Literature DB >> 21582796

2,3-Diamino-pyridinium 4-hydroxy-benzoate.

Hoong-Kun Fun1, Kasthuri Balasubramani.   

Abstract

In the title compound, C(5)H(8)N(3) (+)·C(7)H(5)O(3) (-), the pyridine N atom is protonated. In the 4-hydroxy-benzoate anion, the carboxyl-ate group is twisted slightly out of the benzene ring plane by an angle of 3.77 (5)°. The protonated N atom and one of the two amino groups are hydrogen-bonded to the 4-hydroxy-benzoate anion through a pair of N-H⋯O hydrogen bonds, forming an R(2) (2)(8) ring motif. The crystal structure is further stabilized by O-H⋯O and C-H⋯O hydrogen bonds and π-π inter-actions involving the pyridinium rings [centroid-centroid distance of 3.6277 (5) Å], leading to the formation of a three-dimensional network.

Entities:  

Year:  2009        PMID: 21582796      PMCID: PMC2969455          DOI: 10.1107/S1600536809020832

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


Related literature

For general background to substituted pyridines, see: Pozharski et al. (1997 ▶); Katritzky et al. (1996 ▶). 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 ▶). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C5H8N3C7H5O3 M = 247.25 Monoclinic, a = 10.2915 (2) Å b = 11.4946 (2) Å c = 11.0921 (2) Å β = 112.644 (1)° V = 1211.01 (4) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 100 K 0.51 × 0.39 × 0.14 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.950, T max = 0.986 25821 measured reflections 5296 independent reflections 4257 reflections with I > 2σ(I) R int = 0.034

