Literature DB >> 21577921

Pyridine-3-carbonitrile-chloranilic acid-acetonitrile (2/1/2).

Kazuma Gotoh1, Hiroyuki Ishida.   

Abstract

In the crystal structure of the title compound, 2C(6)H(4)N(2C(6)H(2)Cl(2)O(4)·2C(2)H(3)N, the two symmetry-related pyridine-3-carbonitrile mol-ecules are linked to either side of a chloranilic acid (systematic name: 2,5-dichloro-3,6-dihydr-oxy-1,4-benzoquinone) mol-ecule via inter-molecular O-H⋯N hydrogen bonds, giving a centrosymmetric 2:1 unit. The dihedral angle between the pyridine ring and the chloranilic acid plane is 26.71 (6)°. In addition, the two acetonitrile mol-ecules are linked to either side of the 2:1 unit through C-H⋯N hydrogen bonds, forming a 2:1:2 aggregate. These 2:1:2 aggregates are further linked by weak inter-molecular C-H⋯N and C-H⋯O hydrogen bonds, forming a tape along the c axis.

Entities:  

Year:  2009        PMID: 21577921      PMCID: PMC2970440          DOI: 10.1107/S1600536809036605

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


Related literature

For related structures, see, for example: Gotoh et al. (2009 ▶); Gotoh, Asaji & Ishida (2008 ▶); Gotoh, Nagoshi & Ishida (2008 ▶).

Experimental

Crystal data

2C6H4N2·C6H2Cl2O4·2C2H3N M = 499.31 Triclinic, a = 3.91269 (16) Å b = 10.8937 (9) Å c = 13.5966 (5) Å α = 105.302 (4)° β = 90.0058 (14)° γ = 90.847 (5)° V = 558.93 (6) Å3 Z = 1 Mo Kα radiation μ = 0.33 mm−1 T = 180 K 0.32 × 0.25 × 0.15 mm

Data collection

Rigaku RAXIS-RAPID II diffractometer Absorption correction: numerical (; Higashi, 1995 ▶) T min = 0.906, T max = 0.951 7721 measured reflections 3232 independent reflections 2592 reflections with I > 2σ(I) R int = 0.031

