Literature DB >> 21579783

Bis(2-amino-3-nitro-pyridinium) dihydrogen-diphosphate.

Samah Toumi Akriche, Mohamed Rzaigui, Zeid Abdellah Elothman, Refaat Mohamed Mahfouz.   

Abstract

The structure of the title compound, 2C(5)H(6)N(3)O(2) (+)·H(2)P(2)O(7) (2-), contains infinite (H(2)P(2)O(7) (2-))(n) layers stacked perpendicular to the a axis. The n class="Chemical">2-amino-3-nitro-pyridinium cations are arranged in pairs and are anchored between these layers, linking them by N-H⋯O and C-H⋯O hydrogen-bonding and electrostatic inter-actions between anionic and cationic species to form a three-dimensional network.

Entities:  

Year:  2010        PMID: 21579783      PMCID: PMC2979822          DOI: 10.1107/S1600536810000942

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


Related literature

For related structures of 2-amino-3-nitro­pyridinium, see: Akriche & Rzaigui (2000 ▶, 2009a ▶,b ▶,c ▶); Nicoud et al. (1997 ▶). For bond lengths in related structures, see: Aakeröy et al. (1998 ▶). For related structures of diphosphate anions, see: Akriche & Rzaigui (2005 ▶); Charfi & Jouini (2005 ▶); Brodski et al. (2004 ▶); Mrad et al. (2006 ▶); Soumhi et al. (1998 ▶).

Experimental

Crystal data

2C5H6N3O2 +·H2O7P2 2− M = 456.21 Orthorhombic, a = 34.250 (5) Å b = 5.763 (2) Å c = 8.991 (3) Å V = 1774.8 (9) Å3 Z = 4 Mo Kα radiation μ = 0.32 mm−1 T = 298 K 0.29 × 0.25 × 0.19 mm

Data collection

Enraf–Nonius CAD-4 diffractometer 2726 measured reflections 2724 independent reflections 2279 reflections with I > 2σ(I) R int = 0.008 2 standard reflections every 120 min intensity decay: 3%

