Literature DB >> 22969634

2,6-Diamino-pyridinium dihydrogen phosphate.

Gang Yu1.   

Abstract

In the crystal structure of the title compound, C(5)H(8)N(3) (+)·H(2)PO(4) (-), N-H⋯O hydrogen bonds, involving the unprotonated amino-group and the NH(+) group in the pyridinium ring and dihydrogenphosphate O atoms, link the cations and anions. A long chain-like stacking of dihydrogenphosphate anions along the c-axis direction is constructed by O-H⋯O hydrogen bonds. Also along the c-axis direction, π-π stacking between inversion-related pyridinium rings [centroid-centroid distance = 3.8051 (10) Å] forms columnar stacks of cations.

Entities:  

Year:  2012        PMID: 22969634      PMCID: PMC3435763          DOI: 10.1107/S1600536812035489

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


Related literature

For functional materials with similar crystal structures and their proton-transfer mechanism, see: Lasave et al. (2007 ▶); Morenzoni et al. (2007 ▶); Reiter (2002 ▶); Szklarz et al. (2011 ▶); Zhang et al. (2010 ▶). For the design of similar organic–inorganic functional materials, see: Horiuchi & Tokura (2008 ▶); Zhang & Xiong (2012 ▶).

Experimental

Crystal data

C5H8N3 +·H2O4P M = 207.13 Triclinic, a = 7.4821 (4) Å b = 8.1110 (2) Å c = 8.1790 (1) Å α = 70.811 (10)° β = 74.980 (14)° γ = 84.883 (15)° V = 452.77 (3) Å3 Z = 2 Mo Kα radiation μ = 0.29 mm−1 T = 153 K 0.50 × 0.30 × 0.20 mm

Data collection

Rigaku Mercury CCD diffractometer Absorption correction: multi-scan (CrystalClear; Rigaku, 2005 ▶) T min = 0.868, T max = 0.944 5434 measured reflections 2057 independent reflections 1938 reflections with > σ(I) R int = 0.013

