Literature DB >> 21580395

4-Amino-3-ammonio-pyridinium dinitrate.

Madhukar Hemamalini1, Hoong-Kun Fun.   

Abstract

In the crystal structure of the title compound, C(5)H(9)N(3) (2+)·2NO(3) (-), the cations and anions are connected by inter-molecular N-H⋯O and C-H⋯O hydrogen bonds, forming a three-dimensional network. The crystal structure is further stabilized by π⋯π inter-actions between pyridinium rings [centroid-centroid distance = 3.775 (4) Å].

Entities:  

Year:  2010        PMID: 21580395      PMCID: PMC2983652          DOI: 10.1107/S1600536810005556

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 ▶); Abu Zuhri & Cox (1989 ▶). For related structures, see: Fun & Balasubramani (2009 ▶); Rubin-Preminger & Englert (2007 ▶); Qin & Wang (2009 ▶). For details of hydrogen bonding, see: Jeffrey & Saenger (1991 ▶); Jeffrey (1997 ▶); Scheiner (1997 ▶). For reference 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

C5H9N3 2+·2NO3 − M = 235.17 Monoclinic, a = 12.3008 (5) Å b = 10.5086 (5) Å c = 7.1411 (3) Å β = 97.546 (1)° V = 915.09 (7) Å3 Z = 4 Mo Kα radiation μ = 0.16 mm−1 T = 100 K 0.65 × 0.37 × 0.28 mm

Data collection

Bruker APEX DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.906, T max = 0.958 18234 measured reflections 4796 independent reflections 4129 reflections with I > 2σ(I) R int = 0.024

