Literature DB >> 26594561

Crystal structure of 2-cyano-1-methyl-pyridinium perchlorate.

Vu D Nguyen1, Cameron A McCormick1, Joel T Mague2, Lynn V Koplitz1.   

Abstract

The asymmetric unit of the title salt, C7H7N2 (+)·ClO4 (-), comprises two independent formula units. The solid-state structure comprises corrugated layers of cations and of anions, approximately parallel to (010). The supra-molecular layers are stabilized and connected by C-H⋯O hydrogen bonding to consolidate a three-dimensional architecture. A close pyridin-ium-perchlorate N⋯O contact [2.867 (5) Å] is noted. The crystal was refined as an inversion twin.

Entities:  

Keywords:  crystal structure; hydrogen bonding; perchlorate; pyridinium; salt

Year:  2015        PMID: 26594561      PMCID: PMC4645073          DOI: 10.1107/S2056989015019155

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Related literature

For structures of other salts of the 2-cyano-1-methyl­pyridinium cation, see: Koplitz et al. (2012 ▸); Kammer et al. (2013 ▸); Vaccaro et al. (2015 ▸). For structures of salts of the isomeric 2-cyano­anilinium cation, see: Zhang (2009 ▸); Cui & Chen (2010 ▸).

Experimental

Crystal data

C7H7N2 +·ClO4 M = 218.60 Monoclinic, a = 8.0112 (12) Å b = 7.7011 (12) Å c = 14.742 (2) Å β = 90.982 (2)° V = 909.4 (2) Å3 Z = 4 Mo Kα radiation μ = 0.41 mm−1 T = 150 K 0.19 × 0.14 × 0.13 mm

Data collection

Bruker SMART APEX CCD diffractometer Absorption correction: multi-scan (TWINABS; Sheldrick, 2009 ▸) T min = 0.93, T max = 0.95 22843 measured reflections 22843 independent reflections 20913 reflections with I > 2σ(I) R int = 0.051

Refinement

R[F 2 > 2σ(F 2)] = 0.043 wR(F 2) = 0.109 S = 1.00 22843 reflections 256 parameters 1 restraint H-atom parameters constrained Δρmax = 0.30 e Å−3 Δρmin = −0.34 e Å−3 Absolute structure: Flack x determined using 1908 quotients [(I +)−(I −)]/[(I +)+(I −)] (Parsons et al., 2013 ▸) Absolute structure parameter: 0.04 (3)

