Literature DB >> 23476392

2-Amino-5-methyl-pyridinium 4-chloro-benzoate.

Kaliyaperumal Thanigaimani1, Abbas Farhadikoutenaei, Suhana Arshad, Ibrahim Abdul Razak.   

Abstract

The 4-chloro-benzoate anion of the title salt, C6H9N2(+)·C7H4ClO2(-), is nearly planar with a dihedral angle of 5.14 (16)° between the benzene ring and the carboxyl-ate group. In the crystal, the protonated N atom and the 2-amino group of the cation are hydrogen bonded to the carboxyl-ate O atoms of the anion via a pair of N-H⋯O hydrogen bonds with an R2(2)(8) ring motif. The ion pairs are further connected via N-H⋯O and weak C-H⋯O hydrogen bonds, forming a two-dimensional network parallel to the bc plane. The crystal structure also features a π-π stacking inter-action between the pyridinium and benzene rings with a centroid-centroid distance of 3.7948 (9) Å.

Entities:  

Year:  2012        PMID: 23476392      PMCID: PMC3588320          DOI: 10.1107/S1600536812051021

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For background to the chemistry of substituted pyridines, see: Pozharski et al. (1997 ▶); Katritzky et al. (1996 ▶). For 4-chloro­benzoic acid, see: Dionysiou et al. (2000 ▶). For details of hydrogen-bonded supra­molecular compounds, see: Aakeroy et al. (2002 ▶). For related structures, see: Nahringbauer & Kvick (1977 ▶); Thanigaimani et al. (2012a ▶,b ▶,c ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C6H9N2C7H4ClO2 M = 264.70 Monoclinic, a = 9.8510 (6) Å b = 10.7707 (8) Å c = 12.2123 (7) Å β = 102.335 (2)° V = 1265.84 (14) Å3 Z = 4 Mo Kα radiation μ = 0.30 mm−1 T = 297 K 0.46 × 0.25 × 0.13 mm

Data collection

Bruker SMART APEXII DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.876, T max = 0.963 17572 measured reflections 4628 independent reflections 2976 reflections with I > 2σ(I) R int = 0.034

