research communications
N-{4-[(6-chloropyridin-3-yl)methoxy]phenyl}-2,6-difluorobenzamide
ofaHubei Biopesticide Engineering Research Center, Hubei Academy of Agricultural Science, Wuhan 430064, People's Republic of China
*Correspondence e-mail: ying.liang@nberc.com
In the title compound, C19H13ClF2N2O2, the conformation of the N—H bond in the amide segment is anti to the C=O bond. The molecule is not planar, with dihedral angles between the central benzene ring and the outer benzene and pyridyl rings of 73.35 (7) and 81.26 (6)°, respectively. A weak intramolecular C—H⋯O hydrogen bond occurs. In the crystal, N—H⋯N, C—H⋯O and C—H⋯F hydrogen bonds lead to the formation of dimers. The N—H⋯N inversion dimers are linked by π–π contacts between adjacent pyridine rings [centroid–centroid = 3.8541 (12) Å] and C—H⋯π interactions. These contacts combine to stack the molecules along the a axis.
Keywords: crystal structure; amide derivative; pyridine; hydrogen bonding; π–π contacts.
CCDC reference: 1441555
1. Chemical context
Amide derivatives show diverse biological properties, acting as insecticides (Liu et al., 2004a), fungicides (Liu et al., 2004b) and acaricides (Shiga et al., 2003). in regular commercial use include benzamide (flutolanil, fluopicolide), nicotinamide (boscalid) and thiazole carboxamide (thifluzamide, ethaboxam). As a part of our work on the synthesis of novel fluorine-containing compounds with good biological activities, we report herein on the of the title compound,(I), Fig. 1.
2. Structural commentary
The conformation of the N—H and the C=O bonds in the amide segment are anti to one another, similar to the conformation observed in another amide compound (Gowda et al., 2010). The dihedral angle between the two benzene rings is 73.35 (6)° while that between the central benzene ring and the chloro-substituted pyridine ring is 81.26 (6). The amide residue C1/N1/C7/O1 lies close to the plane of the central benzene ring, making a dihedral angle of 8.73 (6)°. A weak intramolecular C9—H9⋯O1 hydrogen bond (Table 1) contributes to the planarity of this part of the molecule.
3. Supramolecular features
In the i hydrogen bonds, Table 1, link the molecules into inversion dimers and generate R22(22) rings (Bernstein et al., 1995). C14—H14B⋯O1ii and C19—H19⋯F2ii hydrogen bonds also form dimers, which enclose an R22(10) ring motif, Fig. 2. The N—H⋯N dimers are linked into chains along the c-axis direction by π–π stacking interactions between adjacent pyridyl rings [Cg1⋯Cg1iv = 3.8541 (12) Å; symmetry code: (iv) 1 − x, 1 − y, 1 − z] augmented by a weak C16—H16⋯Cg2 contact (Cg2 is the centroid of the C1–C6 benzene ring), Table 1, Fig. 3. These contacts combine to stack the molecules along the a axis, Fig. 4.
pairs of classical N1—H1⋯N24. Synthesis and crystallization
Triethylamine (6mmol) was added dropwise to a stirred solution of 4-(6-chloropyridin-3-yl) methoxy aniline (5mmol) and 2,6-difluorobenzoyl chloride (5mmol) in dry dichloromethane (20ml) at 275-277 K. The mixture was stirred at 283–288 K for 2 h, then washed with 0.5% hydrochloric acid solution, and a saturated aqueous solution of sodium hydrogen carbonate, dried and evaporated. The residue was recrystallized from dichloromethane, giving colourless blocks of the title compound after three weeks.