Refinement

R[F 2 > 2σ(F 2)] = 0.035 wR(F 2) = 0.099 S = 1.07 3232 reflections 159 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.44 e Å−3 Δρmin = −0.28 e Å−3 Data collection: PROCESS-AUTO (Rigaku/MSC, 2004 ▶); cell refinement: PROCESS-AUTO; data reduction: CrystalStructure (Rigaku/MSC, 2004 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶); software used to prepare material for publication: CrystalStructure and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks General, I. DOI: 10.1107/S1600536809036605/lh2901sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809036605/lh2901Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
2C6H4N2·C6H2Cl2O4·2C2H3NZ = 1
Mr = 499.31F(000) = 256.00
Triclinic, P1Dx = 1.483 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71075 Å
a = 3.91269 (16) ÅCell parameters from 6412 reflections
b = 10.8937 (9) Åθ = 3.1–30.1°
c = 13.5966 (5) ŵ = 0.33 mm1
α = 105.302 (4)°T = 180 K
β = 90.0058 (14)°Block, brown
γ = 90.847 (5)°0.32 × 0.25 × 0.15 mm
V = 558.93 (6) Å3
Rigaku RAXIS-RAPID II diffractometer2592 reflections with I > 2σ(I)
Detector resolution: 10.00 pixels mm-1Rint = 0.031
ω scansθmax = 30.0°
Absorption correction: numerical (ABSCOR; Higashi, 1995)h = −5→5
Tmin = 0.906, Tmax = 0.951k = −15→15
7721 measured reflectionsl = −19→17
3232 independent reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.035Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.099H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0495P)2 + 0.1506P] where P = (Fo2 + 2Fc2)/3
3232 reflections(Δ/σ)max < 0.001
159 parametersΔρmax = 0.44 e Å3
0 restraintsΔρmin = −0.28 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
Cl10.74850 (9)−0.11634 (3)0.17747 (2)0.02647 (10)
O11.1404 (3)−0.24034 (9)−0.00816 (7)0.0278 (2)
O20.6357 (3)0.14675 (10)0.16065 (7)0.0294 (2)
N10.4384 (3)0.38133 (11)0.18840 (9)0.0268 (2)
N20.2005 (4)0.63890 (12)0.52232 (10)0.0347 (3)
N3−0.2867 (4)0.85277 (13)0.41743 (11)0.0400 (3)
C11.0708 (3)−0.12968 (12)−0.00163 (9)0.0213 (2)
C20.8789 (3)−0.04984 (12)0.08193 (9)0.0208 (2)
C30.8076 (3)0.07272 (12)0.08605 (9)0.0215 (2)
C40.3922 (4)0.43073 (12)0.28796 (10)0.0254 (3)
H40.44230.38050.33350.031*
C50.2725 (3)0.55390 (12)0.32762 (10)0.0233 (3)
C60.1973 (4)0.62808 (13)0.26185 (10)0.0265 (3)
H60.11690.71240.28710.032*
C70.2431 (4)0.57525 (13)0.15812 (11)0.0281 (3)
H70.19220.62270.11060.034*
C80.3640 (4)0.45244 (13)0.12482 (10)0.0270 (3)
H80.39560.41710.05370.032*
C90.2324 (4)0.60218 (13)0.43620 (10)0.0263 (3)
C10−0.2753 (4)0.87366 (14)0.50394 (12)0.0310 (3)
C11−0.2586 (4)0.90013 (16)0.61421 (12)0.0365 (3)
H11A−0.09330.84360.63320.055*
H11B−0.48460.88570.64060.055*
H11C−0.18690.98890.64320.055*
H20.596 (7)0.226 (3)0.152 (2)0.082 (9)*
U11U22U33U12U13U23
Cl10.03569 (18)0.02348 (16)0.02309 (16)0.00415 (12)0.00557 (12)0.01100 (11)
O10.0404 (5)0.0181 (4)0.0255 (5)0.0062 (4)0.0045 (4)0.0065 (4)
O20.0445 (6)0.0199 (5)0.0242 (5)0.0089 (4)0.0100 (4)0.0058 (4)
N10.0349 (6)0.0203 (5)0.0252 (5)0.0066 (4)0.0041 (5)0.0061 (4)
N20.0488 (8)0.0284 (6)0.0272 (6)0.0078 (5)0.0018 (5)0.0075 (5)
N30.0512 (8)0.0302 (7)0.0380 (7)0.0070 (6)0.0065 (6)0.0076 (5)
C10.0267 (6)0.0180 (5)0.0194 (5)0.0010 (4)−0.0019 (5)0.0053 (4)
C20.0272 (6)0.0186 (6)0.0174 (5)0.0009 (4)0.0006 (5)0.0060 (4)
C30.0268 (6)0.0188 (6)0.0188 (5)0.0017 (4)−0.0010 (5)0.0045 (4)
C40.0321 (7)0.0199 (6)0.0254 (6)0.0057 (5)0.0015 (5)0.0077 (5)
C50.0272 (6)0.0199 (6)0.0226 (6)0.0024 (5)0.0009 (5)0.0049 (5)
C60.0327 (7)0.0188 (6)0.0286 (7)0.0065 (5)0.0026 (5)0.0070 (5)
C70.0365 (7)0.0238 (6)0.0261 (6)0.0066 (5)0.0010 (5)0.0100 (5)
C80.0348 (7)0.0229 (6)0.0235 (6)0.0048 (5)0.0036 (5)0.0062 (5)
C90.0316 (7)0.0205 (6)0.0273 (6)0.0052 (5)0.0015 (5)0.0067 (5)
C100.0307 (7)0.0227 (6)0.0387 (8)0.0033 (5)0.0063 (6)0.0061 (5)
C110.0407 (8)0.0335 (8)0.0329 (8)0.0040 (6)0.0042 (6)0.0044 (6)
Cl1—C21.7200 (13)C4—H40.9500
O1—C11.2201 (15)C5—C61.3884 (18)
O2—C31.3099 (15)C5—C91.4399 (18)
O2—H20.91 (3)C6—C71.3883 (19)
N1—C41.3316 (17)C6—H60.9500
N1—C81.3387 (18)C7—C81.3848 (19)
N2—C91.1406 (18)C7—H70.9500
N3—C101.138 (2)C8—H80.9500
C1—C21.4521 (17)C10—C111.451 (2)
C1—C3i1.5153 (18)C11—H11A0.9800
C2—C31.3546 (17)C11—H11B0.9800
C3—C1i1.5153 (18)C11—H11C0.9800
C4—C51.3955 (18)
C3—O2—H2114.0 (17)C7—C6—C5117.96 (12)
C4—N1—C8118.49 (11)C7—C6—H6121.0
O1—C1—C2123.93 (12)C5—C6—H6121.0
O1—C1—C3i117.75 (11)C8—C7—C6119.07 (12)
C2—C1—C3i118.31 (10)C8—C7—H7120.5
C3—C2—C1121.90 (11)C6—C7—H7120.5
C3—C2—Cl1120.77 (10)N1—C8—C7122.88 (13)
C1—C2—Cl1117.33 (9)N1—C8—H8118.6
O2—C3—C2123.08 (12)C7—C8—H8118.6
O2—C3—C1i117.14 (11)N2—C9—C5179.14 (15)
C2—C3—C1i119.78 (11)N3—C10—C11179.69 (18)
N1—C4—C5122.13 (12)C10—C11—H11A109.5
N1—C4—H4118.9C10—C11—H11B109.5
C5—C4—H4118.9H11A—C11—H11B109.5
C6—C5—C4119.46 (12)C10—C11—H11C109.5
C6—C5—C9121.20 (12)H11A—C11—H11C109.5
C4—C5—C9119.34 (12)H11B—C11—H11C109.5
O1—C1—C2—C3179.96 (13)C8—N1—C4—C5−0.6 (2)
C3i—C1—C2—C3−0.1 (2)N1—C4—C5—C60.2 (2)
O1—C1—C2—Cl10.78 (18)N1—C4—C5—C9−179.19 (13)
C3i—C1—C2—Cl1−179.23 (9)C4—C5—C6—C70.4 (2)
C1—C2—C3—O2−179.86 (12)C9—C5—C6—C7179.82 (13)
Cl1—C2—C3—O2−0.72 (19)C5—C6—C7—C8−0.6 (2)
C1—C2—C3—C1i0.1 (2)C4—N1—C8—C70.4 (2)
Cl1—C2—C3—C1i179.21 (9)C6—C7—C8—N10.3 (2)
D—H···AD—HH···AD···AD—H···A
O2—H2···N10.92 (3)1.75 (3)2.6111 (17)154 (3)
O2—H2···O1i0.92 (3)2.25 (3)2.6824 (14)108 (2)
C4—H4···N2ii0.952.463.292 (2)146
C6—H6···N30.952.573.385 (2)144
C7—H7···O1iii0.952.483.4248 (18)172
C11—H11A···N20.982.623.341 (2)130
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O2—H2⋯N10.92 (3)1.75 (3)2.6111 (17)154 (3)
O2—H2⋯O1i0.92 (3)2.25 (3)2.6824 (14)108 (2)
C4—H4⋯N2ii0.952.463.292 (2)146
C6—H6⋯N30.952.573.385 (2)144
C7—H7⋯O1iii0.952.483.4248 (18)172
C11—H11A⋯N20.982.623.341 (2)130

