Literature DB >> 21580381

2-Amino-5-methyl-pyridinium 3-amino-benzoate.

Madhukar Hemamalini1, Hoong-Kun Fun.   

Abstract

In the title compound, C(6)H(9)N(2) (+)·C(7)H(6)n class="Chemical">NO(2) (-), the H atom of the N-H group and an H atom of the 2-amino group from the cation are involved in inter-molecular N-H⋯O hydrogen bonds with the O atoms of the carboxyl-ate group of the anion, forming an R(2) (2)(8) ring motif. These ring motifs are, in turn, connected by further N-H⋯O hydrogen bonds, forming a two-dimensional network. The crystal structure is further stabilized by π⋯π stacking inter-actions involving the benzene and pyridinium rings with a centroid-centroid distance of 3.7594 (8) Å.

Entities:  

Year:  2010        PMID: 21580381      PMCID: PMC2983539          DOI: 10.1107/S1600536810005180

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 related structures, see: n class="Chemical">Nahringbauer & Kvick (1977 ▶); Feng et al. (2005 ▶); Xuan et al. (2003 ▶); Jin et al. (2005 ▶). For details of hydrogen bonding, see: Jeffrey & Saenger (1991 ▶); Jeffrey (1997 ▶); Scheiner (1997 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C6H9N2n class="Chemical">C7H6NO2 − M = 245.28 Monoclinic, a = 10.0739 (2) Å b = 10.9620 (2) Å c = 11.9641 (2) Å β = 113.148 (1)° V = 1214.83 (4) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 296 K 0.72 × 0.34 × 0.13 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.936, T max = 0.988 13305 measured reflections 3541 independent reflections 2576 reflections with I > 2σ(I) R int = 0.029

