Literature DB >> 21580410

2-Amino-5-methyl-pyridinium nicotinate.

Madhukar Hemamalini1, Hoong-Kun Fun.   

Abstract

In the title compound, C(6)H(9)N(2) (+)·C(6)H(4)NO(2) (-), the 2-amino-5-methyl-pyridinium cation is essentially planar, with a maximum deviation of 0.023 (2) Å. In the crystal, the cations and anions are linked via strong N-H⋯O hydrogen bonds, forming a two dimensional network parallel to (100). In addition, π⋯π inter-actions involving the pyridinium and pyridine rings, with centroid-centroid distances of 3.6383 (8) Å, are observed.

Entities:  

Year:  2010        PMID: 21580410      PMCID: PMC2983647          DOI: 10.1107/S1600536810005970

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 nicotinic acid, see: Athimoolam & Rajaram (2005 ▶); Lorenzen et al. (2001 ▶); Gielen et al. (1992 ▶); Kim et al. (2004 ▶). For a related structure, see: Nahringbauer & Kvick (1977 ▶). 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

C6H9N2 +·C6H4NO2 M = 231.25 Monoclinic, a = 9.4877 (3) Å b = 11.1403 (3) Å c = 11.7611 (3) Å β = 110.113 (2)° V = 1167.29 (6) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 296 K 0.63 × 0.11 × 0.11 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.944, T max = 0.990 14482 measured reflections 3870 independent reflections 2240 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.050 wR(F 2) = 0.144 S = 1.05 3870 reflections 195 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.20 e Å−3 Δρmin = −0.20 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/S1600536810005970/sj2728sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810005970/sj2728Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H9N2+·C6H4NO2F(000) = 488
Mr = 231.25Dx = 1.316 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 4062 reflections
a = 9.4877 (3) Åθ = 2.6–26.7°
b = 11.1403 (3) ŵ = 0.09 mm1
c = 11.7611 (3) ÅT = 296 K
β = 110.113 (2)°Needle, colourless
V = 1167.29 (6) Å30.63 × 0.11 × 0.11 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer3870 independent reflections
Radiation source: fine-focus sealed tube2240 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 31.6°, θmin = 2.3°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −13→13
Tmin = 0.944, Tmax = 0.990k = −15→16
14482 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)] = 0.050Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.144H atoms treated by a mixture of independent and constrained refinement
S = 1.05w = 1/[σ2(Fo2) + (0.0668P)2 + 0.0299P] where P = (Fo2 + 2Fc2)/3
3870 reflections(Δ/σ)max < 0.001
195 parametersΔρmax = 0.20 e Å3
0 restraintsΔρmin = −0.20 e Å3
