Literature DB >> 26870499

Crystal structure of (1Z,2E)-cinnamaldehyde oxime.

Bernhard Bugenhagen1, Nuha Al Soom2, Yosef Al Jasem3, Thies Thiemann2.   

Abstract

The title compound, C9H9NO, crystallized with two independent mol-ecules (A and B) in the asymmetric unit. The conformation of the two mol-ecules differs slightly with the phenyl ring in mol-ecule A, forming a dihedral angle of 15.38 (12)° with the oxime group (O-N=C), compared to the corresponding angle of 26.29 (11)° in mol-ecule B. In the crystal, the A and B mol-ecules are linked head-to-head by O-H⋯N hydrogen bonds, forming -A-B-A-B- zigzag chains along [010]. Within the chains and between neighbouring chains there are C-H⋯π inter-actions present, forming a three-dimensional structure.

Entities:  

Keywords:  C—H⋯π inter­actions; O—H⋯N hydrogen bonding; cinnamaldehyde; conformers; crystal structure; oxime

Year:  2015        PMID: 26870499      PMCID: PMC4719980          DOI: 10.1107/S2056989015023853

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Related literature

For the other methods of preparation of the title compound, see: Mirjafari et al. (2011 ▸); Kitahara et al. (2008 ▸). For the uses of a such compound, see: Narsaiah & Nagaiah (2004 ▸); Jasem et al. (2014 ▸); Garton et al. (2010 ▸); Patil et al. (2012 ▸); Kaur et al. (2006 ▸); Boruah & Konwar (2012 ▸).

Experimental

Crystal data

C9H9NO M = 147.17 Orthorhombic, a = 10.231 (5) Å b = 7.584 (3) Å c = 41.816 (18) Å V = 3245 (2) Å3 Z = 16 Mo Kα radiation μ = 0.08 mm−1 T = 100 K 0.2 × 0.2 × 0.1 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2013 ▸) T min = 0.666, T max = 0.746 34431 measured reflections 3944 independent reflections 3724 reflections with I > 2σ(I) R int = 0.022

Refinement

R[F 2 > 2σ(F 2)] = 0.043 wR(F 2) = 0.113 S = 1.10 3944 reflections 207 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.45 e Å−3 Δρmin = −0.19 e Å−3

