Literature DB >> 21579496

2-Amino-5-chloro-pyridinium salicylate.

Madhukar Hemamalini1, Hoong-Kun Fun.   

Abstract

In the crystal structure of the title salt, C(n class="Chemical">5)H(6)ClN(2) (+)·C(7)H(5)O(3) (-), the protonated N atom and the 2-amino group of the cation are hydrogen bonded to the carboxyl-ate O atoms via a pair of N-H⋯O hydrogen bonds, forming R(2) (2)(8) ring motifs. These motifs are centrosymmetrically paired via N-H⋯O hydrogen bonds, forming a complementary donor-donor-acceptor-acceptor (DDAA) array. A typical intra-molecular O-H⋯O hydrogen bond is also observed in the salicylate anion. The crystal structure is further stabilized by weak C-H⋯π inter-actions.

Entities:  

Year:  2010        PMID: 21579496      PMCID: PMC2979380          DOI: 10.1107/S1600536810018210

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


Related literature

For 2-amino­pyridines, see: Gellert & Hsu (1988 ▶); Banerjee & Murugavel (2004 ▶); Bis & Zaworotko (2005 ▶); Bis et al. (2006 ▶) and for salicylic acid, see: Cochran (1953 ▶); Singh & Vijayan (1974 ▶); Varughese & Kartha (1982 ▶). For related structures, see: Hemamalini & Fun (2010a ▶,b ▶,c ▶). Pourayoubi et al. (2007 ▶). For n class="Chemical">hydrogen-bond motifs, see: Bernstein et al. (1995 ▶) and for hydrogen-bonding patterns in organic salts, see: Baskar Raj et al. (2003 ▶). For bond-length data, see: Allen et al. (1987 ▶). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C5H6ClN2n class="Chemical">C7H5O3 − M = 266.68 Monoclinic, a = 6.7403 (6) Å b = 14.5574 (12) Å c = 13.2857 (9) Å β = 115.550 (4)° V = 1176.13 (16) Å3 Z = 4 Mo Kα radiation μ = 0.33 mm−1 T = 100 K 0.38 × 0.34 × 0.23 mm