Refinement

R[F 2 > 2σ(F 2)] = 0.033 wR(F 2) = 0.091 S = 1.09 2724 reflections 265 parameters 1 restraint H-atom parameters constrained Δρmax = 0.53 e Å−3 Δρmin = −0.28 e Å−3 Absolute structure: Flack (1983 ▶), 443 Friedel pairs Flack parameter: −0.15 (11) Data collection: CAD-4 EXPRESS (Enraf–Nonius, 1994 ▶); cell refinement: CAD-4 EXPRESS; data reduction: XCAD4 (Harms & Wocadlo, 1995 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (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/S1600536810000942/dn2529sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810000942/dn2529Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
2C5H6N3O2+·H2O7P22F(000) = 936
Mr = 456.21Dx = 1.707 Mg m3
Orthorhombic, Pca21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2c -2acCell parameters from 25 reflections
a = 34.250 (5) Åθ = 10–12°
b = 5.763 (2) ŵ = 0.32 mm1
c = 8.991 (3) ÅT = 298 K
V = 1774.8 (9) Å3Prism, yellow
Z = 40.29 × 0.25 × 0.19 mm
Enraf–Nonius CAD-4 diffractometerRint = 0.008
Radiation source: fine-focus sealed tubeθmax = 30.0°, θmin = 3.3°
graphiteh = −48→0
non–profiled ω scansk = 0→8
2726 measured reflectionsl = −12→0
2724 independent reflections2 standard reflections every 120 min
2279 reflections with I > 2σ(I) intensity decay: 3%
Refinement on F2Hydrogen site location: inferred from neighbouring sites
Least-squares matrix: fullH-atom parameters constrained
R[F2 > 2σ(F2)] = 0.033w = 1/[σ2(Fo2) + (0.0391P)2 + 0.7964P] where P = (Fo2 + 2Fc2)/3
wR(F2) = 0.091(Δ/σ)max = 0.001
S = 1.09Δρmax = 0.53 e Å3
2724 reflectionsΔρmin = −0.28 e Å3
265 parametersExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
1 restraintExtinction coefficient: 0.0192 (12)
Primary atom site location: structure-invariant direct methodsAbsolute structure: Flack (1983)
Secondary atom site location: difference Fourier mapFlack parameter: −0.15 (11)
Geometry. 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
P10.05181 (2)0.76331 (12)0.64677 (9)0.02939 (15)
P20.06740 (2)0.49228 (13)0.38188 (9)0.02940 (15)
O10.02869 (6)0.6068 (4)0.7473 (3)0.0388 (5)
O20.03160 (6)1.0043 (4)0.6468 (3)0.0380 (5)
H20.04321.09160.58980.057*
O30.09419 (6)0.7686 (4)0.6795 (3)0.0406 (5)
O40.04503 (6)0.6839 (4)0.4767 (2)0.0349 (4)
O50.06725 (7)0.2687 (4)0.4645 (3)0.0442 (6)
O60.10798 (6)0.5779 (4)0.3433 (3)0.0381 (5)
O70.04355 (6)0.4892 (4)0.2361 (2)0.0367 (5)
H70.02070.45920.25480.055*
O80.17007 (11)0.0987 (8)1.2413 (5)0.0996 (14)
O90.17848 (8)0.4036 (7)1.1115 (4)0.0796 (12)
O100.17870 (9)−0.0306 (6)0.8224 (4)0.0689 (9)
O110.23687 (9)0.0861 (7)0.8703 (5)0.0899 (12)
N10.07030 (7)0.3161 (5)0.9226 (3)0.0334 (5)
H10.06060.40780.85670.040*
N20.12502 (8)0.5449 (5)0.9194 (3)0.0445 (7)
H2A0.11390.62990.85320.053*
H2B0.14810.57880.94990.053*
N30.15874 (9)0.2373 (7)1.1479 (5)0.0578 (9)
N40.16725 (8)0.4967 (5)0.5130 (4)0.0396 (6)
H40.14650.51910.46080.048*
N50.13779 (8)0.1725 (6)0.6059 (4)0.0522 (8)
H5A0.11840.19980.54790.063*
H5B0.13740.05360.66370.063*
N60.20652 (10)0.1031 (6)0.8028 (4)0.0548 (8)
C10.04851 (9)0.1383 (5)0.9672 (4)0.0374 (6)
H1A0.02360.11960.92810.045*
C20.06201 (11)−0.0169 (6)1.0689 (4)0.0450 (8)
H2C0.0469−0.14311.09780.054*
C30.09860 (10)0.0180 (6)1.1278 (4)0.0453 (8)
H30.1084−0.08431.19860.054*