Data collection: APEX2 (Bruker, 2013 ▸); cell refinement: SAINT (Bruker, 2013 ▸); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▸); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015 ▸); molecular graphics: PLATON (Spek, 2009 ▸) and Mercury (Macrae et al., 2008 ▸); software used to prepare material for publication: OLEX2 (Dolomanov et al., 2009 ▸). Crystal structure: contains datablock(s) I. DOI: 10.1107/S2056989015023853/su5260sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015023853/su5260Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S2056989015023853/su5260Isup3.cml Click here for additional data file. A B . DOI: 10.1107/S2056989015023853/su5260fig1.tif A view of the mol­ecular structure of the two independent mol­ecules (A and B) of the title compound, with atom labelling. Displacement ellipsoids are drawn at the 50% probability level. Click here for additional data file. a . DOI: 10.1107/S2056989015023853/su5260fig2.tif A partial view along the a axis of the crystal packing of the title compound. The O—H⋯N hydrogen bonds, and the C—H⋯π contacts between adjacent mol­ecules are shown as dashed lines (see Table 1). Click here for additional data file. b b . DOI: 10.1107/S2056989015023853/su5260fig3.tif A view along the b axis of three stacked mol­ecular motifs made of A (blue) and B (green) inter­connected mol­ecules forming chains along the b axis. The hydrogen bonds and C—H⋯π inter­actions are shown as dashed lines (see Table 1). CCDC reference: 1441984 Additional supporting information: crystallographic information; 3D view; checkCIF report
C9H9NODx = 1.205 Mg m3
Mr = 147.17Melting point: 348 K
Orthorhombic, PbcaMo Kα radiation, λ = 0.71073 Å
a = 10.231 (5) ÅCell parameters from 9623 reflections
b = 7.584 (3) Åθ = 2.2–28.4°
c = 41.816 (18) ŵ = 0.08 mm1
V = 3245 (2) Å3T = 100 K
Z = 16Block, colourless
F(000) = 12480.2 × 0.2 × 0.1 mm
Bruker APEXII CCD diffractometer3724 reflections with I > 2σ(I)
φ and ω scansRint = 0.022
Absorption correction: multi-scan (SADABS; Bruker, 2013)θmax = 28.6°, θmin = 1.0°
Tmin = 0.666, Tmax = 0.746h = −13→13
34431 measured reflectionsk = −10→10
3944 independent reflectionsl = −55→53
Refinement on F20 restraints
Least-squares matrix: fullHydrogen site location: mixed
R[F2 > 2σ(F2)] = 0.043H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.113w = 1/[σ2(Fo2) + (0.0445P)2 + 2.1543P] where P = (Fo2 + 2Fc2)/3
S = 1.10(Δ/σ)max = 0.001
3944 reflectionsΔρmax = 0.45 e Å3
207 parametersΔρmin = −0.19 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.
xyzUiso*/Ueq
O1B0.27939 (9)0.14918 (13)0.83349 (2)0.0214 (2)
O1A0.57897 (9)0.36622 (12)0.60376 (2)0.0210 (2)
N1A0.65418 (10)0.21056 (14)0.60658 (2)0.0172 (2)
N1B0.37727 (11)0.02042 (14)0.83755 (2)0.0189 (2)
C9A0.66426 (11)0.12592 (16)0.57973 (3)0.0162 (2)
H9A0.70960.01670.58040.019*
C7A0.65649 (11)0.10018 (15)0.52143 (3)0.0146 (2)
H7A0.71350.00240.52420.017*