Data collection: APEX2 (Bruker, 2014 ▸); cell refinement: SAINT (Bruker, 2014 ▸); data reduction: SAINT and CELL_NOW (Sheldrick, 2008a ▸); program(s) used to solve structure: SHELXT (Sheldrick, 2015a ▸); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015b ▸); molecular graphics: DIAMOND (Brandenburg & Putz, 2012 ▸); software used to prepare material for publication: SHELXTL (Sheldrick, 2008b ▸). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S2056989015019155/tk5395sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015019155/tk5395Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S2056989015019155/tk5395Isup3.cml Click here for additional data file. . DOI: 10.1107/S2056989015019155/tk5395fig1.tif Perspective view of the asymmetric unit with 50% probability ellipsoids. C—H⋯O inter­actions are shown by dotted lines. Click here for additional data file. a . DOI: 10.1107/S2056989015019155/tk5395fig2.tif Packing viewed down the a axis showing an edge view of two corrugated layers and the C—H⋯O inter­action (dotted line) holding them together. Click here for additional data file. b . DOI: 10.1107/S2056989015019155/tk5395fig3.tif Packing viewed down the b axis providing a plan view of the corrugated sheets with C—H⋯O inter­actions shown as dotted lines. CCDC reference: 1430590 Additional supporting information: crystallographic information; 3D view; checkCIF report
C7H7N2+·ClO4F(000) = 448
Mr = 218.60Dx = 1.597 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.71073 Å
a = 8.0112 (12) ÅCell parameters from 9987 reflections
b = 7.7011 (12) Åθ = 2.5–29.2°
c = 14.742 (2) ŵ = 0.41 mm1
β = 90.982 (2)°T = 150 K
V = 909.4 (2) Å3Block, colourless
Z = 40.19 × 0.14 × 0.13 mm
Bruker SMART APEX CCD diffractometer22843 independent reflections
Radiation source: fine-focus sealed tube20913 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.051
Detector resolution: 8.3660 pixels mm-1θmax = 29.2°, θmin = 2.5°
φ and ω scansh = −10→10
Absorption correction: multi-scan (TWINABS; Sheldrick, 2009)k = −10→10
Tmin = 0.93, Tmax = 0.95l = −20→20
22843 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.043H-atom parameters constrained
wR(F2) = 0.109w = 1/[σ2(Fo2) + (0.0531P)2] where P = (Fo2 + 2Fc2)/3
S = 1.00(Δ/σ)max < 0.001
22843 reflectionsΔρmax = 0.30 e Å3
256 parametersΔρmin = −0.34 e Å3
1 restraintAbsolute structure: Flack x determined using 1908 quotients [(I+)-(I-)]/[(I+)+(I-)] (Parsons et al., 2013)
Primary atom site location: structure-invariant direct methodsAbsolute structure parameter: 0.04 (3)
Experimental. The diffraction data were obtained from 3 sets of 400 frames, each of width 0.5° in ω, collected at φ = 0.00, 90.00 and 180.00° and 2 sets of 800 frames, each of width 0.45° in φ, collected at ω = -30.00 and 210.00°. The scan time was 15 sec/frame. Analysis of 3152 reflections having I/σ(I) > 13 and chosen from the full data set with CELL_NOW (Sheldrick, 2008a) showed the crystal to belong to the monoclinic system and to be twinned by a 180° rotation about c*. The raw data were processed using the multi-component version of SAINT under control of the two-component orientation file generated by CELL_NOW.