C40.12081 (9)0.2041 (6)1.0822 (4)0.0404 (7)
C50.10672 (8)0.3631 (5)0.9740 (4)0.0350 (6)
C60.19675 (10)0.6453 (6)0.4979 (5)0.0470 (8)
H60.19430.76780.43120.056*
C70.23056 (10)0.6223 (7)0.5778 (5)0.0550 (10)
H7C0.25120.72550.56520.066*
C80.23302 (9)0.4406 (7)0.6779 (4)0.0511 (9)
H80.25540.42210.73520.061*
C90.20255 (9)0.2872 (6)0.6933 (4)0.0417 (7)
C100.16813 (9)0.3125 (6)0.6061 (4)0.0389 (7)
U11U22U33U12U13U23
P10.0326 (3)0.0309 (3)0.0247 (3)−0.0046 (3)−0.0008 (3)0.0044 (3)
P20.0323 (3)0.0269 (3)0.0291 (3)−0.0007 (3)0.0004 (3)0.0045 (3)
O10.0377 (10)0.0429 (12)0.0357 (11)−0.0058 (9)−0.0001 (9)0.0130 (10)
O20.0473 (11)0.0334 (10)0.0333 (11)−0.0004 (9)0.0047 (10)0.0004 (11)
O30.0373 (10)0.0474 (12)0.0371 (13)−0.0090 (10)−0.0036 (9)0.0097 (10)
O40.0379 (10)0.0374 (10)0.0293 (10)0.0054 (9)−0.0045 (9)0.0000 (9)
O50.0461 (13)0.0321 (11)0.0544 (15)−0.0020 (9)0.0013 (11)0.0162 (11)
O60.0336 (10)0.0412 (11)0.0394 (12)−0.0049 (9)0.0003 (9)0.0102 (10)
O70.0357 (10)0.0457 (12)0.0288 (10)−0.0050 (10)−0.0004 (9)−0.0028 (10)
O80.072 (2)0.126 (3)0.101 (3)0.007 (2)−0.035 (2)0.058 (3)
O90.0414 (14)0.108 (3)0.089 (3)−0.0142 (16)−0.0172 (16)0.035 (2)
O100.0647 (18)0.073 (2)0.069 (2)−0.0055 (16)−0.0033 (15)0.0349 (18)
O110.0635 (19)0.114 (3)0.092 (3)0.0031 (19)−0.025 (2)0.045 (3)
N10.0393 (13)0.0353 (13)0.0257 (11)0.0034 (10)−0.0001 (9)0.0036 (10)
N20.0426 (14)0.0462 (16)0.0447 (17)−0.0056 (12)−0.0057 (12)0.0137 (13)
N30.0423 (15)0.079 (2)0.0518 (17)0.0116 (17)−0.0067 (16)0.018 (2)
N40.0325 (11)0.0423 (14)0.0440 (15)0.0013 (11)−0.0029 (11)0.0083 (13)
N50.0423 (15)0.0524 (17)0.062 (2)−0.0119 (13)−0.0101 (15)0.0222 (16)
N60.0492 (16)0.066 (2)0.0494 (18)0.0083 (16)0.0005 (15)0.0154 (17)
C10.0393 (15)0.0418 (16)0.0309 (14)−0.0026 (13)0.0037 (13)−0.0027 (14)
C20.0549 (19)0.0353 (16)0.0447 (18)−0.0021 (15)0.0087 (16)0.0062 (15)
C30.0535 (17)0.0414 (16)0.0411 (19)0.0132 (14)0.0058 (15)0.0119 (16)
C40.0373 (15)0.0488 (18)0.0350 (16)0.0079 (13)−0.0004 (13)0.0054 (15)
C50.0372 (14)0.0390 (16)0.0288 (13)0.0054 (12)0.0018 (12)0.0035 (13)
C60.0419 (17)0.0463 (18)0.053 (2)−0.0023 (14)0.0041 (15)0.0086 (17)
C70.0374 (17)0.061 (2)0.066 (3)−0.0102 (16)0.0042 (18)0.008 (2)
C80.0303 (14)0.072 (2)0.051 (2)0.0006 (16)−0.0028 (15)0.0070 (19)
C90.0329 (13)0.0520 (18)0.0404 (15)0.0050 (13)0.0030 (12)0.0089 (16)
C100.0345 (14)0.0408 (16)0.0412 (16)0.0024 (13)0.0042 (13)0.0041 (13)
P1—O31.481 (2)N4—C61.331 (4)
P1—O11.503 (2)N4—C101.353 (4)
P1—O21.552 (2)N4—H40.8600
P1—O41.613 (2)N5—C101.316 (4)
P2—O51.487 (2)N5—H5A0.8600
P2—O61.515 (2)N5—H5B0.8600
P2—O71.545 (2)N6—C91.454 (5)
P2—O41.592 (2)C1—C21.360 (5)
O2—H20.8200C1—H1A0.9300
O7—H70.8200C2—C31.375 (5)
O8—N31.222 (5)C2—H2C0.9300
O9—N31.217 (5)C3—C41.377 (5)
O10—N61.238 (4)C3—H30.9300
O11—N61.208 (4)C4—C51.420 (4)
N1—C11.330 (4)C6—C71.369 (5)
N1—C51.358 (4)C6—H60.9300
N1—H10.8600C7—C81.383 (5)
N2—C51.316 (4)C7—H7C0.9300
N2—H2A0.8600C8—C91.375 (5)
N2—H2B0.8600C8—H80.9300
N3—C41.440 (4)C9—C101.423 (5)
O3—P1—O1114.15 (13)O10—N6—C9118.6 (3)
O3—P1—O2114.74 (13)N1—C1—C2121.2 (3)
O1—P1—O2107.60 (13)N1—C1—H1A119.4
O3—P1—O4109.59 (13)C2—C1—H1A119.4
O1—P1—O4108.93 (14)C1—C2—C3118.2 (3)
O2—P1—O4100.93 (13)C1—C2—H2C120.9
O5—P2—O6113.55 (13)C3—C2—H2C120.9