5. Database survey
A search of the Cambridge Structural Database (Version 5.36 with three updates) (Groom & Allen, 2014) for N-(4-(pyridin-3-ylmethoxy)phenyl)benzamide or its substituted derivatives gave no hits. However, structures of eight substituted 2,6-difluoro-N-phenylbenzamide derivatives were found, see for example Cockroft et al. (2007); Spitaleri et al. (2004); Fun et al. (2010). Two structures of purely organic 3-(phenoxymethyl)pyridine derivatives have also been reported (Lakshminarayana et al., 2009; Liu et al., 2010) together with that of a cadmium complex of 4-[(6-chloropyridin-3-yl)methoxy]benzoate, Li et al. (2007).
6. Refinement
Crystal data, data collection and structure . The NH H atom was located in a difference Fourier map and freely refined. The C-bound H atoms were positioned geometrically and refined using a riding model with d(C—H) = 0.93–0.97 Å and Uiso(H) = 1.2Ueq(C).
details are summarized in Table 2
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Supporting information
CCDC reference: 1441555
10.1107/S2056989015023701/sj5486sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S2056989015023701/sj5486Isup2.hkl
Supporting information file. DOI: 10.1107/S2056989015023701/sj5486Isup3.cml
Data collection: SMART (Bruker, 2000); cell
SAINT (Bruker, 2000); data reduction: SAINT (Bruker, 2000); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008) and Mercury (Macrae et al., 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008).C19H13ClF2N2O2 | Z = 2 |
Mr = 374.76 | F(000) = 384 |
Triclinic, P1 | Dx = 1.473 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 8.8173 (11) Å | Cell parameters from 2810 reflections |
b = 10.7036 (13) Å | θ = 2.3–28.3° |
c = 10.8452 (14) Å | µ = 0.26 mm−1 |
α = 61.939 (2)° | T = 298 K |
β = 77.597 (2)° | Block, colorless |
γ = 69.636 (2)° | 0.16 × 0.12 × 0.10 mm |
V = 845.15 (18) Å3 |
Bruker SMART APEX CCD area-detector diffractometer | 3271 independent reflections |
Radiation source: fine-focus sealed tube | 2886 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.029 |
φ and ω scans | θmax = 26.0°, θmin = 2.1° |
Absorption correction: multi-scan (SADABS; Sheldrick, 2001) | h = −10→10 |
Tmin = 0.959, Tmax = 0.974 | k = −13→13 |