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
N10.02188 (12)0.19316 (10)0.05859 (9)0.0442 (3)
N2−0.10328 (14)0.22434 (12)0.19337 (12)0.0585 (3)
C1−0.00012 (14)0.16474 (11)0.16305 (10)0.0442 (3)
C20.08966 (14)0.07300 (12)0.23423 (12)0.0491 (3)
C30.19225 (14)0.01646 (12)0.19651 (12)0.0503 (3)
C40.21339 (13)0.04715 (12)0.08710 (11)0.0478 (3)
C50.12592 (14)0.13727 (12)0.02171 (11)0.0459 (3)
C60.33142 (17)−0.01226 (17)0.04856 (14)0.0688 (4)
H6A0.33130.0225−0.02620.103*
H6B0.3105−0.09660.03730.103*
H6C0.4280−0.00070.10980.103*
O10.72673 (12)0.39748 (10)1.02919 (8)0.0659 (3)
O20.86277 (12)0.36701 (9)0.91118 (8)0.0617 (3)
N30.68920 (14)0.67197 (11)0.70931 (11)0.0599 (3)
C70.58423 (16)0.73306 (14)0.73619 (15)0.0627 (4)
C80.53402 (17)0.70341 (14)0.82858 (16)0.0661 (4)
C90.59378 (16)0.60379 (13)0.89864 (14)0.0559 (4)
C100.70147 (13)0.53689 (11)0.87228 (11)0.0434 (3)
C110.74469 (15)0.57565 (12)0.77763 (12)0.0514 (3)
C120.76845 (14)0.42525 (11)0.94349 (11)0.0462 (3)
H2A0.0757 (14)0.0528 (11)0.3103 (13)0.053 (4)*
H3A0.2576 (15)−0.0480 (13)0.2476 (13)0.059 (4)*
H5A0.1359 (14)0.1651 (11)−0.0511 (12)0.047 (3)*
H7A0.5424 (18)0.8056 (15)0.6832 (15)0.076 (5)*
H8A0.458 (2)0.7512 (15)0.8436 (15)0.082 (5)*
H9A0.5651 (16)0.5825 (13)0.9650 (15)0.069 (5)*
H11A0.8211 (16)0.5323 (13)0.7567 (12)0.061 (4)*
H1N1−0.0397 (17)0.2561 (14)0.0051 (14)0.069 (4)*
H1N2−0.1231 (16)0.1988 (13)0.2573 (15)0.065 (4)*
H2N2−0.159 (2)0.2841 (16)0.1413 (16)0.081 (5)*
U11U22U33U12U13U23
N10.0485 (5)0.0474 (6)0.0391 (5)0.0001 (5)0.0180 (4)0.0027 (5)
N20.0715 (8)0.0654 (8)0.0503 (6)0.0121 (6)0.0358 (6)0.0098 (6)
C10.0494 (6)0.0474 (7)0.0389 (6)−0.0066 (5)0.0191 (5)−0.0013 (5)
C20.0515 (7)0.0553 (8)0.0425 (6)−0.0048 (6)0.0186 (5)0.0082 (6)
C30.0462 (7)0.0532 (8)0.0502 (7)−0.0018 (6)0.0150 (6)0.0085 (6)
C40.0437 (6)0.0549 (8)0.0461 (7)−0.0036 (6)0.0171 (5)−0.0009 (6)
C50.0468 (7)0.0558 (8)0.0380 (6)−0.0039 (6)0.0183 (5)0.0002 (6)
C60.0611 (8)0.0880 (11)0.0618 (9)0.0186 (8)0.0268 (7)0.0076 (8)
O10.0818 (7)0.0743 (7)0.0557 (6)0.0160 (5)0.0417 (5)0.0135 (5)
O20.0788 (6)0.0671 (6)0.0499 (5)0.0249 (5)0.0358 (5)0.0115 (4)
N30.0668 (7)0.0543 (7)0.0576 (7)0.0011 (6)0.0199 (6)0.0071 (6)
C70.0590 (8)0.0479 (8)0.0726 (10)−0.0014 (7)0.0117 (7)0.0052 (7)
C80.0556 (8)0.0504 (8)0.0954 (12)0.0041 (7)0.0299 (8)−0.0050 (8)
C90.0571 (8)0.0506 (8)0.0680 (9)−0.0019 (6)0.0318 (7)−0.0043 (7)
C100.0427 (6)0.0455 (7)0.0425 (6)−0.0028 (5)0.0154 (5)−0.0048 (5)
C110.0545 (7)0.0530 (8)0.0495 (7)0.0018 (6)0.0214 (6)0.0005 (6)
C120.0519 (7)0.0514 (8)0.0376 (6)0.0001 (6)0.0185 (5)−0.0050 (5)
N1—C11.3526 (14)C6—H6B0.9600
N1—C51.3582 (16)C6—H6C0.9600
N1—H1N10.988 (16)O1—C121.2420 (14)