Refinement

R[F 2 > 2σ(F 2)] = 0.047 wR(F 2) = 0.139 S = 1.04 4628 reflections 176 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.30 e Å−3 Δρmin = −0.31 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: 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 ▶). Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812051021/is5231sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812051021/is5231Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812051021/is5231Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H9N2+·C7H4ClO2F(000) = 552
Mr = 264.70Dx = 1.389 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3497 reflections
a = 9.8510 (6) Åθ = 2.6–26.9°
b = 10.7707 (8) ŵ = 0.30 mm1
c = 12.2123 (7) ÅT = 297 K
β = 102.335 (2)°Plate, colourless
V = 1265.84 (14) Å30.46 × 0.25 × 0.13 mm
Z = 4
Bruker SMART APEXII DUO CCD area-detector diffractometer4628 independent reflections
Radiation source: fine-focus sealed tube2976 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.034
φ and ω scansθmax = 32.8°, θmin = 2.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −14→15
Tmin = 0.876, Tmax = 0.963k = −16→16
17572 measured reflectionsl = −18→17
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.047Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.139H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.0608P)2 + 0.1513P] where P = (Fo2 + 2Fc2)/3
4628 reflections(Δ/σ)max < 0.001
176 parametersΔρmax = 0.30 e Å3
0 restraintsΔρmin = −0.31 e Å3
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s 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 > σ(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.
xyzUiso*/Ueq
Cl1−0.02173 (5)0.82984 (4)0.23669 (4)0.07093 (17)
O10.41482 (11)0.36071 (10)0.43150 (8)0.0468 (2)
O20.29316 (12)0.37788 (10)0.56405 (8)0.0521 (3)
N10.54982 (12)0.32374 (10)0.06443 (9)0.0384 (2)
N20.44920 (16)0.28252 (14)0.21480 (12)0.0534 (3)
C10.53584 (14)0.34947 (12)0.16960 (11)0.0393 (3)
C20.61705 (15)0.44688 (14)0.22692 (12)0.0462 (3)
H2A0.61040.46720.29960.055*
C30.70468 (15)0.51067 (14)0.17600 (13)0.0490 (3)
H3A0.75810.57430.21480.059*
C40.71723 (14)0.48309 (13)0.06545 (12)0.0452 (3)
C50.63774 (14)0.38868 (13)0.01390 (11)0.0416 (3)
H5A0.64350.3675−0.05880.050*
C60.81460 (18)0.55543 (18)0.01020 (17)0.0643 (4)
H6A0.81370.5209−0.06240.096*
H6B0.90700.55100.05550.096*
H6C0.78530.64060.00220.096*
C70.14475 (15)0.57790 (14)0.46421 (12)0.0449 (3)
H7A0.13230.55100.53380.054*
C80.06266 (16)0.67279 (15)0.40995 (14)0.0530 (4)
H8A−0.00530.70910.44200.064*
C90.08322 (14)0.71276 (13)0.30744 (12)0.0452 (3)
C100.18420 (16)0.66134 (13)0.25949 (12)0.0452 (3)
H10A0.19780.69020.19090.054*
C110.26556 (14)0.56587 (12)0.31472 (11)0.0399 (3)
H11A0.33440.53090.28300.048*
C120.24526 (12)0.52207 (11)0.41692 (10)0.0336 (2)
C130.32454 (13)0.41235 (11)0.47546 (10)0.0356 (3)
H1N10.4981 (19)0.2561 (18)0.0206 (15)0.067 (5)*
H2N20.393 (2)0.227 (2)0.1687 (17)0.075 (6)*
H1N20.4328 (19)0.3062 (17)0.2770 (17)0.060 (5)*
U11U22U33U12U13U23
Cl10.0665 (3)0.0571 (3)0.0817 (3)0.02362 (19)−0.0011 (2)0.0172 (2)
O10.0589 (6)0.0468 (5)0.0353 (5)0.0185 (4)0.0114 (4)0.0030 (4)
O20.0713 (7)0.0503 (6)0.0373 (5)0.0150 (5)0.0171 (5)0.0093 (4)
N10.0453 (6)0.0363 (5)0.0330 (5)0.0000 (4)0.0069 (4)−0.0063 (4)
N20.0695 (8)0.0554 (8)0.0388 (6)−0.0138 (7)0.0196 (6)−0.0123 (6)
C10.0468 (7)0.0369 (6)0.0332 (6)0.0043 (5)0.0063 (5)−0.0056 (5)
C20.0529 (8)0.0457 (7)0.0384 (7)0.0010 (6)0.0060 (6)−0.0134 (6)
C30.0460 (7)0.0418 (7)0.0564 (8)−0.0020 (6)0.0050 (6)−0.0140 (6)