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. H-atoms attached to carbon were placed in calculated positions (C—H = 0.95 - 0.98 Å). All were included as riding contributions with isotropic displacement parameters 1.2 - 1.5 times those of the attached atoms. Refined as a 2-component twin.
xyzUiso*/Ueq
N10.2547 (4)0.1723 (5)0.8742 (2)0.0186 (7)
N20.6652 (5)0.0531 (8)0.8975 (3)0.0424 (14)
C10.3149 (5)0.1871 (7)0.7797 (3)0.0268 (10)
H1A0.22550.23390.74060.040*
H1B0.34740.07210.75770.040*
H1C0.41150.26510.77850.040*
C20.3617 (5)0.1208 (6)0.9418 (3)0.0204 (10)
C30.3089 (5)0.1017 (7)1.0292 (3)0.0262 (11)
H30.38450.06581.07590.031*
C40.1425 (5)0.1359 (7)1.0482 (3)0.0261 (11)
H40.10330.12371.10830.031*
C50.0358 (5)0.1874 (7)0.9798 (3)0.0265 (11)
H5−0.07800.21060.99210.032*
C60.0947 (5)0.2053 (7)0.8927 (3)0.0237 (10)
H60.02080.24140.84530.028*
C70.5316 (5)0.0839 (8)0.9162 (3)0.0266 (11)
Cl10.77813 (11)0.34996 (12)0.68489 (7)0.0185 (2)
O10.9290 (4)0.2488 (5)0.6789 (3)0.0300 (8)
O20.7857 (4)0.4925 (4)0.6214 (2)0.0263 (7)
O30.6375 (4)0.2420 (5)0.6622 (3)0.0295 (9)
O40.7628 (4)0.4142 (5)0.7754 (2)0.0370 (9)
N30.7638 (4)0.8780 (5)0.6208 (3)0.0167 (8)
N41.1905 (4)0.9228 (7)0.6055 (3)0.0374 (12)
C80.8152 (5)0.8446 (7)0.7165 (3)0.0214 (9)
H8A0.85230.95340.74480.032*
H8B0.90700.76040.71810.032*
H8C0.72030.79790.74970.032*
C90.8788 (4)0.9197 (6)0.5573 (3)0.0187 (9)
C100.8332 (5)0.9575 (7)0.4697 (3)0.0232 (10)
H100.91520.98550.42630.028*
C110.6647 (5)0.9542 (7)0.4452 (3)0.0254 (10)
H110.62950.98160.38500.030*
C120.5499 (5)0.9103 (7)0.5099 (4)0.0253 (11)
H120.43450.90460.49420.030*
C130.6021 (4)0.8747 (6)0.5969 (3)0.0214 (10)
H130.52160.84720.64130.026*
C141.0526 (5)0.9217 (7)0.5867 (4)0.0259 (11)
Cl20.26845 (11)0.66595 (14)0.81449 (7)0.0213 (2)
O50.3040 (4)0.5521 (5)0.8898 (2)0.0329 (9)
O60.4209 (4)0.7202 (7)0.7750 (3)0.0629 (16)
O70.1683 (5)0.5742 (6)0.7490 (3)0.0436 (10)
O80.1756 (4)0.8134 (5)0.8449 (3)0.0405 (10)
U11U22U33U12U13U23
N10.0224 (14)0.0147 (18)0.0187 (19)−0.0010 (15)0.0002 (13)0.0016 (17)
N20.0285 (19)0.069 (4)0.030 (3)0.009 (2)−0.0004 (17)−0.009 (3)
C10.034 (2)0.026 (3)0.020 (2)0.004 (2)0.0063 (17)0.004 (2)
C20.0181 (16)0.018 (3)0.025 (3)−0.0009 (15)−0.0016 (15)−0.003 (2)
C30.026 (2)0.030 (3)0.023 (3)0.0038 (19)−0.0050 (17)−0.001 (2)
C40.0295 (19)0.028 (3)0.021 (2)−0.0039 (18)0.0058 (16)−0.001 (2)
C50.0207 (18)0.027 (3)0.032 (3)0.0011 (19)0.0009 (16)0.000 (2)
C60.0229 (18)0.023 (3)0.025 (3)0.0020 (17)−0.0027 (16)−0.001 (2)
C70.026 (2)0.035 (3)0.019 (3)0.003 (2)−0.0029 (17)−0.004 (2)
Cl10.0208 (4)0.0165 (5)0.0182 (5)0.0004 (4)−0.0004 (3)−0.0003 (4)
O10.0220 (14)0.0215 (19)0.046 (2)0.0039 (12)−0.0011 (14)0.0018 (18)
O20.0350 (15)0.0197 (18)0.0240 (18)−0.0006 (13)−0.0028 (13)0.0059 (15)
O30.0232 (14)0.026 (2)0.040 (2)−0.0055 (13)−0.0023 (13)0.0019 (17)
O40.056 (2)0.035 (2)0.0192 (17)0.0011 (18)0.0047 (16)−0.0051 (16)
N30.0189 (14)0.0122 (19)0.019 (2)0.0020 (13)0.0013 (13)−0.0005 (15)
N40.0229 (17)0.061 (4)0.028 (2)0.0016 (19)0.0012 (16)0.003 (2)
C80.0263 (17)0.022 (2)0.016 (2)−0.0008 (19)−0.0004 (15)0.001 (2)
C90.0162 (16)0.016 (2)0.024 (2)0.0016 (15)0.0018 (15)0.000 (2)