C1A0.62383 (11)0.14952 (15)0.48805 (3)0.0137 (2)
C6A0.52038 (11)0.26618 (15)0.48030 (3)0.0152 (2)
H6A0.46650.31240.49680.018*
C2B0.50012 (12)−0.04774 (16)0.69394 (3)0.0171 (2)
H2B0.5770−0.11140.69930.021*
C5A0.49730 (12)0.31367 (16)0.44838 (3)0.0182 (2)
H5A0.42780.39200.44340.022*
C7B0.44406 (12)−0.04211 (15)0.75192 (3)0.0167 (2)
H7B0.5154−0.12020.75520.020*
C2A0.70079 (12)0.08011 (17)0.46297 (3)0.0189 (2)
H2A0.7689−0.00080.46780.023*
C8A0.61346 (11)0.18013 (15)0.54843 (3)0.0152 (2)
H8A0.55020.27160.54710.018*
C1B0.41218 (11)0.00325 (15)0.71837 (3)0.0153 (2)
C3B0.47534 (13)−0.00548 (17)0.66187 (3)0.0202 (3)
H3B0.5352−0.04080.64570.024*
C5B0.27317 (13)0.13917 (17)0.67760 (3)0.0224 (3)
H5B0.19630.20230.67200.027*
C6B0.29760 (12)0.09644 (16)0.70966 (3)0.0188 (2)
H6B0.23680.13030.72570.023*
C4B0.36242 (14)0.08882 (17)0.65358 (3)0.0228 (3)
H4B0.34610.11860.63190.027*
C8B0.38138 (12)0.01692 (16)0.77854 (3)0.0170 (2)
H8B0.30880.09420.77630.020*
C9B0.42381 (13)−0.03653 (16)0.81057 (3)0.0191 (2)
H9B0.4921−0.12120.81170.023*
C4A0.57625 (13)0.24623 (18)0.42372 (3)0.0220 (3)
H4A0.56070.27990.40220.026*
C3A0.67797 (14)0.12902 (18)0.43106 (3)0.0235 (3)
H3A0.73140.08280.41450.028*
H1B0.248 (2)0.163 (2)0.8539 (4)0.039 (5)*
H1A0.588 (2)0.415 (3)0.6235 (5)0.048 (6)*
U11U22U33U12U13U23
O1B0.0216 (4)0.0283 (5)0.0144 (4)0.0041 (4)0.0037 (3)0.0011 (3)
O1A0.0301 (5)0.0197 (4)0.0131 (4)0.0029 (4)−0.0024 (3)−0.0010 (3)
N1A0.0181 (5)0.0191 (5)0.0144 (5)−0.0022 (4)−0.0008 (4)0.0040 (4)
N1B0.0237 (5)0.0183 (5)0.0146 (5)−0.0013 (4)−0.0001 (4)0.0023 (4)
C9A0.0169 (5)0.0174 (5)0.0141 (5)−0.0026 (4)−0.0012 (4)0.0033 (4)
C7A0.0143 (5)0.0136 (5)0.0159 (5)−0.0011 (4)−0.0030 (4)0.0012 (4)
C1A0.0158 (5)0.0118 (5)0.0134 (5)−0.0026 (4)−0.0024 (4)−0.0012 (4)
C6A0.0148 (5)0.0147 (5)0.0160 (5)−0.0010 (4)−0.0008 (4)−0.0011 (4)
C2B0.0167 (5)0.0167 (5)0.0178 (5)−0.0018 (4)0.0025 (4)−0.0009 (4)
C5A0.0179 (5)0.0171 (5)0.0195 (6)−0.0008 (4)−0.0054 (4)0.0022 (4)
C7B0.0196 (5)0.0142 (5)0.0164 (5)0.0014 (4)0.0010 (4)0.0006 (4)
C2A0.0206 (6)0.0189 (6)0.0172 (6)0.0051 (5)−0.0019 (4)−0.0028 (4)
C8A0.0164 (5)0.0151 (5)0.0141 (5)−0.0020 (4)−0.0023 (4)0.0015 (4)
C1B0.0189 (5)0.0125 (5)0.0144 (5)−0.0018 (4)0.0019 (4)−0.0005 (4)
C3B0.0254 (6)0.0203 (6)0.0149 (5)−0.0065 (5)0.0053 (5)−0.0020 (4)
C5B0.0265 (7)0.0189 (6)0.0218 (6)0.0021 (5)−0.0048 (5)0.0013 (5)
C6B0.0211 (6)0.0179 (6)0.0175 (6)0.0020 (5)0.0019 (4)−0.0010 (4)
C4B0.0324 (7)0.0207 (6)0.0152 (5)−0.0065 (5)−0.0032 (5)0.0023 (5)
C8B0.0206 (5)0.0157 (5)0.0146 (5)−0.0005 (4)0.0015 (4)0.0009 (4)
C9B0.0239 (6)0.0171 (6)0.0162 (5)0.0001 (5)0.0007 (4)0.0022 (4)
C4A0.0290 (6)0.0236 (6)0.0133 (5)−0.0014 (5)−0.0052 (5)0.0011 (5)
C3A0.0299 (7)0.0270 (7)0.0137 (5)0.0033 (5)0.0015 (5)−0.0048 (5)
C1A—C2A1.4133 (17)C6A—H6A0.9500
C1A—C6A1.4171 (16)C6B—H6B0.9500
C1B—C6B1.4166 (17)C7A—C8A1.3548 (17)
C2A—C3A1.4043 (18)C7A—C1A1.4834 (16)
C2A—H2A0.9500C7A—H7A0.9500
C2B—C3B1.4020 (17)C7B—C8B1.3606 (17)