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.090 S = 1.17 2057 reflections 133 parameters 4 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.30 e Å−3 Δρmin = −0.33 e Å−3 Data collection: CrystalClear (Rigaku, 2005 ▶); cell refinement: CrystalClear; data reduction: CrystalClear; 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: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812035489/pk2425sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812035489/pk2425Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812035489/pk2425Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H8N3+·H2O4PZ = 2
Mr = 207.13F(000) = 216
Triclinic, P1Dx = 1.519 Mg m3
Hall symbol: -P 1Melting point: 396 K
a = 7.4821 (4) ÅMo Kα radiation, λ = 0.71073 Å
b = 8.1110 (2) ÅCell parameters from 1340 reflections
c = 8.1790 (1) Åθ = 2.7–27.5°
α = 70.811 (10)°µ = 0.29 mm1
β = 74.980 (14)°T = 153 K
γ = 84.883 (15)°Block, yellow
V = 452.77 (3) Å30.50 × 0.30 × 0.20 mm
Rigaku Mercury CCD diffractometer2057 independent reflections
Radiation source: fine-focus sealed tube1938 reflections with > σ(I)
Graphite monochromatorRint = 0.013
ω and φ scansθmax = 27.5°, θmin = 2.7°
Absorption correction: multi-scan (CrystalClear; Rigaku, 2005)h = −9→8
Tmin = 0.868, Tmax = 0.944k = −10→10
5434 measured reflectionsl = −10→10
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.034Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.090H atoms treated by a mixture of independent and constrained refinement
S = 1.17w = 1/[σ2(Fo2) + (0.0388P)2 + 0.1286P] where P = (Fo2 + 2Fc2)/3
2057 reflections(Δ/σ)max < 0.001
133 parametersΔρmax = 0.30 e Å3
4 restraintsΔρmin = −0.33 e Å3
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
N11.09610 (18)−0.12682 (15)0.27998 (16)0.0371 (3)
H11.1789−0.20470.30650.044*
N21.2828 (3)0.0630 (2)0.3140 (3)0.0656 (5)
H1N21.294 (3)0.166 (3)0.304 (3)0.079*
H2N21.350 (3)−0.023 (3)0.354 (3)0.079*
N30.9398 (2)−0.34142 (19)0.2483 (2)0.0494 (4)
H1N31.044 (3)−0.400 (3)0.241 (3)0.059*
H2N30.852 (3)−0.368 (3)0.213 (3)0.059*
C11.1233 (2)0.0373 (2)0.2779 (2)0.0457 (4)
C20.9892 (3)0.1617 (2)0.2384 (3)0.0615 (5)
H3C1.00280.27530.23610.074*
C30.8346 (3)0.1145 (2)0.2023 (3)0.0626 (5)
H4A0.74400.19840.17630.075*
C40.8092 (2)−0.0517 (2)0.2035 (2)0.0502 (4)
H5A0.7037−0.08040.17880.060*
C50.9458 (2)−0.17538 (19)0.2426 (2)0.0376 (3)
P10.44212 (5)−0.47555 (5)0.25676 (5)0.03232 (13)
O10.46973 (19)−0.65793 (14)0.39139 (15)0.0485 (3)
H1A0.5193−0.64560.46500.073*
O20.39135 (16)−0.34140 (14)0.35200 (15)0.0439 (3)
O30.63300 (16)−0.4229 (2)0.12119 (16)0.0564 (4)
H30.6390−0.45520.03480.085*
O40.30132 (14)−0.50108 (16)0.16548 (15)0.0451 (3)
U11U22U33U12U13U23
N10.0417 (7)0.0296 (6)0.0424 (6)−0.0011 (5)−0.0130 (5)−0.0124 (5)
N20.0784 (12)0.0459 (9)0.0813 (12)−0.0211 (8)−0.0222 (10)−0.0242 (9)
N30.0382 (7)0.0458 (8)0.0771 (10)0.0003 (6)−0.0228 (7)−0.0301 (7)
C10.0575 (10)0.0331 (7)0.0434 (8)−0.0106 (6)−0.0015 (7)−0.0140 (6)
C20.0734 (13)0.0313 (8)0.0683 (12)0.0015 (8)0.0017 (10)−0.0158 (8)
C30.0571 (11)0.0464 (9)0.0668 (12)0.0172 (8)−0.0012 (9)−0.0102 (8)
C40.0384 (8)0.0548 (10)0.0524 (9)0.0092 (7)−0.0097 (7)−0.0140 (8)
C50.0348 (7)0.0401 (7)0.0380 (7)−0.0006 (6)−0.0072 (6)−0.0138 (6)
P10.0338 (2)0.0371 (2)0.0335 (2)−0.00135 (14)−0.01388 (14)−0.01632 (15)
O10.0767 (8)0.0343 (5)0.0468 (6)0.0030 (5)−0.0286 (6)−0.0196 (5)
O20.0588 (7)0.0381 (5)0.0482 (6)0.0114 (5)−0.0289 (5)−0.0223 (5)
O30.0419 (6)0.0955 (10)0.0429 (6)−0.0273 (6)−0.0061 (5)−0.0329 (7)
O40.0328 (5)0.0688 (7)0.0477 (6)−0.0014 (5)−0.0154 (5)−0.0322 (6)
N1—C11.3586 (18)C2—H3C0.9300
N1—C51.3601 (19)C3—C41.375 (3)
N1—H10.8600C3—H4A0.9300
N2—C11.350 (3)C4—C51.389 (2)
N2—H1N20.822 (18)C4—H5A0.9300
N2—H2N20.848 (19)P1—O41.5028 (10)
N3—C51.336 (2)P1—O21.5050 (10)
N3—H1N30.874 (17)P1—O31.5584 (12)
N3—H2N30.852 (17)P1—O11.5608 (12)
C1—C21.379 (3)O1—H1A0.8200
C2—C31.378 (3)O3—H30.8200
C1—N1—C5123.93 (14)C4—C3—H4A118.7
C1—N1—H1118.0C2—C3—H4A118.7
C5—N1—H1118.0C3—C4—C5118.03 (17)
C1—N2—H1N2110.8 (18)C3—C4—H5A121.0
C1—N2—H2N2120.4 (18)C5—C4—H5A121.0
H1N2—N2—H2N2128 (3)N3—C5—N1116.91 (13)
C5—N3—H1N3117.6 (14)N3—C5—C4124.57 (15)
C5—N3—H2N3116.4 (15)N1—C5—C4118.52 (14)
H1N3—N3—H2N3120 (2)O4—P1—O2115.15 (6)
N2—C1—N1115.83 (16)O4—P1—O3110.88 (6)
N2—C1—C2126.02 (16)O2—P1—O3107.55 (7)
N1—C1—C2118.14 (17)O4—P1—O1106.11 (7)
C3—C2—C1118.83 (16)O2—P1—O1110.22 (6)
C3—C2—H3C120.6O3—P1—O1106.64 (8)
C1—C2—H3C120.6P1—O1—H1A109.5
C4—C3—C2122.54 (17)P1—O3—H3109.5
C5—N1—C1—N2−178.37 (15)C2—C3—C4—C50.0 (3)
C5—N1—C1—C21.1 (2)C1—N1—C5—N3179.29 (15)
N2—C1—C2—C3179.19 (19)C1—N1—C5—C4−1.4 (2)
N1—C1—C2—C3−0.2 (3)C3—C4—C5—N3−179.93 (17)
C1—C2—C3—C4−0.3 (3)C3—C4—C5—N10.8 (2)
D—H···AD—HH···AD···AD—H···A
N1—H1···O2i0.861.902.7515 (17)170
N2—H2N2···O2i0.85 (2)2.58 (2)3.241 (2)136 (2)
N3—H1N3···O4i0.87 (2)2.05 (2)2.9078 (19)167 (2)
N2—H1N2···O1ii0.82 (2)2.40 (2)3.0734 (19)139 (2)
N2—H1N2···O4ii0.82 (2)2.56 (2)3.342 (2)159 (2)
O1—H1A···O2iii0.821.762.5705 (15)169
O3—H3···O4iv0.821.732.5334 (15)167
N3—H2N3···O30.85 (2)2.11 (2)2.9574 (18)178 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1⋯O2i 0.861.902.7515 (17)170
N2—H2N2⋯O2i 0.85 (2)2.58 (2)3.241 (2)136 (2)
N3—H1N3⋯O4i 0.87 (2)2.05 (2)2.9078 (19)167 (2)
N2—H1N2⋯O1ii 0.82 (2)2.40 (2)3.0734 (19)139 (2)
N2—H1N2⋯O4ii 0.82 (2)2.56 (2)3.342 (2)159 (2)
O1—H1A⋯O2iii 0.821.762.5705 (15)169
O3—H3⋯O4iv 0.821.732.5334 (15)167
N3—H2N3⋯O30.85 (2)2.11 (2)2.9574 (18)178 (2)

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

  5 in total

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2.  Ferroelectric metal-organic frameworks.

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3.  Origin of antiferroelectricity in NH4H2PO4 from first principles.

Authors:  J Lasave; S Koval; N S Dalal; R L Migoni
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4.  A short history of SHELX.

Authors:  George M Sheldrick
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5.  Organic ferroelectrics.

Authors:  Sachio Horiuchi; Yoshinori Tokura
Journal:  Nat Mater       Date:  2008-05       Impact factor: 43.841

  5 in total
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1.  Crystal structure of 2,6-di-amino-pyridinium chloride.

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