Refinement

R[F 2 > 2σ(F 2)] = 0.049 wR(F 2) = 0.138 S = 1.04 5296 reflections 215 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.65 e Å−3 Δρmin = −0.19 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); 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/S1600536809020832/ci2813sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809020832/ci2813Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H8N3+·C7H5O3F(000) = 520
Mr = 247.25Dx = 1.356 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 9979 reflections
a = 10.2915 (2) Åθ = 2.7–37.8°
b = 11.4946 (2) ŵ = 0.10 mm1
c = 11.0921 (2) ÅT = 100 K
β = 112.644 (1)°Plate, brown
V = 1211.01 (4) Å30.51 × 0.39 × 0.14 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer5296 independent reflections
Radiation source: fine-focus sealed tube4257 reflections with I > 2σ(I)
graphiteRint = 0.034
φ and ω scansθmax = 35.0°, θmin = 2.1°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −16→16
Tmin = 0.950, Tmax = 0.986k = −16→18
25821 measured reflectionsl = −17→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)] = 0.049Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.138H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.0817P)2 + 0.1673P] where P = (Fo2 + 2Fc2)/3
5296 reflections(Δ/σ)max = 0.001
215 parametersΔρmax = 0.65 e Å3
0 restraintsΔρmin = −0.18 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cyrosystems 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 > 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
O10.45467 (8)0.16900 (6)0.43336 (6)0.02563 (15)
O20.84786 (7)0.61461 (5)0.52034 (5)0.02074 (13)
O30.73136 (6)0.62156 (5)0.30541 (5)0.01784 (12)
N11.01845 (8)0.79427 (6)0.49674 (6)0.01857 (14)
N20.87767 (8)0.81703 (7)0.27844 (7)0.02195 (15)
N31.05767 (9)0.99458 (8)0.25977 (7)0.02666 (17)
C10.57827 (9)0.42070 (7)0.30431 (7)0.01757 (14)
C20.50323 (9)0.32084 (7)0.30618 (7)0.01879 (15)
C30.52248 (9)0.26810 (7)0.42538 (7)0.01899 (15)
C40.61617 (11)0.31656 (8)0.54174 (8)0.02518 (18)
C50.69083 (10)0.41624 (8)0.53881 (7)0.02324 (17)
C60.67313 (8)0.46970 (7)0.41995 (7)0.01604 (14)
C70.75521 (8)0.57533 (6)0.41592 (7)0.01540 (14)
C80.99181 (9)0.84838 (7)0.38181 (7)0.01678 (14)
C91.08674 (9)0.93716 (7)0.37590 (7)0.01803 (15)
C101.20049 (9)0.96332 (8)0.48910 (8)0.02092 (16)
C111.22331 (9)0.90438 (8)0.60700 (8)0.02314 (17)
C121.13117 (10)0.82008 (8)0.60867 (8)0.02224 (17)
H10.5647 (15)0.4565 (11)0.2226 (13)0.031 (3)*
H20.4376 (14)0.2854 (12)0.2229 (13)0.029 (3)*
H40.6280 (18)0.2759 (15)0.6232 (17)0.051 (4)*
H50.7615 (17)0.4479 (13)0.6225 (15)0.039 (4)*
H101.2669 (14)1.0227 (12)0.4848 (12)0.028 (3)*
H111.3091 (16)0.9246 (13)0.6883 (14)0.039 (4)*
H121.1341 (17)0.7745 (14)0.6809 (15)0.043 (4)*
H1N10.9588 (15)0.7391 (12)0.4987 (13)0.031 (3)*
H1N20.8601 (17)0.8454 (12)0.2011 (15)0.033 (3)*
H2N20.8275 (15)0.7565 (12)0.2854 (13)0.027 (3)*
H1N30.9924 (17)0.9660 (13)0.1840 (15)0.040 (4)*
H2N31.1284 (16)1.0365 (12)0.2548 (14)0.034 (3)*
H1O10.3995 (19)0.1445 (15)0.3531 (18)0.051 (5)*
U11U22U33U12U13U23
O10.0299 (3)0.0248 (3)0.0172 (3)−0.0123 (2)0.0034 (2)0.0013 (2)
O20.0238 (3)0.0217 (3)0.0141 (2)−0.0059 (2)0.0044 (2)−0.00153 (19)
O30.0188 (3)0.0178 (3)0.0149 (2)0.0002 (2)0.00434 (19)0.00308 (19)
N10.0200 (3)0.0194 (3)0.0148 (3)−0.0020 (2)0.0051 (2)0.0018 (2)
N20.0232 (3)0.0234 (3)0.0154 (3)−0.0072 (3)0.0031 (2)0.0021 (2)
N30.0284 (4)0.0324 (4)0.0171 (3)−0.0118 (3)0.0065 (3)0.0037 (3)
C10.0190 (3)0.0187 (3)0.0131 (3)−0.0014 (3)0.0041 (2)0.0005 (2)
C20.0198 (4)0.0205 (3)0.0131 (3)−0.0037 (3)0.0031 (2)−0.0007 (2)