C2B—C1B1.4152 (16)C7B—C1B1.4806 (17)
C2B—H2B0.9500C7B—H7B0.9500
C3A—H3A0.9500C8A—H8A0.9500
C3B—C4B1.402 (2)C8B—C9B1.4649 (17)
C3B—H3B0.9500C8B—H8B0.9500
C4A—C3A1.4027 (19)C9A—C8A1.4671 (16)
C4A—H4A0.9500C9A—H9A0.9500
C4B—H4B0.9500C9B—H9B0.9500
C5A—C4A1.4063 (19)N1A—C9A1.2977 (16)
C5A—H5A0.9500N1B—C9B1.2985 (16)
C5B—C4B1.4100 (19)O1A—H1A0.91 (2)
C5B—C6B1.4017 (18)O1A—N1A1.4141 (14)
C5B—H5B0.9500O1B—H1B0.917 (19)
C6A—C5A1.4026 (17)O1B—N1B1.4090 (14)
C1A—C2A—H2A119.5C5B—C4B—H4B120.1
C1A—C6A—H6A119.9C5B—C6B—H6B119.7
C1A—C7A—H7A116.6C5B—C6B—C1B120.60 (11)
C1B—C6B—H6B119.7C6A—C5A—C4A120.52 (11)
C1B—C7B—H7B116.7C6A—C5A—H5A119.7
C1B—C2B—H2B119.6C6A—C1A—C7A122.75 (10)
C2A—C3A—H3A120.0C6B—C5B—C4B120.20 (12)
C2A—C1A—C6A118.62 (11)C6B—C5B—H5B119.9
C2A—C1A—C7A118.62 (11)C6B—C1B—C7B122.82 (10)
C2B—C3B—C4B120.13 (11)C7A—C8A—H8A119.9
C2B—C3B—H3B119.9C7A—C8A—C9A120.18 (11)
C2B—C1B—C6B118.47 (11)C7B—C8B—C9B121.15 (12)
C2B—C1B—C7B118.71 (11)C7B—C8B—H8B119.4
C3A—C4A—H4A120.1C8A—C7A—C1A126.72 (11)
C3A—C4A—C5A119.75 (11)C8A—C7A—H7A116.6
C3A—C2A—H2A119.5C8A—C9A—H9A116.4
C3A—C2A—C1A120.94 (11)C8B—C9B—H9B116.8
C3B—C4B—H4B120.1C8B—C7B—C1B126.51 (11)
C3B—C4B—C5B119.72 (12)C8B—C7B—H7B116.7
C3B—C2B—C1B120.87 (12)C9A—C8A—H8A119.9
C3B—C2B—H2B119.6C9A—N1A—O1A112.58 (9)
C4A—C3A—H3A120.0C9B—C8B—H8B119.4
C4A—C3A—C2A119.91 (11)C9B—N1B—O1B112.73 (10)
C4A—C5A—H5A119.7N1A—C9A—C8A127.25 (11)
C4B—C5B—H5B119.9N1A—C9A—H9A116.4
C4B—C3B—H3B119.9N1A—O1A—H1A102.2 (13)
C5A—C4A—H4A120.1N1B—C9B—H9B116.8
C5A—C6A—H6A119.9N1B—C9B—C8B126.41 (12)
C5A—C6A—C1A120.24 (11)N1B—O1B—H1B102.2 (12)
C1A—C2A—C3A—C4A−1.0 (2)C6A—C1A—C2A—C3A1.73 (18)
C1A—C6A—C5A—C4A0.04 (18)C6B—C5B—C4B—C3B0.50 (19)
C1A—C7A—C8A—C9A−174.32 (11)C7A—C1A—C2A—C3A−177.00 (11)
C1B—C7B—C8B—C9B−179.24 (11)C7A—C1A—C6A—C5A177.43 (11)
C1B—C2B—C3B—C4B0.13 (18)C7B—C8B—C9B—N1B175.07 (12)
C2A—C1A—C6A—C5A−1.24 (17)C7B—C1B—C6B—C5B178.75 (12)
C2B—C3B—C4B—C5B−0.73 (19)C8A—C7A—C1A—C2A165.01 (12)
C2B—C1B—C6B—C5B−0.92 (18)C8A—C7A—C1A—C6A−13.66 (18)
C3B—C2B—C1B—C6B0.69 (18)C8B—C7B—C1B—C6B−9.56 (19)
C3B—C2B—C1B—C7B−179.00 (11)C8B—C7B—C1B—C2B170.11 (12)
C4B—C5B—C6B—C1B0.34 (19)N1A—C9A—C8A—C7A164.78 (12)
C5A—C4A—C3A—C2A−0.2 (2)O1A—N1A—C9A—C8A3.45 (17)
C6A—C5A—C4A—C3A0.71 (19)O1B—N1B—C9B—C8B−1.80 (18)
D—H···AD—HH···AD···AD—H···A
O1A—H1A···N1Bi0.91 (2)1.85 (2)2.755 (2)174 (2)
O1B—H1B···N1Aii0.92 (2)1.95 (2)2.853 (2)170 (2)
C2A—H2A···Cg1iii0.952.703.563 (2)151
C5B—H5B···Cg2iv0.952.803.508 (2)132
C9B—H9B···Cg2v0.952.823.717 (2)159
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 and Cg2 are the centroids of rings C1A–C6A and C1B–C6B, respectively.

D—H⋯A D—HH⋯A DA D—H⋯A
O1A—H1A⋯N1B i 0.91 (2)1.85 (2)2.755 (2)174 (2)
O1B—H1B⋯N1A ii 0.92 (2)1.95 (2)2.853 (2)170 (2)
C2A—H2ACg1iii 0.952.703.563 (2)151
C5B—H5BCg2iv 0.952.803.508 (2)132
C9B—H9BCg2v 0.952.823.717 (2)159

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

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