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

  5 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.  Hydrogen bonding in 1,2-diazine-chloranilic acid (2/1) and 1,4-diazine-chloranilic acid (2/1) determined at 110 K.

Authors:  Kazuma Gotoh; Tetsuo Asaji; Hiroyuki Ishida
Journal:  Acta Crystallogr C       Date:  2008-09-20       Impact factor: 1.172

3.  Redetermination of pyridine-4-carbonitrile-chloranilic acid (1/1) at 180 K.

Authors:  Kazuma Gotoh; Hirokazu Nagoshi; Hiroyuki Ishida
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-06-13

4.  Hydrogen-bonded structures of the isomeric 2-, 3- and 4-carbamoylpyridinium hydrogen chloranilates.

Authors:  Kazuma Gotoh; Hirokazu Nagoshi; Hiroyuki Ishida
Journal:  Acta Crystallogr C       Date:  2009-05-02       Impact factor: 1.172

5.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  5 in total
  3 in total

1.  3-Hydroxy-pyridinium hydrogen chloranilate monohydrate.

Authors:  Kazuma Gotoh; Hiroyuki Ishida
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-11-11

2.  Triethyl-ammonium hydrogen chloranilate.

Authors:  Kazuma Gotoh; Shinpei Maruyama; Hiroyuki Ishida
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-11-20

3.  Chloranilic acid: a redetermination at 100 K.

Authors:  Grzegorz Dutkiewicz; H S Yathirajan; Q N M Hakim Al-Arique; B Narayana; Maciej Kubicki
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-01-30
  3 in total

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