C40.0424 (7)0.0400 (7)0.0532 (8)0.0028 (5)0.0102 (6)−0.0018 (6)
C50.0457 (7)0.0415 (7)0.0380 (6)0.0048 (5)0.0101 (5)−0.0026 (5)
C60.0588 (9)0.0611 (10)0.0768 (12)−0.0101 (8)0.0231 (8)−0.0026 (9)
C70.0498 (7)0.0446 (7)0.0428 (7)0.0064 (6)0.0157 (6)0.0043 (6)
C80.0503 (8)0.0513 (8)0.0608 (9)0.0148 (6)0.0195 (7)0.0036 (7)
C90.0414 (7)0.0365 (6)0.0533 (8)0.0052 (5)−0.0001 (6)0.0030 (6)
C100.0534 (8)0.0405 (7)0.0408 (7)0.0040 (6)0.0083 (6)0.0073 (5)
C110.0442 (6)0.0379 (6)0.0389 (6)0.0053 (5)0.0117 (5)0.0023 (5)
C120.0365 (6)0.0295 (5)0.0330 (6)−0.0017 (4)0.0036 (4)−0.0022 (4)
C130.0453 (6)0.0314 (6)0.0280 (5)0.0013 (5)0.0029 (5)−0.0029 (4)
Cl1—C91.7390 (14)C5—H5A0.9300
O1—C131.2619 (16)C6—H6A0.9600
O2—C131.2436 (16)C6—H6B0.9600
N1—C11.3495 (16)C6—H6C0.9600
N1—C51.3596 (18)C7—C81.382 (2)
N1—H1N10.98 (2)C7—C121.3856 (18)
N2—C11.3245 (19)C7—H7A0.9300
N2—H2N20.92 (2)C8—C91.379 (2)
N2—H1N20.85 (2)C8—H8A0.9300
C1—C21.4113 (19)C9—C101.374 (2)
C2—C31.354 (2)C10—C111.3870 (18)
C2—H2A0.9300C10—H10A0.9300
C3—C41.413 (2)C11—C121.3881 (18)
C3—H3A0.9300C11—H11A0.9300
C4—C51.3539 (19)C12—C131.5097 (16)
C4—C61.503 (2)
C1—N1—C5122.05 (12)C4—C6—H6C109.5
C1—N1—H1N1121.7 (10)H6A—C6—H6C109.5
C5—N1—H1N1116.2 (10)H6B—C6—H6C109.5
C1—N2—H2N2117.2 (12)C8—C7—C12121.22 (13)
C1—N2—H1N2118.2 (13)C8—C7—H7A119.4
H2N2—N2—H1N2122.3 (17)C12—C7—H7A119.4
N2—C1—N1119.39 (13)C9—C8—C7118.80 (13)
N2—C1—C2123.06 (13)C9—C8—H8A120.6
N1—C1—C2117.55 (13)C7—C8—H8A120.6
C3—C2—C1119.92 (13)C10—C9—C8121.41 (13)
C3—C2—H2A120.0C10—C9—Cl1119.23 (12)
C1—C2—H2A120.0C8—C9—Cl1119.36 (11)
C2—C3—C4121.78 (13)C9—C10—C11119.16 (13)
C2—C3—H3A119.1C9—C10—H10A120.4
C4—C3—H3A119.1C11—C10—H10A120.4
C5—C4—C3116.24 (13)C10—C11—C12120.66 (12)
C5—C4—C6122.81 (14)C10—C11—H11A119.7
C3—C4—C6120.95 (14)C12—C11—H11A119.7
C4—C5—N1122.46 (13)C7—C12—C11118.71 (12)
C4—C5—H5A118.8C7—C12—C13119.06 (11)
N1—C5—H5A118.8C11—C12—C13122.18 (11)
C4—C6—H6A109.5O2—C13—O1124.56 (12)
C4—C6—H6B109.5O2—C13—C12116.49 (11)
H6A—C6—H6B109.5O1—C13—C12118.93 (11)
C5—N1—C1—N2−179.57 (13)C7—C8—C9—Cl1178.64 (12)
C5—N1—C1—C2−0.37 (19)C8—C9—C10—C111.0 (2)
N2—C1—C2—C3179.28 (15)Cl1—C9—C10—C11−178.43 (11)
N1—C1—C2—C30.1 (2)C9—C10—C11—C120.3 (2)
C1—C2—C3—C40.4 (2)C8—C7—C12—C112.0 (2)
C2—C3—C4—C5−0.6 (2)C8—C7—C12—C13−175.35 (13)
C2—C3—C4—C6179.69 (15)C10—C11—C12—C7−1.8 (2)
C3—C4—C5—N10.3 (2)C10—C11—C12—C13175.48 (12)
C6—C4—C5—N1−179.95 (14)C7—C12—C13—O20.45 (17)
C1—N1—C5—C40.1 (2)C11—C12—C13—O2−176.81 (12)
C12—C7—C8—C9−0.7 (2)C7—C12—C13—O1179.13 (12)
C7—C8—C9—C10−0.8 (2)C11—C12—C13—O11.87 (18)
D—H···AD—HH···AD···AD—H···A
N2—H1N2···O10.85 (2)2.02 (2)2.8654 (18)174.1 (19)
N1—H1N1···O1i0.98 (2)1.75 (2)2.7255 (14)174.1 (16)
N2—H2N2···O2i0.92 (2)1.83 (2)2.7437 (17)172.7 (18)
C2—H2A···O2ii0.932.403.1459 (18)137
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H1N2⋯O10.85 (2)2.02 (2)2.8654 (18)174.1 (19)
N1—H1N1⋯O1i 0.98 (2)1.75 (2)2.7255 (14)174.1 (16)
N2—H2N2⋯O2i 0.92 (2)1.83 (2)2.7437 (17)172.7 (18)
C2—H2A⋯O2ii 0.932.403.1459 (18)137

Symmetry codes: (i) ; (ii) .

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Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-24

4.  2-Amino-5-methyl-pyridinium 3-chloro-benzoate.

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Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-24

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Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-10

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