Literature DB >> 21579888

2,3-Diamino-pyridinium benzoate benzoic acid solvate.

Madhukar Hemamalini1, Hoong-Kun Fun.   

Abstract

In the title compound, C(5)H(8)N(3) (+)·C(7)H(5)O(2) (-)·C(7)H(6)O(2), the carboxyl and carboxyl-ate groups are twisted away from their attached benzene rings by 10.75 (7) and 20.33 (6)°, respectively. In the crystal structure, the 2,3-diamino-pyridinium cations, benzoate anions and benzoic acid mol-ecules are linked into a two-dimensional network parallel to (001) by O-H⋯O, N-H⋯O and C-H⋯O hydrogen bonds and π-π inter-actions between the pyridinium rings [centroid-centroid distance = 3.4981 (7) Å].

Entities:  

Year:  2010        PMID: 21579888      PMCID: PMC2979855          DOI: 10.1107/S1600536810001443

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


Related literature

For substituted pyridines, see: Pozharski et al. (1997 ▶); Katritzky et al. (1996 ▶). For related structures, see: Fun & Balasubramani (2009 ▶); Balasubramani & Fun (2009a ▶,b ▶). For bond-length data, see: Allen et al. (1987 ▶). For details of hydrogen bonding, see: Jeffrey & Saenger (1991 ▶); Jeffrey (1997 ▶); Scheiner (1997 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C5H8N3 +·C7H5O2 −·C7H6O2 M = 353.37 Monoclinic, a = 12.5822 (2) Å b = 11.0826 (1) Å c = 12.5615 (2) Å β = 96.345 (1)° V = 1740.89 (4) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 110 K 0.38 × 0.18 × 0.13 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.964, T max = 0.988 36881 measured reflections 5104 independent reflections 3848 reflections with I > 2σ(I) R int = 0.037

