C12 | 0.0643 (11) | 0.0513 (10) | 0.0650 (12) | 0.0000 (8) | 0.0297 (9) | 0.0049 (9) |
C13 | 0.0840 (17) | 0.0544 (13) | 0.0937 (19) | 0.0083 (11) | 0.0132 (14) | −0.0013 (12) |
C14 | 0.093 (2) | 0.130 (3) | 0.0671 (15) | 0.014 (2) | 0.0203 (14) | 0.0021 (16) |
O1—C7 | 1.250 (2) | C8—C9 | 1.348 (3) |
O2—C7 | 1.249 (2) | C8—C13 | 1.491 (3) |
C1—C2 | 1.369 (3) | C9—C10 | 1.398 (3) |
C1—C6 | 1.380 (3) | C9—H9A | 0.9300 |
C1—H1A | 0.9300 | C10—C11 | 1.362 (3) |
C2—C3 | 1.360 (3) | C10—C14 | 1.500 (3) |
C2—H2A | 0.9300 | C11—C12 | 1.391 (3) |
C3—C4 | 1.370 (3) | C11—H11A | 0.9300 |
C3—H3A | 0.9300 | C13—H13A | 1.04 (6) |
C4—C5 | 1.384 (3) | C13—H13B | 1.06 (7) |
C4—H4A | 0.9300 | C13—H13C | 1.04 (5) |
C5—C6 | 1.381 (3) | C13—H13D | 0.89 (6) |
C5—H5A | 0.9300 | C13—H13E | 0.93 (6) |
C6—C7 | 1.497 (3) | C13—H13F | 1.11 (7) |
N1—C12 | 1.352 (2) | C14—H14A | 0.99 (9) |
N1—C8 | 1.367 (2) | C14—H14B | 0.98 (10) |
N1—H1N1 | 1.0414 | C14—H14C | 1.00 (8) |
N2—C12 | 1.335 (2) | C14—H14D | 0.90 (10) |
N2—H1N2 | 1.0101 | C14—H14E | 1.03 (10) |
N2—H2N2 | 0.9002 | C14—H14F | 1.09 (7) |
C2—C1—C6 | 121.1 (2) | N1—C12—C11 | 118.47 (16) |
C2—C1—H1A | 119.4 | C8—C13—H13A | 109 (3) |
C6—C1—H1A | 119.4 | C8—C13—H13B | 112 (3) |
C3—C2—C1 | 120.0 (2) | H13A—C13—H13B | 104 (4) |
C3—C2—H2A | 120.0 | C8—C13—H13C | 109 (3) |
C1—C2—H2A | 120.0 | H13A—C13—H13C | 113 (4) |
C2—C3—C4 | 120.2 (2) | H13B—C13—H13C | 109 (4) |
C2—C3—H3A | 119.9 | C8—C13—H13D | 109 (4) |
C4—C3—H3A | 119.9 | H13A—C13—H13D | 52 (4) |
C3—C4—C5 | 120.1 (2) | H13B—C13—H13D | 137 (5) |
C3—C4—H4A | 120.0 | H13C—C13—H13D | 65 (4) |
C5—C4—H4A | 120.0 | C8—C13—H13E | 113 (4) |
C6—C5—C4 | 120.0 (2) | H13A—C13—H13E | 137 (4) |
C6—C5—H5A | 120.0 | H13B—C13—H13E | 54 (4) |
C4—C5—H5A | 120.0 | H13C—C13—H13E | 57 (4) |
C1—C6—C5 | 118.58 (18) | H13D—C13—H13E | 116 (5) |
C1—C6—C7 | 120.30 (16) | C8—C13—H13F | 111 (3) |
C5—C6—C7 | 121.10 (17) | H13A—C13—H13F | 68 (4) |
O2—C7—O1 | 123.88 (17) | H13C—C13—H13F | 136 (4) |
O2—C7—C6 | 118.14 (16) | H13D—C13—H13F | 115 (5) |
O1—C7—C6 | 117.98 (16) | H13E—C13—H13F | 92 (5) |
C12—N1—C8 | 122.30 (16) | C10—C14—H14A | 112 (5) |
C12—N1—H1N1 | 117.7 | C10—C14—H14B | 111 (5) |
C8—N1—H1N1 | 120.0 | H14A—C14—H14B | 108 (6) |
C12—N2—H1N2 | 122.4 | C10—C14—H14C | 108 (4) |
C12—N2—H2N2 | 109.7 | H14A—C14—H14C | 102 (7) |
H1N2—N2—H2N2 | 125.7 | H14B—C14—H14C | 115 (6) |
C9—C8—N1 | 118.79 (17) | C10—C14—H14D | 110 (6) |
C9—C8—C13 | 125.41 (18) | H14B—C14—H14D | 135 (7) |
N1—C8—C13 | 115.79 (18) | H14C—C14—H14D | 67 (5) |
C8—C9—C10 | 121.30 (17) | C10—C14—H14E | 111 (4) |
C8—C9—H9A | 119.4 | H14A—C14—H14E | 77 (5) |
C10—C9—H9A | 119.4 | H14C—C14—H14E | 138 (5) |
C11—C10—C9 | 118.37 (18) | H14D—C14—H14E | 112 (7) |
C11—C10—C14 | 121.2 (2) | C10—C14—H14F | 112 (3) |
C9—C10—C14 | 120.5 (2) | H14A—C14—H14F | 132 (6) |
C10—C11—C12 | 120.77 (18) | H14B—C14—H14F | 72 (5) |
C10—C11—H11A | 119.6 | H14C—C14—H14F | 46 (4) |
C12—C11—H11A | 119.6 | H14D—C14—H14F | 109 (7) |
N2—C12—N1 | 117.34 (16) | H14E—C14—H14F | 104 (6) |
N2—C12—C11 | 124.19 (17) | ||
C6—C1—C2—C3 | 0.7 (3) | C12—N1—C8—C9 | 0.1 (2) |
C1—C2—C3—C4 | 0.5 (4) | C12—N1—C8—C13 | −179.6 (2) |
C2—C3—C4—C5 | −0.8 (4) | N1—C8—C9—C10 | 0.7 (3) |
C3—C4—C5—C6 | −0.1 (3) | C13—C8—C9—C10 | −179.7 (2) |
C2—C1—C6—C5 | −1.6 (3) | C8—C9—C10—C11 | −0.8 (3) |
C2—C1—C6—C7 | 176.91 (18) | C8—C9—C10—C14 | 179.9 (2) |
C4—C5—C6—C1 | 1.3 (3) | C9—C10—C11—C12 | 0.2 (3) |
C4—C5—C6—C7 | −177.18 (18) | C14—C10—C11—C12 | 179.5 (2) |