5474 measured reflections | l = −12→13 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.045 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.116 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.06 | w = 1/[σ2(Fo2) + (0.0526P)2 + 0.196P] where P = (Fo2 + 2Fc2)/3 |
3271 reflections | (Δ/σ)max < 0.001 |
239 parameters | Δρmax = 0.21 e Å−3 |
0 restraints | Δρmin = −0.23 e Å−3 |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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. |
x | y | z | Uiso*/Ueq | ||
C1 | 0.7630 (2) | 0.2167 (2) | −0.02643 (18) | 0.0427 (4) | |
C2 | 0.8270 (2) | 0.1167 (2) | −0.08394 (19) | 0.0478 (4) | |
C3 | 0.9422 (3) | 0.1317 (3) | −0.1918 (2) | 0.0611 (6) | |
H3 | 0.9816 | 0.0618 | −0.2276 | 0.073* | |
C4 | 0.9982 (3) | 0.2526 (3) | −0.2461 (2) | 0.0706 (7) | |
H4 | 1.0773 | 0.2644 | −0.3195 | 0.085* | |
C5 | 0.9403 (3) | 0.3566 (3) | −0.1949 (2) | 0.0750 (7) | |
H5 | 0.9787 | 0.4388 | −0.2327 | 0.090* | |
C6 | 0.8239 (3) | 0.3360 (2) | −0.0861 (2) | 0.0602 (5) | |
C7 | 0.6521 (2) | 0.1886 (2) | 0.10413 (18) | 0.0432 (4) | |
C8 | 0.3644 (2) | 0.21024 (17) | 0.18987 (17) | 0.0391 (4) | |
C9 | 0.3813 (2) | 0.1688 (2) | 0.32952 (18) | 0.0462 (4) | |
H9 | 0.4817 | 0.1503 | 0.3590 | 0.055* | |
C10 | 0.2489 (2) | 0.1551 (2) | 0.42425 (18) | 0.0461 (4) | |
H10 | 0.2609 | 0.1273 | 0.5176 | 0.055* | |
C11 | 0.0990 (2) | 0.18196 (17) | 0.38294 (18) | 0.0408 (4) | |
C12 | 0.0809 (2) | 0.2233 (2) | 0.24416 (19) | 0.0470 (4) | |
H12 | −0.0198 | 0.2422 | 0.2149 | 0.056* | |
C13 | 0.2140 (2) | 0.2363 (2) | 0.14935 (18) | 0.0461 (4) | |
H13 | 0.2019 | 0.2631 | 0.0563 | 0.055* | |
C14 | −0.1851 (2) | 0.2030 (2) | 0.4525 (2) | 0.0497 (5) | |
H14A | −0.2488 | 0.1521 | 0.5341 | 0.060* | |
H14B | −0.1861 | 0.1737 | 0.3806 | 0.060* | |
C15 | −0.2607 (2) | 0.36755 (19) | 0.40005 (18) | 0.0414 (4) | |
C16 | −0.2680 (2) | 0.4370 (2) | 0.4829 (2) | 0.0498 (5) | |
H16 | −0.2264 | 0.3819 | 0.5710 | 0.060* | |
C17 | −0.3362 (2) | 0.5864 (2) | 0.4347 (2) | 0.0506 (5) | |
H17 | −0.3418 | 0.6348 | 0.4885 | 0.061* | |
C18 | −0.3961 (2) | 0.6622 (2) | 0.3043 (2) | 0.0479 (4) | |
C19 | −0.3260 (2) | 0.4551 (2) | 0.2721 (2) | 0.0503 (5) | |
H19 | −0.3230 | 0.4098 | 0.2161 | 0.060* | |
Cl1 | −0.48341 (8) | 0.85162 (6) | 0.23999 (7) | 0.0783 (2) | |
F1 | 0.77345 (18) | −0.00346 (13) | −0.02627 (13) | 0.0741 (4) | |
F2 | 0.7661 (2) | 0.43493 (16) | −0.03160 (16) | 0.1031 (6) | |
N1 | 0.49454 (18) | 0.22686 (16) | 0.08547 (16) | 0.0430 (4) | |