Refinement

R[F 2 > 2σ(F 2)] = 0.044 wR(F 2) = 0.111 S = 1.05 5104 reflections 259 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.32 e Å−3 Δρmin = −0.22 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810001443/ci5016sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810001443/ci5016Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H8N3+·C7H5O2·C7H6O2F(000) = 744
Mr = 353.37Dx = 1.348 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 9414 reflections
a = 12.5822 (2) Åθ = 2.5–30.0°
b = 11.0826 (1) ŵ = 0.10 mm1
c = 12.5615 (2) ÅT = 110 K
β = 96.345 (1)°Block, orange
V = 1740.89 (4) Å30.38 × 0.18 × 0.13 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer5104 independent reflections
Radiation source: fine-focus sealed tube3848 reflections with I > 2σ(I)
graphiteRint = 0.037
φ and ω scansθmax = 30.1°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −17→16
Tmin = 0.964, Tmax = 0.988k = −15→15
36881 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)] = 0.044Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.111H atoms treated by a mixture of independent and constrained refinement
S = 1.05w = 1/[σ2(Fo2) + (0.0464P)2 + 0.4367P] where P = (Fo2 + 2Fc2)/3
5104 reflections(Δ/σ)max = 0.001
259 parametersΔρmax = 0.32 e Å3
0 restraintsΔρmin = −0.22 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
O1A0.85851 (7)0.85383 (8)0.03377 (7)0.0290 (2)
O2A0.95927 (7)0.88574 (8)−0.09759 (6)0.02659 (19)
C1A0.74939 (10)1.07373 (11)−0.01140 (9)0.0281 (3)
H1AA0.74941.04340.05760.034*
C2A0.68601 (11)1.17233 (12)−0.04363 (11)0.0335 (3)
H2AA0.64551.20970.00450.040*
C3A0.68306 (10)1.21522 (12)−0.14752 (11)0.0336 (3)
H3AA0.63931.2801−0.16970.040*
C4A0.74514 (11)1.16156 (13)−0.21788 (10)0.0348 (3)
H4AA0.74261.1899−0.28780.042*
C5A0.81149 (10)1.06528 (11)−0.18501 (9)0.0274 (3)
H5AA0.85491.0312−0.23220.033*
C6A0.81306 (9)1.01987 (10)−0.08187 (8)0.0214 (2)
C7A0.88181 (9)0.91288 (10)−0.04745 (8)0.0222 (2)
N11.05200 (8)0.68618 (9)0.02224 (8)0.0237 (2)
N20.98632 (9)0.70123 (10)0.18620 (9)0.0278 (2)
N31.10673 (10)0.49546 (11)0.25569 (9)0.0336 (3)
C81.04742 (9)0.64369 (10)0.12201 (9)0.0221 (2)
C91.10929 (9)0.53927 (10)0.15432 (9)0.0224 (2)
C101.16824 (9)0.48674 (10)0.08034 (9)0.0244 (2)
H10A1.20800.41770.09920.029*
C111.16949 (10)0.53516 (11)−0.02261 (9)0.0268 (3)
H11A1.21010.4992−0.07140.032*
C121.11068 (10)0.63515 (11)−0.05016 (9)0.0264 (3)
H12A1.11060.6685−0.11810.032*
O1B0.69229 (8)0.72978 (9)0.06840 (7)0.0321 (2)
O2B0.75274 (7)0.77725 (8)0.23701 (7)0.0310 (2)
C1B0.54529 (11)0.56665 (13)0.13724 (12)0.0364 (3)
H1BA0.55780.56370.06570.044*
C2B0.46748 (12)0.49389 (14)0.17377 (15)0.0485 (4)
H2BA0.42810.44170.12670.058*
C3B0.44829 (13)0.49857 (14)0.27941 (15)0.0501 (4)
H3BA0.39530.45030.30330.060*
C4B0.50734 (12)0.57449 (14)0.34983 (13)0.0443 (4)
H4BA0.49430.57710.42120.053*
C5B0.58609 (11)0.64699 (12)0.31465 (10)0.0315 (3)
H5BA0.62640.69750.36250.038*
C6B0.60470 (9)0.64412 (10)0.20783 (9)0.0254 (2)
C7B0.69011 (9)0.72314 (10)0.17338 (9)0.0235 (2)
H1OB0.7482 (18)0.7795 (19)0.0545 (17)0.076 (6)*
H1N11.0151 (13)0.7519 (15)0.0012 (13)0.038 (4)*
H1N20.9746 (13)0.6707 (15)0.2475 (14)0.041 (4)*
H2N20.9452 (13)0.7586 (15)0.1570 (13)0.045 (5)*
H1N31.0666 (13)0.5270 (14)0.3014 (13)0.040 (4)*
H2N31.1455 (13)0.4331 (15)0.2731 (12)0.038 (4)*
U11U22U33U12U13U23
O1A0.0312 (5)0.0296 (5)0.0266 (4)0.0009 (4)0.0050 (3)0.0098 (3)