Refinement

R[F 2 > 2σ(F 2)] = 0.033 wR(F 2) = 0.096 S = 1.06 4796 reflections 181 parameters All H-atom parameters refined Δρmax = 0.66 e Å−3 Δρmin = −0.26 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/S1600536810005556/rz2419sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810005556/rz2419Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H9N32+·2NO3F(000) = 488
Mr = 235.17Dx = 1.707 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 9066 reflections
a = 12.3008 (5) Åθ = 3.3–37.5°
b = 10.5086 (5) ŵ = 0.16 mm1
c = 7.1411 (3) ÅT = 100 K
β = 97.546 (1)°Block, colourless
V = 915.09 (7) Å30.65 × 0.37 × 0.28 mm
Z = 4
Bruker APEX DUO CCD area-detector diffractometer4796 independent reflections
Radiation source: fine-focus sealed tube4129 reflections with I > 2σ(I)
graphiteRint = 0.024
φ and ω scansθmax = 37.6°, θmin = 1.7°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −21→20
Tmin = 0.906, Tmax = 0.958k = −17→17
18234 measured reflectionsl = −10→12
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.033Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.096All H-atom parameters refined
S = 1.06w = 1/[σ2(Fo2) + (0.0545P)2 + 0.1242P] where P = (Fo2 + 2Fc2)/3
4796 reflections(Δ/σ)max = 0.001
181 parametersΔρmax = 0.66 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 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
N10.18671 (4)0.78615 (5)0.42895 (7)0.01262 (9)
N20.17802 (4)0.43778 (5)0.39491 (7)0.01067 (8)
N30.39285 (4)0.50229 (5)0.29631 (9)0.01537 (10)
C10.21985 (4)0.56747 (5)0.39298 (8)0.00969 (9)
C20.15309 (5)0.66472 (5)0.43549 (8)0.01097 (9)
C30.28652 (5)0.81587 (6)0.38180 (9)0.01366 (10)
C40.35654 (5)0.72296 (6)0.33967 (9)0.01302 (10)
C50.32559 (5)0.59285 (5)0.34337 (8)0.01084 (9)
N40.07181 (4)0.08353 (5)0.36523 (7)0.01101 (8)
O10.03294 (4)0.19166 (5)0.37605 (8)0.01831 (10)
O20.12811 (4)0.03373 (5)0.50656 (7)0.01704 (9)
O30.05534 (4)0.02013 (5)0.21333 (7)0.01419 (8)
N50.34927 (4)0.17325 (5)0.27032 (7)0.01208 (9)
O40.41357 (4)0.23657 (5)0.38374 (8)0.01818 (9)
O50.25728 (4)0.21885 (5)0.20404 (8)0.01714 (9)
O60.37509 (4)0.06465 (4)0.21848 (7)0.01541 (9)
H20.0849 (9)0.6508 (11)0.4677 (16)0.015 (2)*
H30.3044 (10)0.9065 (11)0.3781 (17)0.019 (3)*
H40.4245 (10)0.7452 (11)0.3072 (17)0.018 (2)*
H1N10.1431 (11)0.8483 (12)0.4515 (19)0.024 (3)*
H1N20.1923 (12)0.3916 (14)0.289 (2)0.036 (3)*
H2N20.1064 (11)0.4422 (13)0.393 (2)0.030 (3)*
H1N30.3832 (12)0.4256 (15)0.325 (2)0.036 (4)*
H2N30.4547 (10)0.5255 (11)0.2771 (18)0.022 (3)*
H3N20.2027 (10)0.3986 (12)0.4994 (17)0.022 (3)*
U11U22U33U12U13U23
N10.0158 (2)0.00975 (18)0.01202 (19)0.00126 (15)0.00078 (15)−0.00025 (14)
N20.01164 (19)0.00934 (17)0.01122 (19)−0.00130 (14)0.00219 (15)−0.00007 (14)
N30.0131 (2)0.0132 (2)0.0209 (2)0.00103 (16)0.00640 (18)0.00051 (17)
C10.01061 (19)0.00874 (19)0.00967 (19)−0.00068 (14)0.00112 (15)0.00042 (15)
C20.0119 (2)0.0106 (2)0.0102 (2)0.00047 (15)0.00092 (16)0.00022 (15)
C30.0177 (2)0.0110 (2)0.0120 (2)−0.00248 (17)0.00083 (18)0.00069 (17)
C40.0137 (2)0.0124 (2)0.0130 (2)−0.00291 (17)0.00193 (17)0.00085 (16)
C50.0109 (2)0.0114 (2)0.0102 (2)−0.00046 (15)0.00145 (16)0.00062 (16)
N40.01104 (18)0.01129 (18)0.01079 (18)0.00072 (14)0.00182 (14)−0.00057 (14)
O10.0205 (2)0.01273 (19)0.0212 (2)0.00626 (15)0.00077 (17)−0.00324 (15)