C1—C6—C7—O2 | 7.2 (3) | C8—N1—C12—N2 | 179.88 (16) |
C5—C6—C7—O2 | −174.36 (18) | C8—N1—C12—C11 | −0.6 (2) |
C1—C6—C7—O1 | −172.47 (18) | C10—C11—C12—N2 | 179.94 (18) |
C5—C6—C7—O1 | 6.0 (3) | C10—C11—C12—N1 | 0.5 (3) |
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N1···O2 | 1.04 | 1.65 | 2.683 (2) | 172 |
N2—H1N2···O1 | 1.01 | 1.78 | 2.779 (2) | 171 |
N2—H2N2···O1i | 0.90 | 1.97 | 2.853 (2) | 168 |
Symmetry code: (i) x, −y+1/2, z−1/2. |
Experimental details
Crystal data | |
Chemical formula | C7H11N2+·C7H5O2− |
Mr | 244.29 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 296 |
a, b, c (Å) | 7.5362 (16), 22.937 (4), 8.2124 (14) |
β (°) | 109.820 (2) |
V (Å3) | 1335.5 (4) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.08 |
Crystal size (mm) | 0.57 × 0.23 × 0.05 |
Data collection | |
Diffractometer | Bruker SMART APEXII CCD area-detector diffractometer |
Absorption correction | Multi-scan (SADABS;p Bruker, 2009) |
Tmin, Tmax | 0.954, 0.996 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 7639, 2336, 1527 |
Rint | 0.029 |
(sin θ/λ)max (Å−1) | 0.595 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.044, 0.127, 1.02 |
No. of reflections | 2336 |
No. of parameters | 199 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.10, −0.14 |
Computer programs: APEX2 (Bruker, 2009), SAINT (Bruker, 2009), SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N1···O2 | 1.04 | 1.65 | 2.683 (2) | 172 |
N2—H1N2···O1 | 1.01 | 1.78 | 2.779 (2) | 171 |
N2—H2N2···O1i | 0.90 | 1.97 | 2.853 (2) | 168 |
Symmetry code: (i) x, −y+1/2, z−1/2. |
Acknowledgements
This research was supported by Universiti Sains Malaysia (USM) under the University Research grant (No. 1001/PFARMASI/815004) and the Ministry of Science, Technology and Innovation through an R&D Initiative Grant (09-05-IFN-MEB 004). HKF and MMR also thank USM for the Research University Grant (No. 1001/PFIZIK/811160). MRA gratefully acknowledges a PhD scholarship from Universiti Malaysia Sarawak.
References
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This compound is derived from 2-amino-4,6-dimethylpyridine and benzaldehyde. Schiff bases provide more potential sites for both chemical and biological activities of compounds. Schiff bases with azomethine linkage were used as anti-infectious agents (Dhar et al., 1982). Pyridine and its derivatives play an important role in heterocyclic chemistry (Jeffrey, 1997). They are often involved in hydrogen-bond interactions (Jeffrey & Saenger, 1991).
The title 1:1 adduct compound contains an 2-amino-4,6-dimethylpyridinium cation and benzoate anion in the asymmetric unit. The parameters in (I), (Fig. 1), are within normal ranges. The 2-amino-4,6-dimethylpyridinium cation is planar with the maximum deviation of 0.005 (2)Å for atom C9. The H atoms of the methyl groups are disordered over two positions and with fixed site-occupancy factors of 0.50:0.50 for both of the methyl groups. The carboxylate group in benzoate anion is slightly twisted and make a dihedral angle of 7.2 (1)° with the attached benzene ring.
The 2-amino-4,6-dimethylpyridinium cation and benzoate anion groups are linked together by intermolecular N1—H1N1···O2 and N2—H1N2···O1 interactions (Table 1) forming an R22(8) ring motif. In the crystal structure, the molecules stabilized by intermolecular N—H···O hydrogen bonds (Table 1) and π-π interactions with Cg1—Cg2 = 3.661 (2)Å (Cg1 = N1/C8-C12, Cg2 = C1-C6).