Data collection

Bruker APEXII DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.887, T max = 0.929 19132 measured reflections 5144 independent reflections 4405 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.035 wR(F 2) = 0.124 S = 1.17 5144 reflections 164 parameters H-atom parameters constrained Δρmax = 0.66 e Å−3 Δρmin = −0.43 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 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810018210/sj5004sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810018210/sj5004Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H6ClN2+·C7H5O3F(000) = 552
Mr = 266.68Dx = 1.506 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 8071 reflections
a = 6.7403 (6) Åθ = 2.8–35.0°
b = 14.5574 (12) ŵ = 0.33 mm1
c = 13.2857 (9) ÅT = 100 K
β = 115.550 (4)°Block, colourless
V = 1176.13 (16) Å30.38 × 0.34 × 0.23 mm
Z = 4
Bruker APEXII DUO CCD area-detector diffractometer5144 independent reflections
Radiation source: fine-focus sealed tube4405 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 35.1°, θmin = 2.2°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −10→9
Tmin = 0.887, Tmax = 0.929k = −23→23
19132 measured reflectionsl = −21→21
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.035Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.124H-atom parameters constrained
S = 1.17w = 1/[σ2(Fo2) + (0.0671P)2 + 0.2275P] where P = (Fo2 + 2Fc2)/3
5144 reflections(Δ/σ)max = 0.001
164 parametersΔρmax = 0.66 e Å3
0 restraintsΔρmin = −0.43 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 s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
Cl1−0.19050 (4)0.904645 (18)0.14133 (2)0.02103 (8)
N10.41620 (13)0.90963 (5)0.37992 (7)0.01402 (14)
H10.48270.88880.44690.017*
N20.74627 (14)0.97248 (6)0.40024 (7)0.01929 (16)
H2A0.80720.95140.46720.023*
H2B0.82291.00300.37410.023*
C10.19743 (15)0.89260 (6)0.32167 (8)0.01479 (15)
H1A0.12250.85950.35440.018*
C20.08837 (15)0.92433 (7)0.21489 (7)0.01471 (15)
C30.20331 (15)0.97455 (7)0.16657 (7)0.01588 (15)
H30.12980.99650.09400.019*
C40.42261 (15)0.99101 (7)0.22608 (7)0.01550 (15)
H40.49921.02380.19410.019*
C50.53371 (15)0.95784 (6)0.33713 (7)0.01379 (15)
O10.56169 (12)0.72179 (6)0.25181 (6)0.01955 (15)
H1B0.52990.70700.18710.029*
O20.62190 (11)0.65244 (5)0.09104 (6)0.01729 (14)
O30.95143 (13)0.59845 (5)0.11872 (6)0.01772 (14)
C70.77978 (15)0.70954 (6)0.31440 (7)0.01377 (15)
C80.86682 (17)0.73401 (7)0.42726 (8)0.01670 (16)
H80.77540.75830.45670.020*
C91.08961 (17)0.72202 (7)0.49541 (8)0.01810 (17)
H91.14640.73800.57040.022*
C101.22897 (16)0.68615 (7)0.45190 (8)0.01796 (17)
H101.37820.67870.49750.022*
C111.14261 (15)0.66179 (6)0.34034 (8)0.01524 (15)
H111.23530.63820.31130.018*
C120.91805 (14)0.67199 (6)0.27039 (7)0.01249 (14)
C130.82718 (15)0.63875 (6)0.15205 (7)0.01318 (15)
U11U22U33U12U13U23
Cl10.01164 (11)0.02568 (13)0.02128 (12)−0.00140 (7)0.00287 (8)−0.00279 (8)
N10.0125 (3)0.0153 (3)0.0128 (3)−0.0010 (2)0.0041 (2)0.0018 (2)
N20.0127 (3)0.0256 (4)0.0160 (3)−0.0046 (3)0.0029 (3)0.0045 (3)
C10.0129 (3)0.0144 (4)0.0164 (4)−0.0011 (3)0.0057 (3)−0.0001 (3)
C20.0116 (3)0.0160 (4)0.0147 (3)−0.0002 (3)0.0039 (3)−0.0016 (3)
C30.0148 (4)0.0178 (4)0.0127 (3)0.0013 (3)0.0038 (3)0.0009 (3)
C40.0150 (4)0.0173 (4)0.0136 (3)−0.0003 (3)0.0056 (3)0.0025 (3)
C50.0122 (3)0.0149 (4)0.0131 (3)−0.0006 (3)0.0044 (3)0.0007 (3)
O10.0123 (3)0.0292 (4)0.0164 (3)0.0026 (2)0.0054 (2)−0.0033 (3)
O20.0128 (3)0.0237 (3)0.0128 (3)0.0018 (2)0.0031 (2)−0.0024 (2)
O30.0176 (3)0.0215 (3)0.0145 (3)0.0046 (2)0.0074 (3)−0.0015 (2)
C70.0133 (3)0.0146 (3)0.0134 (3)−0.0001 (3)0.0057 (3)−0.0004 (3)
C80.0184 (4)0.0189 (4)0.0139 (3)0.0001 (3)0.0079 (3)−0.0016 (3)
C90.0209 (4)0.0187 (4)0.0117 (3)−0.0012 (3)0.0042 (3)−0.0008 (3)
C100.0158 (4)0.0181 (4)0.0150 (4)0.0010 (3)0.0019 (3)0.0000 (3)
C110.0133 (3)0.0153 (4)0.0155 (3)0.0012 (3)0.0047 (3)−0.0005 (3)
C120.0123 (3)0.0130 (3)0.0116 (3)0.0004 (3)0.0047 (3)−0.0001 (3)
C130.0138 (3)0.0135 (3)0.0118 (3)0.0004 (3)0.0052 (3)0.0004 (3)
Cl1—C21.7280 (9)O1—H1B0.8200
N1—C51.3534 (12)O2—C131.2821 (11)
N1—C11.3603 (12)O3—C131.2496 (11)
N1—H10.8600C7—C81.4002 (13)
N2—C51.3285 (12)C7—C121.4069 (12)
N2—H2A0.8600C8—C91.3901 (14)
N2—H2B0.8600C8—H80.9300
C1—C21.3662 (13)C9—C101.3992 (14)
C1—H1A0.9300C9—H90.9300
C2—C31.4057 (13)C10—C111.3846 (13)
C3—C41.3635 (13)C10—H100.9300
C3—H30.9300C11—C121.4012 (13)
C4—C51.4204 (12)C11—H110.9300
C4—H40.9300C12—C131.5001 (12)
O1—C71.3527 (11)
C5—N1—C1122.87 (8)O1—C7—C8117.84 (8)
C5—N1—H1118.6O1—C7—C12122.33 (8)
C1—N1—H1118.6C8—C7—C12119.81 (8)
C5—N2—H2A120.0C9—C8—C7120.10 (8)
C5—N2—H2B120.0C9—C8—H8119.9
H2A—N2—H2B120.0C7—C8—H8119.9
N1—C1—C2119.66 (8)C8—C9—C10120.45 (8)
N1—C1—H1A120.2C8—C9—H9119.8
C2—C1—H1A120.2C10—C9—H9119.8
C1—C2—C3119.63 (8)C11—C10—C9119.39 (9)
C1—C2—Cl1119.87 (7)C11—C10—H10120.3
C3—C2—Cl1120.48 (7)C9—C10—H10120.3
C4—C3—C2119.98 (8)C10—C11—C12121.20 (8)
C4—C3—H3120.0C10—C11—H11119.4
C2—C3—H3120.0C12—C11—H11119.4
C3—C4—C5119.78 (8)C11—C12—C7119.03 (8)
C3—C4—H4120.1C11—C12—C13119.80 (8)
C5—C4—H4120.1C7—C12—C13121.11 (8)
N2—C5—N1119.03 (8)O3—C13—O2123.67 (8)
N2—C5—C4122.89 (8)O3—C13—C12119.32 (8)
N1—C5—C4118.08 (8)O2—C13—C12117.00 (7)
C7—O1—H1B109.5
C5—N1—C1—C20.46 (14)C8—C9—C10—C11−0.61 (15)
N1—C1—C2—C3−0.25 (14)C9—C10—C11—C12−0.31 (15)
N1—C1—C2—Cl1−178.88 (7)C10—C11—C12—C71.35 (14)
C1—C2—C3—C40.27 (14)C10—C11—C12—C13−175.67 (9)
Cl1—C2—C3—C4178.89 (7)O1—C7—C12—C11179.72 (8)
C2—C3—C4—C5−0.47 (14)C8—C7—C12—C11−1.48 (13)
C1—N1—C5—N2179.07 (9)O1—C7—C12—C13−3.30 (14)
C1—N1—C5—C4−0.64 (13)C8—C7—C12—C13175.51 (8)
C3—C4—C5—N2−179.05 (9)C11—C12—C13—O33.25 (13)
C3—C4—C5—N10.64 (13)C7—C12—C13—O3−173.71 (8)
O1—C7—C8—C9179.44 (9)C11—C12—C13—O2−177.95 (8)
C12—C7—C8—C90.58 (14)C7—C12—C13—O25.09 (13)
C7—C8—C9—C100.47 (15)
Cg1 is the centroid of the C7–C12 ring.
D—H···AD—HH···AD···AD—H···A
N1—H1···O2i0.861.832.6928 (10)178
O1—H1B···O20.821.822.5483 (11)147
N2—H2A···O3i0.861.962.8181 (11)178
N2—H2B···O3ii0.862.032.8321 (13)154
C1—H1A···Cg1iii0.932.573.3680 (11)144
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroid of the C7–C12 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O2i0.861.832.6928 (10)178
O1—H1B⋯O20.821.822.5483 (11)147
N2—H2A⋯O3i0.861.962.8181 (11)178
N2—H2B⋯O3ii0.862.032.8321 (13)154
C1—H1ACg1iii0.932.573.3680 (11)144