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.138 S = 1.07 3541 reflections 212 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.20 e Å−3 Δρmin = −0.26 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAIn class="Chemical">NT; 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 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810005180/lh2994sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810005180/lh2994Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H9N2+·C7H6NO2F(000) = 520
Mr = 245.28Dx = 1.341 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3778 reflections
a = 10.0739 (2) Åθ = 2.6–29.9°
b = 10.9620 (2) ŵ = 0.09 mm1
c = 11.9641 (2) ÅT = 296 K
β = 113.148 (1)°Plate, brown
V = 1214.83 (4) Å30.72 × 0.34 × 0.13 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer3541 independent reflections
Radiation source: fine-focus sealed tube2576 reflections with I > 2σ(I)
graphiteRint = 0.029
φ and ω scansθmax = 30.1°, θmin = 2.2°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −10→14
Tmin = 0.936, Tmax = 0.988k = −15→13
13305 measured reflectionsl = −16→16
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.048Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.138H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0676P)2 + 0.1203P] where P = (Fo2 + 2Fc2)/3
3541 reflections(Δ/σ)max = 0.001
212 parametersΔρmax = 0.20 e Å3
0 restraintsΔρmin = −0.26 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) k.
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.
xyzUiso*/Ueq
N10.03024 (11)0.31395 (9)0.56765 (8)0.0363 (2)
N2−0.07229 (13)0.27732 (11)0.70650 (10)0.0477 (3)
C10.12267 (13)0.37351 (11)0.52889 (10)0.0377 (3)
C20.01813 (13)0.34187 (11)0.67327 (10)0.0364 (3)
C30.10505 (14)0.43720 (12)0.74341 (10)0.0418 (3)
C40.19709 (14)0.49686 (12)0.70412 (11)0.0430 (3)
C50.20896 (13)0.46594 (11)0.59348 (10)0.0390 (3)
C60.31252 (16)0.53099 (14)0.55236 (13)0.0546 (4)
H6A0.29790.50450.47190.082*
H6B0.40970.51280.60690.082*
H6C0.29640.61730.55190.082*
O10.74312 (11)0.37847 (9)1.02381 (8)0.0506 (3)
O20.87300 (12)0.35863 (9)0.91200 (8)0.0552 (3)
N30.44474 (16)0.75758 (13)0.87306 (15)0.0620 (4)
C70.61001 (13)0.58920 (11)0.90248 (10)0.0380 (3)
C80.54279 (13)0.69494 (11)0.84017 (11)0.0396 (3)
C90.57809 (14)0.73551 (12)0.74452 (11)0.0415 (3)
C100.67681 (15)0.67294 (12)0.71301 (11)0.0424 (3)
C110.74400 (14)0.56839 (12)0.77538 (10)0.0392 (3)
C120.70967 (12)0.52632 (10)0.87065 (9)0.0343 (3)
C130.78005 (13)0.41271 (11)0.94066 (9)0.0371 (3)
H10.1227 (15)0.3450 (13)0.4509 (14)0.049 (4)*
H30.0993 (15)0.4581 (13)0.8200 (13)0.048 (4)*
H40.2602 (17)0.5628 (15)0.7561 (14)0.061 (4)*
H70.5865 (15)0.5593 (13)0.9703 (13)0.046 (4)*
H90.5270 (16)0.8131 (14)0.6969 (14)0.056 (4)*
H100.7025 (16)0.7023 (13)0.6453 (14)0.053 (4)*
H110.8116 (16)0.5214 (14)0.7520 (13)0.050 (4)*
H1N1−0.0365 (17)0.2494 (16)0.5130 (15)0.062 (5)*
H1N2−0.1357 (17)0.2226 (15)0.6504 (14)0.056 (4)*
H2N2−0.0953 (16)0.3031 (14)0.7699 (15)0.055 (4)*
H1N30.4107 (18)0.7223 (17)0.9247 (17)0.067 (5)*
H2N30.395 (2)0.8179 (18)0.8245 (18)0.077 (6)*
U11U22U33U12U13U23
N10.0421 (5)0.0357 (5)0.0327 (4)−0.0030 (4)0.0163 (4)−0.0047 (4)
N20.0578 (7)0.0513 (7)0.0429 (5)−0.0101 (6)0.0294 (5)−0.0079 (5)
C10.0405 (6)0.0398 (6)0.0341 (5)−0.0004 (5)0.0162 (5)−0.0022 (4)
C20.0412 (6)0.0359 (6)0.0336 (5)0.0034 (5)0.0163 (4)−0.0009 (4)
C30.0457 (7)0.0433 (7)0.0359 (5)0.0016 (6)0.0156 (5)−0.0092 (5)
C40.0420 (7)0.0386 (6)0.0448 (6)−0.0020 (5)0.0132 (5)−0.0103 (5)
C50.0372 (6)0.0371 (6)0.0421 (6)0.0004 (5)0.0148 (5)−0.0003 (5)
C60.0516 (8)0.0563 (9)0.0584 (8)−0.0131 (7)0.0242 (6)−0.0058 (6)
O10.0655 (6)0.0505 (6)0.0456 (5)0.0114 (5)0.0323 (4)0.0126 (4)
O20.0757 (7)0.0558 (6)0.0455 (5)0.0294 (5)0.0362 (5)0.0148 (4)
N30.0660 (9)0.0531 (8)0.0837 (9)0.0201 (7)0.0475 (8)0.0152 (7)
C70.0419 (6)0.0377 (6)0.0380 (5)0.0000 (5)0.0197 (5)0.0003 (5)
C80.0363 (6)0.0370 (6)0.0461 (6)−0.0003 (5)0.0169 (5)−0.0025 (5)
C90.0404 (7)0.0366 (6)0.0441 (6)0.0001 (5)0.0130 (5)0.0053 (5)
