Literature DB >> 21582517

2-Amino-3-nitro-pyridinium hydrogen oxalate.

Samah Akriche1, Mohamed Rzaigui.   

Abstract

In the non-centrosymetric title compound, C(5)H(6)N(3)O(2) (+)·C(2)HO(4) (-), the hydrogen oxalate anions form corrugated chains parallel to the c axis, linked by O-H⋯O hydrogen bonds. The 2-amino-3-nitro-pyridinium cations are anchored between theses chains by N-H⋯O and C-H⋯O hydrogen bonds and van der Waals and electrostatic inter-actions, creating a three-dimensional network.

Entities:  

Year:  2009        PMID: 21582517      PMCID: PMC2968971          DOI: 10.1107/S1600536809008666

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


Related literature

For related structures, see: Akriche & Rzaigui (2000 ▶, 2009 ▶); Le Fur et al. (1998 ▶); Nicoud et al. (1997 ▶); For a discussion of hydrogen bonding, see: Desiraju (1989 ▶, 1995 ▶).

Experimental

Crystal data

C5H6N3O2 +·C2HO4 − M = 229.16 Orthorhombic, a = 15.268 (4) Å b = 6.921 (3) Å c = 8.807 (2) Å V = 930.6 (5) Å3 Z = 4 Mo Kα radiation μ = 0.15 mm−1 T = 293 K 0.33 × 0.25 × 0.21 mm

Data collection

Enraf–Nonius Turbo CAD-4 diffractometer Absorption correction: none 2228 measured reflections 1190 independent reflections 1003 reflections with I > 2σ(I) R int = 0.020 2 standard reflections frequency: 120 min intensity decay: 1%