H1 | 0.468 (2) | 0.265 (2) | −0.001 (2) | 0.052* | |
N2 | −0.3942 (2) | 0.60203 (18) | 0.22226 (16) | 0.0537 (4) | |
O1 | 0.71012 (17) | 0.1345 (2) | 0.21658 (15) | 0.0727 (5) | |
O2 | −0.02172 (15) | 0.16015 (14) | 0.48849 (13) | 0.0495 (3) |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0410 (9) | 0.0482 (10) | 0.0375 (9) | −0.0112 (8) | −0.0013 (7) | −0.0189 (8) |
C2 | 0.0514 (11) | 0.0483 (10) | 0.0415 (10) | −0.0084 (8) | −0.0054 (8) | −0.0207 (8) |
C3 | 0.0524 (12) | 0.0763 (15) | 0.0463 (11) | 0.0010 (11) | −0.0033 (9) | −0.0335 (11) |
C4 | 0.0484 (12) | 0.116 (2) | 0.0456 (12) | −0.0288 (13) | 0.0066 (9) | −0.0342 (13) |
C5 | 0.0860 (17) | 0.1005 (19) | 0.0517 (13) | −0.0615 (15) | 0.0073 (12) | −0.0240 (13) |
C6 | 0.0785 (15) | 0.0630 (13) | 0.0489 (11) | −0.0310 (11) | 0.0043 (10) | −0.0278 (10) |
C7 | 0.0470 (10) | 0.0465 (9) | 0.0385 (9) | −0.0125 (8) | −0.0001 (8) | −0.0220 (8) |
C8 | 0.0434 (9) | 0.0330 (8) | 0.0364 (9) | −0.0069 (7) | 0.0014 (7) | −0.0159 (7) |
C9 | 0.0425 (10) | 0.0540 (10) | 0.0408 (10) | −0.0085 (8) | −0.0032 (8) | −0.0230 (8) |
C10 | 0.0508 (11) | 0.0483 (10) | 0.0347 (9) | −0.0076 (8) | −0.0026 (8) | −0.0188 (8) |
C11 | 0.0453 (10) | 0.0322 (8) | 0.0391 (9) | −0.0062 (7) | 0.0016 (7) | −0.0160 (7) |
C12 | 0.0423 (10) | 0.0523 (10) | 0.0444 (10) | −0.0092 (8) | −0.0041 (8) | −0.0219 (9) |
C13 | 0.0512 (11) | 0.0480 (10) | 0.0355 (9) | −0.0090 (8) | −0.0030 (8) | −0.0188 (8) |
C14 | 0.0457 (10) | 0.0462 (10) | 0.0515 (11) | −0.0141 (8) | 0.0055 (8) | −0.0194 (9) |
C15 | 0.0353 (9) | 0.0447 (9) | 0.0424 (9) | −0.0120 (7) | 0.0045 (7) | −0.0198 (8) |
C16 | 0.0479 (11) | 0.0540 (11) | 0.0457 (10) | −0.0101 (8) | −0.0079 (8) | −0.0214 (9) |
C17 | 0.0483 (11) | 0.0552 (11) | 0.0573 (12) | −0.0160 (9) | 0.0002 (9) | −0.0321 (10) |
C18 | 0.0379 (9) | 0.0427 (9) | 0.0550 (11) | −0.0123 (7) | 0.0062 (8) | −0.0179 (9) |
C19 | 0.0544 (11) | 0.0524 (11) | 0.0444 (10) | −0.0118 (9) | 0.0011 (8) | −0.0254 (9) |
Cl1 | 0.0732 (4) | 0.0415 (3) | 0.0948 (5) | −0.0080 (2) | 0.0032 (3) | −0.0186 (3) |
F1 | 0.1111 (11) | 0.0569 (7) | 0.0632 (8) | −0.0301 (7) | 0.0031 (7) | −0.0322 (6) |
F2 | 0.1807 (18) | 0.0716 (9) | 0.0786 (10) | −0.0650 (11) | 0.0283 (10) | −0.0444 (8) |
N1 | 0.0453 (9) | 0.0451 (8) | 0.0327 (8) | −0.0082 (6) | −0.0008 (6) | −0.0161 (7) |
N2 | 0.0541 (10) | 0.0527 (9) | 0.0428 (9) | −0.0079 (7) | −0.0019 (7) | −0.0173 (7) |