C100.0225 (18)0.027 (3)0.020 (2)−0.0014 (17)0.0054 (16)−0.001 (2)
C110.0272 (19)0.031 (3)0.017 (2)0.0028 (19)−0.0008 (17)−0.001 (2)
C120.0205 (17)0.031 (3)0.025 (3)−0.0007 (17)−0.0022 (17)−0.006 (2)
C130.0180 (16)0.019 (3)0.027 (3)−0.0033 (16)0.0034 (15)−0.004 (2)
C140.0213 (19)0.033 (3)0.024 (3)0.0006 (18)0.0052 (17)0.000 (2)
Cl20.0207 (4)0.0245 (6)0.0188 (5)−0.0032 (4)0.0023 (3)0.0007 (5)
O50.0409 (18)0.032 (2)0.026 (2)−0.0075 (16)−0.0042 (15)0.0064 (17)
O60.0260 (17)0.092 (4)0.071 (3)−0.0020 (19)0.0140 (17)0.046 (3)
O70.058 (2)0.030 (2)0.042 (2)0.0098 (18)−0.0241 (18)−0.011 (2)
O80.058 (2)0.021 (2)0.043 (2)0.0024 (17)0.0123 (18)−0.0073 (18)
N1—C61.338 (5)N3—C131.337 (5)
N1—C21.363 (6)N3—C91.363 (5)
N1—C11.487 (5)N3—C81.486 (6)
N2—C71.135 (6)N4—C141.134 (5)
C1—H1A0.9800C8—H8A0.9800
C1—H1B0.9800C8—H8B0.9800
C1—H1C0.9800C8—H8C0.9800
C2—C31.370 (6)C9—C101.368 (6)
C2—C71.446 (6)C9—C141.451 (5)
C3—C41.392 (6)C10—C111.391 (5)
C3—H30.9500C10—H100.9500
C4—C51.370 (7)C11—C121.379 (7)
C4—H40.9500C11—H110.9500
C5—C61.383 (7)C12—C131.370 (7)
C5—H50.9500C12—H120.9500
C6—H60.9500C13—H130.9500
Cl1—O41.430 (3)Cl2—O61.425 (4)
Cl1—O31.435 (3)Cl2—O71.431 (4)
Cl1—O11.442 (3)Cl2—O81.434 (4)
Cl1—O21.444 (3)Cl2—O51.439 (4)
C6—N1—C2120.0 (4)C13—N3—C9119.2 (4)
C6—N1—C1120.2 (4)C13—N3—C8119.9 (4)
C2—N1—C1119.8 (3)C9—N3—C8120.9 (3)
N1—C1—H1A109.5N3—C8—H8A109.5
N1—C1—H1B109.5N3—C8—H8B109.5
H1A—C1—H1B109.5H8A—C8—H8B109.5
N1—C1—H1C109.5N3—C8—H8C109.5
H1A—C1—H1C109.5H8A—C8—H8C109.5
H1B—C1—H1C109.5H8B—C8—H8C109.5
N1—C2—C3121.2 (4)N3—C9—C10121.7 (3)
N1—C2—C7116.7 (4)N3—C9—C14117.0 (4)
C3—C2—C7122.1 (4)C10—C9—C14121.3 (4)
C2—C3—C4118.8 (4)C9—C10—C11119.0 (4)
C2—C3—H3120.6C9—C10—H10120.5
C4—C3—H3120.6C11—C10—H10120.5
C5—C4—C3119.6 (5)C12—C11—C10118.7 (5)
C5—C4—H4120.2C12—C11—H11120.7
C3—C4—H4120.2C10—C11—H11120.7
C4—C5—C6119.6 (4)C13—C12—C11120.0 (4)
C4—C5—H5120.2C13—C12—H12120.0
C6—C5—H5120.2C11—C12—H12120.0
N1—C6—C5120.8 (4)N3—C13—C12121.5 (4)
N1—C6—H6119.6N3—C13—H13119.3
C5—C6—H6119.6C12—C13—H13119.3
N2—C7—C2178.7 (6)N4—C14—C9176.8 (5)
O4—Cl1—O3109.8 (2)O6—Cl2—O7110.1 (3)
O4—Cl1—O1109.3 (2)O6—Cl2—O8110.4 (3)
O3—Cl1—O1109.2 (2)O7—Cl2—O8108.3 (2)
O4—Cl1—O2110.3 (2)O6—Cl2—O5109.5 (2)
O3—Cl1—O2109.3 (2)O7—Cl2—O5108.7 (3)
O1—Cl1—O2109.0 (2)O8—Cl2—O5109.8 (2)
C6—N1—C2—C30.0 (7)C13—N3—C9—C10−0.3 (7)
C1—N1—C2—C3−178.3 (5)C8—N3—C9—C10−177.4 (5)
C6—N1—C2—C7178.6 (5)C13—N3—C9—C14179.9 (4)
C1—N1—C2—C70.3 (7)C8—N3—C9—C142.8 (6)
N1—C2—C3—C40.1 (8)N3—C9—C10—C110.4 (8)
C7—C2—C3—C4−178.5 (5)C14—C9—C10—C11−179.8 (5)
C2—C3—C4—C50.1 (8)C9—C10—C11—C12−1.0 (8)
C3—C4—C5—C6−0.2 (8)C10—C11—C12—C131.5 (8)
C2—N1—C6—C5−0.1 (7)C9—N3—C13—C120.8 (7)
C1—N1—C6—C5178.2 (5)C8—N3—C13—C12178.0 (5)
C4—C5—C6—N10.3 (8)C11—C12—C13—N3−1.4 (8)
D—H···AD—HH···AD···AD—H···A
C1—H1A···O1i0.982.533.441 (5)154
C1—H1C···O30.982.523.164 (5)123
C3—H3···O5ii0.952.543.326 (5)140
C5—H5···O8iii0.952.663.262 (6)122
C6—H6···O1i0.952.553.415 (6)152
C6—H6···O4i0.952.653.534 (6)155
C8—H8A···O1iv0.982.553.294 (6)132
C8—H8B···O7v0.982.573.538 (6)169
C8—H8C···O60.982.513.425 (5)156
C10—H10···O2vi0.952.513.367 (5)150
C12—H12···O2vii0.952.523.347 (5)145
C13—H13···O60.952.353.247 (6)156
Table 1