C100.0463 (7)0.0442 (7)0.0387 (5)−0.0021 (6)0.0187 (5)0.0062 (5)
C110.0426 (7)0.0414 (7)0.0376 (5)0.0025 (5)0.0200 (5)0.0007 (5)
C120.0378 (6)0.0339 (6)0.0308 (5)−0.0006 (5)0.0130 (4)−0.0014 (4)
C130.0465 (7)0.0354 (6)0.0300 (5)0.0033 (5)0.0156 (4)−0.0008 (4)
N1—C21.3515 (14)O1—C131.2490 (14)
N1—C11.3593 (16)O2—C131.2642 (15)
N1—H1N11.018 (17)N3—C81.3811 (18)
N2—C21.3316 (16)N3—H1N30.904 (19)
N2—H1N20.938 (17)N3—H2N30.89 (2)
N2—H2N20.921 (17)C7—C121.3888 (17)
C1—C51.3607 (17)C7—C81.4003 (17)
C1—H10.984 (15)C7—H70.986 (15)
C2—C31.4090 (17)C8—C91.3977 (18)
C3—C41.3605 (19)C9—C101.3771 (19)
C3—H30.968 (14)C9—H91.040 (16)
C4—C51.4163 (17)C10—C111.3897 (18)
C4—H41.001 (16)C10—H100.995 (15)
C5—C61.4974 (19)C11—C121.3933 (16)
C6—H6A0.9600C11—H110.978 (15)
C6—H6B0.9600C12—C131.5126 (16)
C6—H6C0.9600
C2—N1—C1122.40 (10)H6B—C6—H6C109.5
C2—N1—H1N1118.6 (9)C8—N3—H1N3119.2 (11)
C1—N1—H1N1118.9 (9)C8—N3—H2N3117.7 (13)
C2—N2—H1N2118.7 (10)H1N3—N3—H2N3119.6 (17)
C2—N2—H2N2120.4 (10)C12—C7—C8121.01 (11)
H1N2—N2—H2N2117.6 (13)C12—C7—H7119.6 (8)
N1—C1—C5122.30 (11)C8—C7—H7119.4 (8)
N1—C1—H1115.2 (8)N3—C8—C9121.04 (12)
C5—C1—H1122.5 (8)N3—C8—C7120.67 (12)
N2—C2—N1118.85 (11)C9—C8—C7118.28 (12)
N2—C2—C3123.65 (11)C10—C9—C8120.61 (11)
N1—C2—C3117.48 (11)C10—C9—H9120.8 (9)
C4—C3—C2119.94 (11)C8—C9—H9118.6 (9)
C4—C3—H3121.1 (8)C9—C10—C11121.03 (12)
C2—C3—H3119.0 (8)C9—C10—H10120.6 (9)
C3—C4—C5121.83 (11)C11—C10—H10118.4 (9)
C3—C4—H4119.0 (9)C10—C11—C12119.16 (12)
C5—C4—H4119.1 (9)C10—C11—H11121.8 (8)
C1—C5—C4116.05 (12)C12—C11—H11119.0 (8)
C1—C5—C6122.69 (11)C7—C12—C11119.91 (11)
C4—C5—C6121.25 (11)C7—C12—C13119.26 (10)
C5—C6—H6A109.5C11—C12—C13120.83 (11)
C5—C6—H6B109.5O1—C13—O2124.01 (11)
H6A—C6—H6B109.5O1—C13—C12117.84 (11)
C5—C6—H6C109.5O2—C13—C12118.15 (10)
H6A—C6—H6C109.5
C2—N1—C1—C5−0.37 (18)N3—C8—C9—C10179.50 (12)
C1—N1—C2—N2−178.35 (11)C7—C8—C9—C10−0.18 (18)
C1—N1—C2—C30.48 (17)C8—C9—C10—C11−0.16 (19)
N2—C2—C3—C4178.51 (12)C9—C10—C11—C120.43 (19)
N1—C2—C3—C4−0.26 (18)C8—C7—C12—C110.00 (18)
C2—C3—C4—C5−0.1 (2)C8—C7—C12—C13179.81 (10)
N1—C1—C5—C40.01 (18)C10—C11—C12—C7−0.35 (18)
N1—C1—C5—C6179.17 (12)C10—C11—C12—C13179.84 (11)
C3—C4—C5—C10.20 (19)C7—C12—C13—O11.32 (17)
C3—C4—C5—C6−178.97 (12)C11—C12—C13—O1−178.87 (11)
C12—C7—C8—N3−179.42 (12)C7—C12—C13—O2−178.33 (10)
C12—C7—C8—C90.26 (18)C11—C12—C13—O21.48 (17)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O2i1.017 (17)1.682 (17)2.6901 (14)170.6 (17)
N2—H1N2···O1i0.939 (16)1.886 (16)2.8207 (15)173.3 (14)
N2—H2N2···O2ii0.920 (17)1.947 (17)2.8650 (16)175.3 (16)
N3—H1N3···O1iii0.903 (19)2.18 (2)3.027 (2)156.0 (17)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N1⋯O2i1.017 (17)1.682 (17)2.6901 (14)170.6 (17)
N2—H1N2⋯O1i0.939 (16)1.886 (16)2.8207 (15)173.3 (14)
N2—H2N2⋯O2ii0.920 (17)1.947 (17)2.8650 (16)175.3 (16)
N3—H1N3⋯O1iii0.903 (19)2.18 (2)3.027 (2)156.0 (17)

Symmetry codes: (i) ; (ii) ; (iii) .

  3 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  2-Amino-5-methylpyridinium (2-amino-5-methylpyridine)trichlorozincate(II).

Authors:  Zhi-Min Jin; Bin Tu; Lin He; Mao-Lin Hu; Jian-Wei Zou
Journal:  Acta Crystallogr C       Date:  2005-03-18       Impact factor: 1.172

3.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  3 in total
  5 in total

1.  2-Amino-5-methyl-pyridinium 4-hydroxy-benzoate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-03-27

2.  2-Amino-5-methyl-pyridinium 2-carb-oxy-acetate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-05-29

3.  Bis-(2-amino-5-methyl-pyridinium) fumarate-fumaric acid (1/1).

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-07-24

4.  2-Amino-5-methyl-pyridinium 4-carb-oxy-butano-ate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-06-26

5.  2-Amino-5-methyl-pyridinium 2-amino-benzoate.

Authors:  Kaliyaperumal Thanigaimani; Abbas Farhadikoutenaei; Nuridayanti Che Khalib; Suhana Arshad; Ibrahim Abdul Razak
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-24
  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.