O1 | 0.0500 (8) | 0.1190 (14) | 0.0444 (8) | −0.0210 (9) | −0.0008 (7) | −0.0348 (9) |
O2 | 0.0436 (7) | 0.0507 (7) | 0.0411 (7) | −0.0063 (6) | 0.0034 (5) | −0.0170 (6) |
C1—C6 | 1.374 (3) | C11—O2 | 1.377 (2) |
C1—C2 | 1.382 (2) | C11—C12 | 1.383 (2) |
C1—C7 | 1.504 (2) | C12—C13 | 1.384 (2) |
C2—F1 | 1.344 (2) | C12—H12 | 0.9300 |
C2—C3 | 1.361 (3) | C13—H13 | 0.9300 |
C3—C4 | 1.366 (3) | C14—O2 | 1.432 (2) |
C3—H3 | 0.9300 | C14—C15 | 1.508 (2) |
C4—C5 | 1.368 (4) | C14—H14A | 0.9700 |
C4—H4 | 0.9300 | C14—H14B | 0.9700 |
C5—C6 | 1.374 (3) | C15—C19 | 1.371 (3) |
C5—H5 | 0.9300 | C15—C16 | 1.391 (2) |
C6—F2 | 1.347 (2) | C16—C17 | 1.368 (3) |
C7—O1 | 1.217 (2) | C16—H16 | 0.9300 |
C7—N1 | 1.336 (2) | C17—C18 | 1.372 (3) |
C8—C13 | 1.381 (3) | C17—H17 | 0.9300 |
C8—C9 | 1.390 (2) | C18—N2 | 1.316 (2) |
C8—N1 | 1.423 (2) | C18—Cl1 | 1.7328 (19) |
C9—C10 | 1.379 (2) | C19—N2 | 1.345 (2) |
C9—H9 | 0.9300 | C19—H19 | 0.9300 |
C10—C11 | 1.378 (3) | N1—H1 | 0.88 (2) |
C10—H10 | 0.9300 | ||
C6—C1—C2 | 115.21 (17) | C11—C12—C13 | 119.36 (17) |
C6—C1—C7 | 121.35 (16) | C11—C12—H12 | 120.3 |
C2—C1—C7 | 122.93 (16) | C13—C12—H12 | 120.3 |
F1—C2—C3 | 119.06 (18) | C8—C13—C12 | 121.47 (16) |
F1—C2—C1 | 117.06 (16) | C8—C13—H13 | 119.3 |
C3—C2—C1 | 123.86 (19) | C12—C13—H13 | 119.3 |
C2—C3—C4 | 118.0 (2) | O2—C14—C15 | 111.33 (15) |
C2—C3—H3 | 121.0 | O2—C14—H14A | 109.4 |
C4—C3—H3 | 121.0 | C15—C14—H14A | 109.4 |
C3—C4—C5 | 121.5 (2) | O2—C14—H14B | 109.4 |
C3—C4—H4 | 119.3 | C15—C14—H14B | 109.4 |
C5—C4—H4 | 119.3 | H14A—C14—H14B | 108.0 |
C4—C5—C6 | 118.1 (2) | C19—C15—C16 | 116.97 (17) |
C4—C5—H5 | 121.0 | C19—C15—C14 | 122.83 (17) |
C6—C5—H5 | 121.0 | C16—C15—C14 | 120.19 (16) |
F2—C6—C1 | 116.98 (18) | C17—C16—C15 | 119.99 (17) |
F2—C6—C5 | 119.7 (2) | C17—C16—H16 | 120.0 |
C1—C6—C5 | 123.4 (2) | C15—C16—H16 | 120.0 |
O1—C7—N1 | 125.21 (17) | C16—C17—C18 | 117.59 (17) |
O1—C7—C1 | 118.93 (16) | C16—C17—H17 | 121.2 |
N1—C7—C1 | 115.86 (15) | C18—C17—H17 | 121.2 |
C13—C8—C9 | 118.73 (16) | N2—C18—C17 | 124.97 (17) |
C13—C8—N1 | 117.80 (15) | N2—C18—Cl1 | 116.22 (15) |
C9—C8—N1 | 123.47 (16) | C17—C18—Cl1 | 118.81 (15) |
C10—C9—C8 | 119.84 (17) | N2—C19—C15 | 124.31 (17) |
C10—C9—H9 | 120.1 | N2—C19—H19 | 117.8 |
C8—C9—H9 | 120.1 | C15—C19—H19 | 117.8 |
C11—C10—C9 | 121.11 (16) | C7—N1—C8 | 127.66 (15) |