Hydrogen-bond geometry (, )

DHA DHHA D A DHA
C1H1AO1i 0.982.533.441(5)154
C1H1CO30.982.523.164(5)123
C3H3O5ii 0.952.543.326(5)140
C5H5O8iii 0.952.663.262(6)122
C6H6O1i 0.952.553.415(6)152
C6H6O4i 0.952.653.534(6)155
C8H8AO1iv 0.982.553.294(6)132
C8H8BO7v 0.982.573.538(6)169
C8H8CO60.982.513.425(5)156
C10H10O2vi 0.952.513.367(5)150
C12H12O2vii 0.952.523.347(5)145
C13H13O60.952.353.247(6)156

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

  7 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-Cyano-anilinium perchlorate.

Authors:  Li-Jing Cui; Xin-Yuan Chen
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-01-30

3.  2-Cyano-anilinium tetra-fluoro-borate.

Authors:  Yi Zhang
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-09-09

4.  SHELXT - integrated space-group and crystal-structure determination.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A Found Adv       Date:  2015-01-01       Impact factor: 2.290

5.  Crystal structure refinement with SHELXL.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr C Struct Chem       Date:  2015-01-01       Impact factor: 1.172

6.  Use of intensity quotients and differences in absolute structure refinement.

Authors:  Simon Parsons; Howard D Flack; Trixie Wagner
Journal:  Acta Crystallogr B Struct Sci Cryst Eng Mater       Date:  2013-05-17

7.  2-Cyano-1-methyl-pyridinium iodide.

Authors:  Michael N Kammer; Lynn V Koplitz; Joel T Mague
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2013-07-20
  7 in total

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