O20.0227 (2)0.0157 (2)0.01131 (18)0.00386 (16)−0.00316 (16)0.00055 (14)
O30.01560 (19)0.01632 (19)0.01055 (17)0.00110 (14)0.00129 (14)−0.00395 (14)
N50.01301 (19)0.01063 (18)0.0129 (2)−0.00098 (14)0.00270 (15)−0.00080 (14)
O40.0181 (2)0.0161 (2)0.0189 (2)−0.00316 (15)−0.00271 (16)−0.00424 (16)
O50.01401 (19)0.0165 (2)0.0200 (2)0.00356 (15)−0.00103 (15)−0.00464 (16)
O60.0170 (2)0.00960 (17)0.0202 (2)0.00105 (13)0.00446 (16)−0.00208 (14)
N1—C21.3442 (7)C2—H20.910 (11)
N1—C31.3516 (8)C3—C41.3615 (9)
N1—H1N10.873 (13)C3—H30.978 (12)
N2—C11.4575 (7)C4—C51.4205 (8)
N2—H1N20.934 (15)C4—H40.926 (12)
N2—H2N20.881 (14)N4—O11.2392 (7)
N2—H3N20.871 (13)N4—O21.2603 (7)
N3—C51.3327 (8)N4—O31.2664 (7)
N3—H1N30.844 (16)N5—O41.2474 (7)
N3—H2N30.827 (13)N5—O61.2534 (7)
C1—C21.3698 (8)N5—O51.2623 (7)
C1—C51.4176 (8)
C2—N1—C3121.45 (5)C1—C2—H2122.4 (7)
C2—N1—H1N1120.3 (9)N1—C3—C4120.74 (5)
C3—N1—H1N1118.3 (9)N1—C3—H3116.5 (7)
C1—N2—H1N2111.9 (9)C4—C3—H3122.7 (7)
C1—N2—H2N2107.7 (9)C3—C4—C5120.48 (5)
H1N2—N2—H2N2108.1 (13)C3—C4—H4119.5 (7)
C1—N2—H3N2111.5 (8)C5—C4—H4120.1 (7)
H1N2—N2—H3N2111.5 (12)N3—C5—C1123.30 (5)
H2N2—N2—H3N2105.8 (12)N3—C5—C4120.39 (5)
C5—N3—H1N3120.6 (10)C1—C5—C4116.28 (5)
C5—N3—H2N3116.5 (8)O1—N4—O2120.45 (5)
H1N3—N3—H2N3118.9 (13)O1—N4—O3121.07 (5)
C2—C1—C5120.77 (5)O2—N4—O3118.47 (5)
C2—C1—N2118.22 (5)O4—N5—O6120.92 (5)
C5—C1—N2120.99 (5)O4—N5—O5120.11 (5)
N1—C2—C1120.29 (5)O6—N5—O5118.97 (5)
N1—C2—H2117.3 (7)
C3—N1—C2—C1−0.36 (9)N2—C1—C5—N3−0.09 (9)
C5—C1—C2—N10.63 (9)C2—C1—C5—C4−0.38 (8)
N2—C1—C2—N1−177.64 (5)N2—C1—C5—C4177.85 (5)
C2—N1—C3—C4−0.16 (9)C3—C4—C5—N3177.88 (6)
N1—C3—C4—C50.40 (9)C3—C4—C5—C1−0.13 (9)
C2—C1—C5—N3−178.32 (6)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O2i0.874 (13)2.001 (13)2.7750 (7)147.0 (12)
N2—H1N2···O50.935 (14)2.105 (15)2.9070 (8)143.1 (12)
N2—H1N2···O2ii0.935 (14)2.211 (14)2.7767 (7)118.1 (11)
N2—H2N2···O3iii0.881 (14)2.193 (14)3.0006 (7)152.3 (12)
N2—H2N2···O3iv0.881 (14)2.482 (14)2.9231 (7)111.6 (11)
N3—H1N3···O40.844 (16)2.054 (16)2.8653 (8)161.0 (14)
N3—H2N3···O6v0.827 (12)2.130 (12)2.9442 (7)168.0 (12)
N2—H3N2···O5iv0.871 (12)1.963 (12)2.8227 (8)169.0 (12)
N2—H3N2···O6iv0.871 (12)2.494 (12)3.1217 (7)129.5 (10)
C2—H2···O3iii0.910 (11)2.439 (11)3.0489 (8)124.6 (9)
C2—H2···O1vi0.910 (11)2.552 (11)3.1834 (8)127.0 (9)
C2—H2···O3iv0.910 (11)2.570 (11)3.1277 (8)120.2 (9)
C3—H3···O6i0.979 (12)2.253 (12)3.1170 (8)146.6 (10)
C4—H4···O4v0.926 (12)2.559 (12)3.4274 (8)156.3 (10)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N1⋯O2i0.874 (13)2.001 (13)2.7750 (7)147.0 (12)
N2—H1N2⋯O50.935 (14)2.105 (15)2.9070 (8)143.1 (12)
N2—H1N2⋯O2ii0.935 (14)2.211 (14)2.7767 (7)118.1 (11)
N2—H2N2⋯O3iii0.881 (14)2.193 (14)3.0006 (7)152.3 (12)
N2—H2N2⋯O3iv0.881 (14)2.482 (14)2.9231 (7)111.6 (11)
N3—H1N3⋯O40.844 (16)2.054 (16)2.8653 (8)161.0 (14)
N3—H2N3⋯O6v0.827 (12)2.130 (12)2.9442 (7)168.0 (12)
N2—H3N2⋯O5iv0.871 (12)1.963 (12)2.8227 (8)169.0 (12)
N2—H3N2⋯O6iv0.871 (12)2.494 (12)3.1217 (7)129.5 (10)
C2—H2⋯O3iii0.910 (11)2.439 (11)3.0489 (8)124.6 (9)
C2—H2⋯O1vi0.910 (11)2.552 (11)3.1834 (8)127.0 (9)
C2—H2⋯O3iv0.910 (11)2.570 (11)3.1277 (8)120.2 (9)
C3—H3⋯O6i0.979 (12)2.253 (12)3.1170 (8)146.6 (10)
C4—H4⋯O4v0.926 (12)2.559 (12)3.4274 (8)156.3 (10)

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) .

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