O5—P2—O7114.34 (15)C2—C3—C4120.2 (3)
O6—P2—O7107.14 (13)C2—C3—H3119.9
O5—P2—O4109.41 (14)C4—C3—H3119.9
O6—P2—O4109.76 (13)C3—C4—C5121.2 (3)
O7—P2—O4101.99 (12)C3—C4—N3118.7 (3)
P1—O2—H2109.5C5—C4—N3120.1 (3)
P2—O4—P1129.43 (14)N2—C5—N1118.0 (3)
P2—O7—H7109.5N2—C5—C4127.4 (3)
C1—N1—C5124.5 (3)N1—C5—C4114.6 (3)
C1—N1—H1117.7N4—C6—C7121.7 (4)
C5—N1—H1117.7N4—C6—H6119.1
C5—N2—H2A120.0C7—C6—H6119.1
C5—N2—H2B120.0C6—C7—C8117.8 (3)
H2A—N2—H2B120.0C6—C7—H7C121.1
O9—N3—O8121.5 (4)C8—C7—H7C121.1
O9—N3—C4119.7 (3)C9—C8—C7120.4 (3)
O8—N3—C4118.8 (4)C9—C8—H8119.8
C6—N4—C10123.4 (3)C7—C8—H8119.8
C6—N4—H4118.3C8—C9—C10120.5 (3)
C10—N4—H4118.3C8—C9—N6117.8 (3)
C10—N5—H5A120.0C10—C9—N6121.7 (3)
C10—N5—H5B120.0N5—C10—N4117.6 (3)
H5A—N5—H5B120.0N5—C10—C9126.3 (3)
O11—N6—O10122.7 (4)N4—C10—C9116.1 (3)
O11—N6—C9118.7 (3)
O5—P2—O4—P153.0 (2)N3—C4—C5—N21.9 (6)
O6—P2—O4—P1−72.2 (2)C3—C4—C5—N10.4 (5)
O7—P2—O4—P1174.45 (18)N3—C4—C5—N1−178.7 (3)
O3—P1—O4—P239.2 (2)C10—N4—C6—C7−0.5 (6)
O1—P1—O4—P2−86.3 (2)N4—C6—C7—C8−1.1 (6)
O2—P1—O4—P2160.61 (18)C6—C7—C8—C91.2 (6)
C5—N1—C1—C2−1.3 (5)C7—C8—C9—C100.2 (6)
N1—C1—C2—C31.6 (5)C7—C8—C9—N6−178.6 (4)
C1—C2—C3—C4−0.9 (5)O11—N6—C9—C8−3.4 (6)
C2—C3—C4—C5−0.1 (5)O10—N6—C9—C8177.0 (4)
C2—C3—C4—N3179.0 (4)O11—N6—C9—C10177.8 (4)
O9—N3—C4—C3−178.4 (4)O10—N6—C9—C10−1.8 (5)
O8—N3—C4—C30.5 (6)C6—N4—C10—N5−176.9 (4)
O9—N3—C4—C50.7 (6)C6—N4—C10—C91.9 (5)
O8—N3—C4—C5179.6 (4)C8—C9—C10—N5177.0 (4)
C1—N1—C5—N2179.7 (3)N6—C9—C10—N5−4.2 (6)
C1—N1—C5—C40.2 (4)C8—C9—C10—N4−1.7 (5)
C3—C4—C5—N2−179.0 (3)N6—C9—C10—N4177.1 (3)
D—H···AD—HH···AD···AD—H···A
O2—H2···O5i0.821.732.549 (3)178
O7—H7···O1ii0.821.732.537 (3)166
N1—H1···O10.861.872.706 (3)165
N2—H2A···O30.861.882.726 (4)168
N2—H2B···O90.862.052.645 (4)126
N4—H4···O60.861.722.582 (4)174
N5—H5A···O50.861.952.786 (4)165
N5—H5B···O100.862.072.669 (5)126
N5—H5B···O3iii0.862.222.843 (4)130
C2—H2C···O7iv0.932.463.280 (4)147
C3—H3···O6iv0.932.343.208 (4)155
C8—H8···O9v0.932.523.097 (4)120
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O2—H2⋯O5i0.821.732.549 (3)178
O7—H7⋯O1ii0.821.732.537 (3)166
N1—H1⋯O10.861.872.706 (3)165
N2—H2A⋯O30.861.882.726 (4)168
N2—H2B⋯O90.862.052.645 (4)126
N4—H4⋯O60.861.722.582 (4)174
N5—H5A⋯O50.861.952.786 (4)165
N5—H5B⋯O100.862.072.669 (5)126
N5—H5B⋯O3iii0.862.222.843 (4)130
C2—H2C⋯O7iv0.932.463.280 (4)147
C3—H3⋯O6iv0.932.343.208 (4)155
C8—H8⋯O9v0.932.523.097 (4)120

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

  4 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-Amino-3-nitro-pyridinium hydrogen selenate.

Authors:  Samah Akriche; Mohamed Rzaigui
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-06-20

3.  Bis(2-amino-3-nitro-pyridinium) dichromate(VI).

Authors:  Samah Akriche; Mohamed Rzaigui
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-12-20

4.  2-Amino-3-nitro-pyridinium hydrogen oxalate.

Authors:  Samah Akriche; Mohamed Rzaigui
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-03-19
  4 in total
  1 in total

1.  Tetra-kis(2-amino-5-chloro-pyridinium) di-hydrogen cyclo-hexa-phosphate.

Authors:  Ahmed Hamdi; Lamia Khederi; Mohamed Rzaigui
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2014-02-22
  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.