O2A0.0266 (4)0.0268 (4)0.0270 (4)0.0029 (3)0.0057 (3)0.0008 (3)
C1A0.0294 (6)0.0309 (6)0.0243 (5)0.0016 (5)0.0045 (5)0.0020 (5)
C2A0.0297 (7)0.0330 (7)0.0385 (7)0.0051 (5)0.0060 (5)−0.0029 (5)
C3A0.0282 (7)0.0274 (6)0.0445 (7)0.0048 (5)0.0010 (5)0.0079 (5)
C4A0.0352 (7)0.0379 (7)0.0312 (6)0.0045 (6)0.0031 (5)0.0145 (5)
C5A0.0282 (6)0.0299 (6)0.0246 (5)0.0014 (5)0.0055 (5)0.0051 (4)
C6A0.0208 (5)0.0208 (5)0.0222 (5)−0.0029 (4)0.0005 (4)0.0019 (4)
C7A0.0241 (6)0.0219 (5)0.0200 (5)−0.0019 (4)0.0000 (4)0.0003 (4)
N10.0254 (5)0.0207 (5)0.0248 (5)0.0020 (4)0.0018 (4)0.0014 (4)
N20.0301 (6)0.0265 (5)0.0280 (5)0.0078 (4)0.0082 (4)0.0024 (4)
N30.0418 (7)0.0340 (6)0.0267 (5)0.0160 (5)0.0113 (5)0.0093 (4)
C80.0212 (5)0.0208 (5)0.0241 (5)−0.0012 (4)0.0019 (4)−0.0005 (4)
C90.0221 (6)0.0214 (5)0.0235 (5)−0.0005 (4)0.0018 (4)0.0006 (4)
C100.0239 (6)0.0212 (6)0.0282 (6)0.0029 (4)0.0029 (4)−0.0003 (4)
C110.0285 (6)0.0280 (6)0.0244 (5)0.0016 (5)0.0060 (5)−0.0029 (4)
C120.0302 (6)0.0279 (6)0.0213 (5)−0.0013 (5)0.0041 (4)0.0008 (4)
O1B0.0342 (5)0.0385 (5)0.0237 (4)−0.0063 (4)0.0036 (4)−0.0013 (4)
O2B0.0313 (5)0.0331 (5)0.0284 (4)−0.0075 (4)0.0031 (4)−0.0048 (4)
C1B0.0311 (7)0.0323 (7)0.0451 (8)−0.0034 (6)0.0011 (6)−0.0051 (6)
C2B0.0355 (8)0.0330 (8)0.0760 (11)−0.0094 (6)0.0020 (8)−0.0029 (7)
C3B0.0364 (8)0.0315 (8)0.0845 (12)−0.0028 (6)0.0156 (8)0.0184 (8)
C4B0.0431 (9)0.0413 (8)0.0510 (9)0.0068 (7)0.0166 (7)0.0208 (7)
C5B0.0324 (7)0.0297 (6)0.0326 (6)0.0034 (5)0.0046 (5)0.0074 (5)
C6B0.0230 (6)0.0207 (5)0.0321 (6)0.0033 (5)0.0017 (5)0.0017 (4)
C7B0.0238 (6)0.0214 (5)0.0253 (5)0.0031 (4)0.0026 (4)−0.0017 (4)
O1A—C7A1.2733 (13)C8—C91.4283 (16)
O2A—C7A1.2541 (14)C9—C101.3802 (16)
C1A—C2A1.3866 (18)C10—C111.4018 (16)
C1A—C6A1.3922 (16)C10—H10A0.93
C1A—H1AA0.93C11—C121.3559 (17)
C2A—C3A1.3855 (19)C11—H11A0.93
C2A—H2AA0.93C12—H12A0.93
C3A—C4A1.3775 (19)O1B—C7B1.3241 (14)
C3A—H3AA0.93O1B—H1OB0.93 (2)
C4A—C5A1.3891 (18)O2B—C7B1.2166 (14)
C4A—H4AA0.93C1B—C2B1.385 (2)
C5A—C6A1.3880 (15)C1B—C6B1.3913 (18)
C5A—H5AA0.93C1B—H1BA0.93
C6A—C7A1.5028 (16)C2B—C3B1.376 (2)
N1—C81.3461 (14)C2B—H2BA0.93
N1—C121.3566 (15)C3B—C4B1.377 (2)
N1—H1N10.888 (17)C3B—H3BA0.93
N2—C81.3358 (15)C4B—C5B1.3855 (19)
N2—H1N20.869 (17)C4B—H4BA0.93
N2—H2N20.875 (17)C5B—C6B1.3877 (17)
N3—C91.3665 (15)C5B—H5BA0.93
N3—H1N30.878 (17)C6B—C7B1.4873 (17)
N3—H2N30.860 (17)
C2A—C1A—C6A120.34 (11)N3—C9—C8118.97 (11)
C2A—C1A—H1AA119.8C10—C9—C8117.84 (10)
C6A—C1A—H1AA119.8C9—C10—C11121.42 (11)
C3A—C2A—C1A120.00 (12)C9—C10—H10A119.3
C3A—C2A—H2AA120.0C11—C10—H10A119.3
C1A—C2A—H2AA120.0C12—C11—C10119.13 (11)
C4A—C3A—C2A119.88 (12)C12—C11—H11A120.4
C4A—C3A—H3AA120.1C10—C11—H11A120.4
C2A—C3A—H3AA120.1C11—C12—N1119.45 (11)
C3A—C4A—C5A120.38 (12)C11—C12—H12A120.3
C3A—C4A—H4AA119.8N1—C12—H12A120.3
C5A—C4A—H4AA119.8C7B—O1B—H1OB108.7 (13)
C6A—C5A—C4A120.13 (11)C2B—C1B—C6B119.86 (14)
C6A—C5A—H5AA119.9C2B—C1B—H1BA120.1
C4A—C5A—H5AA119.9C6B—C1B—H1BA120.1
C5A—C6A—C1A119.22 (11)C3B—C2B—C1B120.22 (15)
C5A—C6A—C7A120.19 (10)C3B—C2B—H2BA119.9
C1A—C6A—C7A120.58 (10)C1B—C2B—H2BA119.9
O2A—C7A—O1A122.65 (11)C2B—C3B—C4B120.18 (14)
O2A—C7A—C6A119.96 (10)C2B—C3B—H3BA119.9
O1A—C7A—C6A117.38 (10)C4B—C3B—H3BA119.9
C8—N1—C12124.11 (11)C3B—C4B—C5B120.23 (15)
C8—N1—H1N1119.3 (10)C3B—C4B—H4BA119.9
C12—N1—H1N1116.6 (10)C5B—C4B—H4BA119.9