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.088 S = 1.06 1190 reflections 147 parameters 1 restraint H-atom parameters constrained Δρmax = 0.33 e Å−3 Δρmin = −0.20 e Å−3 Data collection: CAD-4 EXPRESS (Enraf–Nonius, 1994 ▶); cell refinement: CAD-4 EXPRESS; data reduction: XCAD4 (Harms & Wocadlo, 1996 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and DIAMOND (Brandenburg & Putz, 2005 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809008666/kj2116sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809008666/kj2116Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H6N3O2+·C2HO4Dx = 1.636 Mg m3
Mr = 229.16Mo Kα radiation, λ = 0.71073 Å
Orthorhombic, Pna21Cell parameters from 25 reflections
a = 15.268 (4) Åθ = 9–11°
b = 6.921 (3) ŵ = 0.15 mm1
c = 8.807 (2) ÅT = 293 K
V = 930.6 (5) Å3Rectangular prism, yellow
Z = 40.33 × 0.25 × 0.21 mm
F(000) = 472
Enraf–Nonius Turbo CAD-4 diffractometerRint = 0.020
Radiation source: Enraf–Nonius FR590θmax = 28.0°, θmin = 2.7°
graphiteh = −20→0
Nonprofiled ω scansk = −7→9
2228 measured reflectionsl = −11→0
1190 independent reflections2 standard reflections every 120 min
1003 reflections with I > 2σ(I) intensity decay: 1%
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.034H-atom parameters constrained
wR(F2) = 0.088w = 1/[σ2(Fo2) + (0.0559P)2 + 0.0295P] where P = (Fo2 + 2Fc2)/3
S = 1.06(Δ/σ)max = 0.001
1190 reflectionsΔρmax = 0.33 e Å3
147 parametersΔρmin = −0.20 e Å3
1 restraintExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.053 (6)
Geometry. H atoms were treated as riding, with C—H = 0.93 A °, N—H = 0.86 A ° and O—H = 0.82 A °, and with Uiso(H) = 1.2Ueq(C,N) and 1.5Ueq(O). All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'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
O10.18864 (12)0.6389 (3)0.4311 (2)0.0512 (5)
O20.10055 (11)0.5552 (3)0.2423 (2)0.0408 (4)
O30.05130 (11)0.5172 (3)0.6129 (2)0.0391 (4)
H30.00510.50430.65930.059*
O4−0.03139 (11)0.6833 (3)0.4481 (2)0.0494 (5)
O50.49613 (12)0.5813 (3)0.1226 (3)0.0532 (5)
O60.52023 (11)0.6750 (3)−0.1071 (3)0.0545 (5)
N10.23161 (12)0.5903 (3)0.0374 (3)0.0375 (5)
H10.19200.58180.10650.045*
N20.33259 (15)0.6060 (3)0.2291 (3)0.0462 (6)
H2A0.29000.60120.29300.055*
H2B0.38570.61330.26120.055*
N30.47122 (12)0.6244 (3)−0.0050 (3)0.0367 (5)
C10.31649 (14)0.6020 (3)0.0827 (3)0.0321 (5)
C20.37793 (14)0.6148 (3)−0.0380 (3)0.0318 (5)
C30.35201 (16)0.6188 (4)−0.1871 (3)0.0363 (5)
H3A0.39360.6300−0.26380.044*
C40.26384 (17)0.6061 (4)−0.2236 (3)0.0437 (6)
H40.24520.6078−0.32410.052*
C50.20572 (16)0.5911 (4)−0.1078 (3)0.0421 (6)
H50.14630.5811−0.12980.050*
C60.11677 (14)0.5994 (3)0.3773 (3)0.0303 (5)
C70.03636 (14)0.6065 (3)0.4838 (3)0.0302 (5)
U11U22U33U12U13U23
O10.0315 (8)0.0930 (14)0.0292 (9)−0.0146 (10)−0.0004 (7)−0.0040 (10)
O20.0286 (7)0.0684 (11)0.0254 (8)−0.0040 (8)0.0007 (7)−0.0037 (9)
O30.0300 (8)0.0618 (12)0.0256 (7)0.0005 (8)0.0063 (7)0.0065 (8)
O40.0346 (9)0.0660 (12)0.0475 (11)0.0110 (8)0.0040 (8)0.0115 (10)
O50.0342 (9)0.0727 (13)0.0528 (12)0.0094 (9)−0.0082 (9)0.0076 (11)
O60.0330 (9)0.0779 (13)0.0526 (12)−0.0118 (9)0.0125 (8)−0.0050 (11)
N10.0243 (9)0.0522 (14)0.0361 (12)−0.0015 (8)0.0039 (8)−0.0004 (9)
N20.0317 (10)0.0773 (18)0.0296 (11)−0.0022 (10)0.0002 (8)0.0046 (11)
N30.0259 (9)0.0401 (10)0.0440 (12)0.0007 (8)0.0035 (9)−0.0039 (9)
C10.0271 (10)0.0372 (12)0.0319 (12)−0.0008 (9)0.0024 (9)0.0020 (9)
C20.0252 (10)0.0356 (11)0.0347 (12)0.0013 (8)0.0024 (9)−0.0014 (10)
C30.0352 (12)0.0427 (14)0.0311 (12)0.0002 (10)0.0057 (10)−0.0004 (10)
C40.0407 (13)0.0592 (17)0.0311 (13)0.0026 (11)−0.0038 (10)−0.0018 (11)
C50.0271 (10)0.0585 (16)0.0406 (15)0.0020 (10)−0.0049 (10)−0.0044 (12)
C60.0279 (10)0.0391 (11)0.0240 (10)−0.0029 (9)0.0015 (9)0.0033 (9)
C70.0263 (10)0.0382 (11)0.0261 (11)−0.0040 (8)−0.0003 (8)−0.0026 (9)
O1—C61.226 (3)N2—H2A0.8600
O2—C61.252 (3)N2—H2B0.8600
O3—C71.314 (3)N3—C21.455 (3)
O3—H30.8200C1—C21.420 (3)
O4—C71.205 (3)C2—C31.372 (3)
O5—N31.223 (3)C3—C41.387 (3)
O6—N31.221 (3)C3—H3A0.9300
N1—C51.338 (4)C4—C51.356 (4)
N1—C11.358 (3)C4—H40.9300
N1—H10.8600C5—H50.9300
N2—C11.313 (3)C6—C71.545 (3)
C7—O3—H3109.5C2—C3—C4120.0 (2)
C5—N1—C1124.2 (2)C2—C3—H3A120.0
C5—N1—H1117.9C4—C3—H3A120.0
C1—N1—H1117.9C5—C4—C3117.8 (2)
C1—N2—H2A120.0C5—C4—H4121.1
C1—N2—H2B120.0C3—C4—H4121.1
H2A—N2—H2B120.0N1—C5—C4121.7 (2)
O6—N3—O5123.8 (2)N1—C5—H5119.1
O6—N3—C2117.8 (2)C4—C5—H5119.1
O5—N3—C2118.5 (2)O1—C6—O2126.8 (2)
N2—C1—N1117.9 (2)O1—C6—C7118.0 (2)
N2—C1—C2127.6 (2)O2—C6—C7115.25 (19)
N1—C1—C2114.5 (2)O4—C7—O3125.6 (2)
C3—C2—C1121.8 (2)O4—C7—C6122.5 (2)
C3—C2—N3118.2 (2)O3—C7—C6111.85 (19)
C1—C2—N3120.0 (2)
C5—N1—C1—N2177.8 (3)C1—C2—C3—C4−1.3 (4)
C5—N1—C1—C2−0.2 (4)N3—C2—C3—C4178.7 (2)
N2—C1—C2—C3−176.6 (3)C2—C3—C4—C50.4 (4)
N1—C1—C2—C31.2 (3)C1—N1—C5—C4−0.7 (5)
N2—C1—C2—N33.3 (4)C3—C4—C5—N10.6 (4)
N1—C1—C2—N3−178.8 (2)O1—C6—C7—O4134.2 (3)
O6—N3—C2—C314.8 (3)O2—C6—C7—O4−45.0 (3)
O5—N3—C2—C3−165.1 (2)O1—C6—C7—O3−46.9 (3)
O6—N3—C2—C1−165.2 (2)O2—C6—C7—O3133.9 (2)
O5—N3—C2—C115.0 (3)
D—H···AD—HH···AD···AD—H···A
O3—H3···O2i0.821.822.632 (2)171
N1—H1···O20.861.852.706 (3)175
N2—H2A···O10.861.992.837 (3)170
N2—H2B···O50.862.092.673 (3)124
N2—H2B···O4ii0.862.513.188 (3)136
C3—H3A···O5iii0.932.443.178 (3)136
C4—H4···O1iv0.932.333.258 (3)174
C5—H5···O6v0.932.573.262 (3)132
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O3—H3⋯O2i0.821.822.632 (2)171
N1—H1⋯O20.861.852.706 (3)175
N2—H2A⋯O10.861.992.837 (3)170
N2—H2B⋯O50.862.092.673 (3)124
N2—H2B⋯O4ii0.862.513.188 (3)136
C3—H3A⋯O5iii0.932.443.178 (3)136
C4—H4⋯O1iv0.932.333.258 (3)174
C5—H5⋯O6v0.932.573.262 (3)132

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

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