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

  6 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-Aminopyridinium salicylate.

Authors:  R W Gellert; I N Hsu
Journal:  Acta Crystallogr C       Date:  1988-02-15       Impact factor: 1.172

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

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-02-06

4.  2-Amino-5-chloro-pyridinium trifluoro-acetate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-03-10

5.  2-Amino-5-chloro-pyridinium hydrogen succinate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-01-30

6.  Structure validation in chemical crystallography.

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

1.  4-Amino-pyridinium 2-hy-droxy-benzoate.

Authors:  Hoong-Kun Fun; Madhukar Hemamalini; Venkatachalam Rajakannan
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-07-14

2.  2-Amino-5-chloro-pyridinium 6-oxo-1,6-dihydro-pyridine-2-carboxyl-ate 0.85-hydrate.

Authors:  Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-08-18

3.  Cyclo-benzaprinium salicylate.

Authors:  Hoong-Kun Fun; Chin Sing Yeap; M S Siddegowda; H S Yathirajan; B Narayana
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-06-04

4.  Acridinium 2-hy-droxy-benzoate.

Authors:  Hossein Eshtiagh-Hosseini; Azam Hassanpoor; Masoud Mirzaei; Ali R Salimi
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-10-31

5.  2-Amino-pyridinium 2-meth-oxy-carbonyl-4,6-dinitro-phenolate.

Authors:  Dong-Liang Wu; Zi-Jing Xiao
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-12-14

6.  Bis(2,3-diamino-pyridinium) phthalate dihydrate.

Authors:  Madhukar Hemamalini; Jia Hao Goh; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-01-14
  6 in total

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