C11—C10—H10 | 119.4 | C7—N1—H1 | 116.4 (13) |
C9—C10—H10 | 119.4 | C8—N1—H1 | 115.9 (13) |
O2—C11—C10 | 115.23 (15) | C18—N2—C19 | 116.17 (17) |
O2—C11—C12 | 125.25 (16) | C11—O2—C14 | 118.83 (14) |
C10—C11—C12 | 119.49 (16) | ||
C6—C1—C2—F1 | 178.43 (17) | C10—C11—C12—C13 | 0.3 (3) |
C7—C1—C2—F1 | 6.5 (3) | C9—C8—C13—C12 | 0.6 (3) |
C6—C1—C2—C3 | 0.0 (3) | N1—C8—C13—C12 | −179.67 (16) |
C7—C1—C2—C3 | −171.90 (18) | C11—C12—C13—C8 | −0.6 (3) |
F1—C2—C3—C4 | −178.15 (19) | O2—C14—C15—C19 | 123.96 (19) |
C1—C2—C3—C4 | 0.2 (3) | O2—C14—C15—C16 | −56.7 (2) |
C2—C3—C4—C5 | −0.4 (3) | C19—C15—C16—C17 | −0.8 (3) |
C3—C4—C5—C6 | 0.3 (4) | C14—C15—C16—C17 | 179.80 (17) |
C2—C1—C6—F2 | −179.11 (18) | C15—C16—C17—C18 | 0.3 (3) |
C7—C1—C6—F2 | −7.1 (3) | C16—C17—C18—N2 | 0.6 (3) |
C2—C1—C6—C5 | −0.1 (3) | C16—C17—C18—Cl1 | 179.99 (14) |
C7—C1—C6—C5 | 171.9 (2) | C16—C15—C19—N2 | 0.7 (3) |
C4—C5—C6—F2 | 178.9 (2) | C14—C15—C19—N2 | −179.97 (17) |
C4—C5—C6—C1 | 0.0 (4) | O1—C7—N1—C8 | −1.5 (3) |
C6—C1—C7—O1 | −77.8 (3) | C1—C7—N1—C8 | 178.76 (15) |
C2—C1—C7—O1 | 93.7 (2) | C13—C8—N1—C7 | −170.21 (16) |
C6—C1—C7—N1 | 102.0 (2) | C9—C8—N1—C7 | 9.5 (3) |
C2—C1—C7—N1 | −86.6 (2) | C17—C18—N2—C19 | −0.7 (3) |
C13—C8—C9—C10 | −0.3 (3) | Cl1—C18—N2—C19 | 179.84 (14) |
N1—C8—C9—C10 | −179.98 (16) | C15—C19—N2—C18 | 0.1 (3) |
C8—C9—C10—C11 | 0.0 (3) | C10—C11—O2—C14 | 172.31 (14) |
C9—C10—C11—O2 | 178.18 (16) | C12—C11—O2—C14 | −9.6 (2) |
C9—C10—C11—C12 | 0.0 (3) | C15—C14—O2—C11 | −78.49 (19) |
O2—C11—C12—C13 | −177.66 (16) |
Cg2 is the centroid of the C1–C6 benzene ring. |
D—H···A | D—H | H···A | D···A | D—H···A |
C9—H9···O1 | 0.93 | 2.27 | 2.863 (2) | 121 |
N1—H1···N2i | 0.88 (2) | 2.24 (2) | 3.109 (2) | 170.6 (18) |
C19—H19···F2ii | 0.93 | 2.54 | 3.309 (2) | 140 |
C14—H14B···O1ii | 0.97 | 2.42 | 3.344 (3) | 160 |
C16—H16···Cg2iii | 0.93 | 2.99 | 3.912 (2) | 173 |
Symmetry codes: (i) −x, −y+1, −z; (ii) x−1, y, z; (iii) x−1, y, z+1. |
Acknowledgements
We gratefully acknowledge the financial support of this work by the Youth Science Foundation of Hubei Academy of Agricultural Sciences (grant No. 2013NKYJJ22) and the Key Laboratory of Integrated Pest Management in Crops in Central China, the Ministry of Agriculture and Hubei Key Laboratory of Crop Diseases, Insect Pests and Weed Control (grant No. 2015ZTSJJ9).
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