C30.0202 (4)0.0199 (3)0.0150 (3)−0.0046 (3)0.0047 (3)−0.0001 (2)
C40.0316 (5)0.0273 (4)0.0130 (3)−0.0114 (3)0.0046 (3)0.0008 (3)
C50.0286 (4)0.0251 (4)0.0131 (3)−0.0099 (3)0.0049 (3)−0.0015 (3)
C60.0173 (3)0.0167 (3)0.0131 (3)−0.0016 (2)0.0048 (2)−0.0007 (2)
C70.0167 (3)0.0152 (3)0.0140 (3)0.0013 (2)0.0055 (2)−0.0002 (2)
C80.0177 (3)0.0174 (3)0.0143 (3)−0.0003 (3)0.0052 (2)0.0001 (2)
C90.0183 (3)0.0204 (3)0.0155 (3)−0.0023 (3)0.0066 (2)0.0000 (2)
C100.0192 (4)0.0249 (4)0.0178 (3)−0.0044 (3)0.0062 (3)−0.0010 (3)
C110.0200 (4)0.0294 (4)0.0166 (3)−0.0029 (3)0.0032 (3)−0.0007 (3)
C120.0230 (4)0.0262 (4)0.0145 (3)−0.0014 (3)0.0038 (3)0.0023 (3)
O1—C31.3565 (10)C2—C31.3976 (11)
O1—H1O10.897 (18)C2—H20.997 (13)
O2—C71.2666 (9)C3—C41.3956 (11)
O3—C71.2702 (9)C4—C51.3869 (12)
N1—C81.3484 (10)C4—H40.982 (17)
N1—C121.3661 (11)C5—C61.4014 (11)
N1—H1N10.888 (15)C5—H51.001 (15)
N2—C81.3369 (10)C6—C71.4896 (11)
N2—H1N20.869 (15)C8—C91.4316 (11)
N2—H2N20.887 (14)C9—C101.3805 (11)
N3—C91.3739 (10)C10—C111.4100 (12)
N3—H1N30.911 (16)C10—H100.981 (14)
N3—H2N30.892 (15)C11—C121.3608 (13)
C1—C21.3881 (11)C11—H111.017 (15)
C1—C61.3969 (10)C12—H120.948 (15)
C1—H10.955 (13)
C3—O1—H1O1110.1 (11)C4—C5—H5119.3 (8)
C8—N1—C12123.47 (7)C6—C5—H5119.9 (9)
C8—N1—H1N1117.5 (9)C1—C6—C5118.61 (7)
C12—N1—H1N1119.1 (9)C1—C6—C7120.33 (6)
C8—N2—H1N2121.7 (10)C5—C6—C7121.05 (7)
C8—N2—H2N2119.1 (9)O2—C7—O3122.08 (7)
H1N2—N2—H2N2118.2 (13)O2—C7—C6119.94 (6)
C9—N3—H1N3120.6 (10)O3—C7—C6117.96 (6)
C9—N3—H2N3115.4 (9)N2—C8—N1118.57 (7)
H1N3—N3—H2N3117.8 (13)N2—C8—C9122.86 (7)
C2—C1—C6121.05 (7)N1—C8—C9118.57 (7)
C2—C1—H1119.4 (8)N3—C9—C10123.40 (8)
C6—C1—H1119.5 (8)N3—C9—C8118.64 (7)
C1—C2—C3119.72 (7)C10—C9—C8117.92 (7)
C1—C2—H2120.4 (8)C9—C10—C11121.27 (8)
C3—C2—H2119.9 (8)C9—C10—H10118.1 (8)
O1—C3—C4117.67 (7)C11—C10—H10120.6 (8)
O1—C3—C2122.47 (7)C12—C11—C10119.12 (8)
C4—C3—C2119.85 (7)C12—C11—H11121.5 (8)
C5—C4—C3119.99 (7)C10—C11—H11119.4 (8)
C5—C4—H4122.8 (10)C11—C12—N1119.65 (7)
C3—C4—H4117.2 (10)C11—C12—H12127.5 (10)
C4—C5—C6120.78 (7)N1—C12—H12112.8 (10)
C6—C1—C2—C3−0.01 (13)C5—C6—C7—O3−178.02 (8)
C1—C2—C3—O1−178.47 (8)C12—N1—C8—N2−179.40 (8)
C1—C2—C3—C40.46 (14)C12—N1—C8—C90.41 (12)
O1—C3—C4—C5178.40 (9)N2—C8—C9—N31.55 (13)
C2—C3—C4—C5−0.57 (15)N1—C8—C9—N3−178.25 (8)
C3—C4—C5—C60.24 (15)N2—C8—C9—C10179.31 (8)
C2—C1—C6—C5−0.32 (13)N1—C8—C9—C10−0.49 (12)
C2—C1—C6—C7178.59 (7)N3—C9—C10—C11177.91 (9)
C4—C5—C6—C10.21 (14)C8—C9—C10—C110.26 (13)
C4—C5—C6—C7−178.70 (9)C9—C10—C11—C120.06 (14)
C1—C6—C7—O2−175.21 (8)C10—C11—C12—N1−0.16 (14)
C5—C6—C7—O23.67 (12)C8—N1—C12—C11−0.08 (13)
C1—C6—C7—O33.09 (11)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O20.89 (2)1.903 (15)2.7874 (9)173 (1)
N2—H2N2···O30.89 (1)1.898 (14)2.7843 (9)176 (1)
N2—H1N2···O2i0.87 (1)2.014 (15)2.8689 (9)168 (1)
N3—H1N3···O2i0.91 (2)2.071 (16)2.9790 (10)174 (1)
N3—H2N3···O3ii0.89 (2)2.057 (15)2.9285 (10)166 (1)
O1—H1O1···O3iii0.90 (2)1.775 (19)2.6595 (8)168 (2)
C2—H2···O3iii1.00 (1)2.500 (14)3.2104 (10)128 (1)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N1⋯O20.89 (2)1.903 (15)2.7874 (9)173 (1)
N2—H2N2⋯O30.89 (1)1.898 (14)2.7843 (9)176 (1)
N2—H1N2⋯O2i0.87 (1)2.014 (15)2.8689 (9)168 (1)
N3—H1N3⋯O2i0.91 (2)2.071 (16)2.9790 (10)174 (1)
N3—H2N3⋯O3ii0.89 (2)2.057 (15)2.9285 (10)166 (1)
O1—H1O1⋯O3iii0.90 (2)1.775 (19)2.6595 (8)168 (2)
C2—H2⋯O3iii1.00 (1)2.500 (14)3.2104 (10)128 (1)

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

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