N2—C11.3289 (17)O2—C121.2650 (15)
N2—H1N20.883 (16)N3—C71.331 (2)
N2—H2N20.936 (19)N3—C111.3354 (17)
C1—C21.4073 (18)C7—C81.368 (2)
C2—C31.3558 (18)C7—H7A1.015 (17)
C2—H2A0.974 (14)C8—C91.382 (2)
C3—C41.4108 (18)C8—H8A0.964 (18)
C3—H3A1.002 (14)C9—C101.3832 (18)
C4—C51.3598 (18)C9—H9A0.941 (16)
C4—C61.4989 (19)C10—C111.3812 (17)
C5—H5A0.946 (13)C10—C121.5121 (18)
C6—H6A0.9600C11—H11A0.970 (15)
C1—N1—C5122.61 (11)H6A—C6—H6B109.5
C1—N1—H1N1120.1 (8)C4—C6—H6C109.5
C5—N1—H1N1117.3 (8)H6A—C6—H6C109.5
C1—N2—H1N2117.4 (10)H6B—C6—H6C109.5
C1—N2—H2N2119.0 (10)C7—N3—C11116.12 (13)
H1N2—N2—H2N2123.2 (14)N3—C7—C8123.94 (14)
N2—C1—N1118.99 (12)N3—C7—H7A115.3 (9)
N2—C1—C2123.65 (11)C8—C7—H7A120.7 (9)
N1—C1—C2117.35 (11)C7—C8—C9118.93 (14)
C3—C2—C1119.90 (12)C7—C8—H8A120.1 (10)
C3—C2—H2A122.2 (7)C9—C8—H8A120.9 (10)
C1—C2—H2A117.9 (7)C8—C9—C10118.82 (14)
C2—C3—C4121.95 (13)C8—C9—H9A121.4 (9)
C2—C3—H3A120.2 (8)C10—C9—H9A119.8 (9)
C4—C3—H3A117.9 (8)C11—C10—C9117.33 (13)
C5—C4—C3116.37 (12)C11—C10—C12121.26 (11)
C5—C4—C6121.94 (12)C9—C10—C12121.41 (12)
C3—C4—C6121.61 (12)N3—C11—C10124.84 (13)
N1—C5—C4121.81 (12)N3—C11—H11A114.9 (8)
N1—C5—H5A116.7 (8)C10—C11—H11A120.2 (8)
C4—C5—H5A121.5 (8)O1—C12—O2124.88 (12)
C4—C6—H6A109.5O1—C12—C10117.64 (11)
C4—C6—H6B109.5O2—C12—C10117.48 (10)
C5—N1—C1—N2179.41 (11)N3—C7—C8—C9−0.5 (2)
C5—N1—C1—C2−0.22 (18)C7—C8—C9—C10−0.5 (2)
N2—C1—C2—C3179.87 (12)C8—C9—C10—C111.1 (2)
N1—C1—C2—C3−0.52 (18)C8—C9—C10—C12−178.48 (12)
C1—C2—C3—C40.4 (2)C7—N3—C11—C10−0.3 (2)
C2—C3—C4—C50.46 (19)C9—C10—C11—N3−0.7 (2)
C2—C3—C4—C6177.42 (13)C12—C10—C11—N3178.87 (12)
C1—N1—C5—C41.14 (19)C11—C10—C12—O1178.34 (12)
C3—C4—C5—N1−1.21 (18)C9—C10—C12—O1−2.15 (19)
C6—C4—C5—N1−178.16 (12)C11—C10—C12—O2−1.73 (19)
C11—N3—C7—C80.9 (2)C9—C10—C12—O2177.79 (12)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O2i0.988 (16)1.703 (16)2.6899 (15)176.8 (16)
N2—H1N2···O2ii0.883 (16)1.999 (16)2.8756 (17)171.7 (15)
N2—H2N2···O1i0.936 (18)1.878 (18)2.8122 (17)176.6 (17)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N1⋯O2i0.988 (16)1.703 (16)2.6899 (15)176.8 (16)
N2—H1N2⋯O2ii0.883 (16)1.999 (16)2.8756 (17)171.7 (15)
N2—H2N2⋯O1i0.936 (18)1.878 (18)2.8122 (17)176.6 (17)

Symmetry codes: (i) ; (ii) .

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3.  Characterization of a G protein-coupled receptor for nicotinic acid.

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

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Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-05-29

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

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