C8—N2—H1N2121.0 (11)C4B—C5B—C6B119.88 (13)
C8—N2—H2N2116.6 (11)C4B—C5B—H5BA120.1
H1N2—N2—H2N2120.2 (15)C6B—C5B—H5BA120.1
C9—N3—H1N3122.8 (10)C5B—C6B—C1B119.62 (12)
C9—N3—H2N3116.8 (10)C5B—C6B—C7B118.18 (11)
H1N3—N3—H2N3120.3 (14)C1B—C6B—C7B122.19 (11)
N2—C8—N1118.79 (11)O2B—C7B—O1B122.94 (11)
N2—C8—C9123.18 (10)O2B—C7B—C6B122.38 (11)
N1—C8—C9118.03 (10)O1B—C7B—C6B114.68 (10)
N3—C9—C10123.18 (11)
C6A—C1A—C2A—C3A2.2 (2)N3—C9—C10—C11−179.41 (12)
C1A—C2A—C3A—C4A−1.6 (2)C8—C9—C10—C111.28 (17)
C2A—C3A—C4A—C5A−0.6 (2)C9—C10—C11—C12−0.60 (18)
C3A—C4A—C5A—C6A2.1 (2)C10—C11—C12—N10.01 (18)
C4A—C5A—C6A—C1A−1.49 (18)C8—N1—C12—C11−0.18 (18)
C4A—C5A—C6A—C7A177.79 (11)C6B—C1B—C2B—C3B0.4 (2)
C2A—C1A—C6A—C5A−0.64 (18)C1B—C2B—C3B—C4B−0.9 (2)
C2A—C1A—C6A—C7A−179.92 (11)C2B—C3B—C4B—C5B0.3 (2)
C5A—C6A—C7A—O2A20.53 (16)C3B—C4B—C5B—C6B0.7 (2)
C1A—C6A—C7A—O2A−160.20 (11)C4B—C5B—C6B—C1B−1.17 (19)
C5A—C6A—C7A—O1A−160.22 (11)C4B—C5B—C6B—C7B−179.87 (11)
C1A—C6A—C7A—O1A19.05 (16)C2B—C1B—C6B—C5B0.6 (2)
C12—N1—C8—N2−179.66 (11)C2B—C1B—C6B—C7B179.24 (12)
C12—N1—C8—C90.88 (17)C5B—C6B—C7B—O2B9.93 (17)
N2—C8—C9—N3−0.17 (18)C1B—C6B—C7B—O2B−168.74 (12)
N1—C8—C9—N3179.27 (11)C5B—C6B—C7B—O1B−170.02 (11)
N2—C8—C9—C10179.17 (11)C1B—C6B—C7B—O1B11.31 (17)
N1—C8—C9—C10−1.39 (16)
D—H···AD—HH···AD···AD—H···A
O1B—H1OB···O1A0.93 (2)1.66 (2)2.5796 (13)173 (2)
N1—H1N1···O1A0.89 (2)2.35 (2)3.0786 (13)140 (1)
N1—H1N1···O2A0.89 (2)2.01 (2)2.8514 (13)158 (2)
N2—H1N2···O2Ai0.87 (2)2.07 (2)2.9370 (14)173 (2)
N2—H2N2···O1A0.87 (2)2.08 (2)2.9038 (14)157 (2)
N3—H1N3···O2Ai0.88 (2)2.18 (2)3.0543 (15)175 (2)
N3—H2N3···O1Aii0.86 (2)2.59 (2)3.0649 (14)116 (1)
N3—H2N3···O2Bii0.86 (2)2.16 (2)2.9912 (15)162 (1)
C10—H10A···O2Bii0.932.583.3375 (14)138
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1B—H1OB⋯O1A0.93 (2)1.66 (2)2.5796 (13)173 (2)
N1—H1N1⋯O1A0.89 (2)2.35 (2)3.0786 (13)140 (1)
N1—H1N1⋯O2A0.89 (2)2.01 (2)2.8514 (13)158 (2)
N2—H1N2⋯O2Ai0.87 (2)2.07 (2)2.9370 (14)173 (2)
N2—H2N2⋯O1A0.87 (2)2.08 (2)2.9038 (14)157 (2)
N3—H1N3⋯O2Ai0.88 (2)2.18 (2)3.0543 (15)175 (2)
N3—H2N3⋯O1Aii0.86 (2)2.59 (2)3.0649 (14)116 (1)
N3—H2N3⋯O2Bii0.86 (2)2.16 (2)2.9912 (15)162 (1)
C10—H10A⋯O2Bii0.932.583.3375 (14)138

Symmetry codes: (i) ; (ii) .

  5 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.  2,3-Diamino-pyridinium benzoate.

Authors:  Kasthuri Balasubramani; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-06-06

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

Authors:  Kasthuri Balasubramani; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-06-06

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

Authors:  Hoong-Kun Fun; Kasthuri Balasubramani
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-06-06

5.  Structure validation in chemical crystallography.

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

1.  Tramadol hydro-chloride-benzoic acid (1/1).

Authors:  B P Siddaraju; Jerry P Jasinski; James A Golen; H S Yathirajan; C R Raju
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-08-17

2.  Crystal structure of {[2-hy-droxy-2-(3-meth-oxy-phen-yl)cyclo-hex-yl]meth-yl}di-methyl-ammonium benzoate.

Authors:  S N Sheshadri; P Nagendra; B P Siddaraju; K H Hemakumar; K Byrappa; N K Lokanath; S Madan Kumar
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2015-10-17
  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.