Literature DB >> 23476527

N-[(1,3-Benzodioxol-5-yl)meth-yl]-4-methyl-benzamide: an analogue of capsaicin.

Stella H Maganhi1, Mariana C F C B Damião, Maurício T Tavares, Roberto Parise Filho.   

Abstract

In the title compound, C16H15NO3, the five-membered 1,3-dioxole ring is in an envelope conformation with the methyl-ene C atom as the flap atom [lying 0.202 (3) Å out of the plane formed by the other four atoms]. The benzene ring makes a dihedral angle of 84.65 (4)° with the best least-squares plane through the 1,3-benzodioxole fused-ring system, which substitutes the 2-methoxyphenol moiety in capsaicin. In the crystal, mol-ecules are connected into a zigzag supra-molecular chain along the c-axis direction by N-H⋯O hydrogen bonds. These chains are connected into a layer in the ac plane by C-H⋯π inter-actions.

Entities:  

Year:  2013        PMID: 23476527      PMCID: PMC3588503          DOI: 10.1107/S1600536813002201

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


Related literature

For the biological activity of capsaicin, see: Okamoto et al. (2011 ▶). For ring conformational analysis, see: Cremer & Pople (1975 ▶).

Experimental

Crystal data

C16H15NO3 M = 269.29 Monoclinic, a = 4.9810 (2) Å b = 26.652 (1) Å c = 10.0545 (3) Å β = 92.139 (2)° V = 1333.84 (8) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 290 K 0.33 × 0.24 × 0.16 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: numerical (SADABS; Sheldrick, 1996 ▶) T min = 0.940, T max = 0.951 4550 measured reflections 2602 independent reflections 1698 reflections with I > 2σ(I) R int = 0.023

Refinement

R[F 2 > 2σ(F 2)] = 0.050 wR(F 2) = 0.149 S = 1.03 2602 reflections 182 parameters H-atom parameters constrained Δρmax = 0.21 e Å−3 Δρmin = −0.20 e Å−3 Data collection: COLLECT (Nonius, 1999 ▶); cell refinement: SCALEPACK (Otwinowski & Minor, 1997 ▶); data reduction: DENZO (Otwinowski & Minor, 1997 ▶) and SCALEPACK; program(s) used to solve structure: SIR97 (Altomare et al., 1999 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012 ▶); software used to prepare material for publication: Marvinsketch (Chemaxon, 2010 ▶) and publCIF (Westrip, 2010 ▶). Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536813002201/tk5191sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813002201/tk5191Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813002201/tk5191Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C16H15NO3F(000) = 568
Mr = 269.29Dx = 1.341 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 5124 reflections
a = 4.9810 (2) Åθ = 3.1–27.5°
b = 26.652 (1) ŵ = 0.09 mm1
c = 10.0545 (3) ÅT = 290 K
β = 92.139 (2)°Prism, colourless
V = 1333.84 (8) Å30.33 × 0.24 × 0.16 mm
Z = 4
Bruker APEXII CCD area-detector diffractometer2602 independent reflections
Radiation source: fine-focus sealed tube1698 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.023
Detector resolution: 0 pixels mm-1θmax = 26.0°, θmin = 3.1°
φ and ω scansh = −6→6
Absorption correction: numerical (SADABS; Sheldrick, 1996)k = −32→30
Tmin = 0.940, Tmax = 0.951l = −12→12
4550 measured 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)] = 0.050Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.149H-atom parameters constrained
S = 1.03w = 1/[σ2(Fo2) + (0.0859P)2 + 0.0674P] where P = (Fo2 + 2Fc2)/3
2602 reflections(Δ/σ)max < 0.001
182 parametersΔρmax = 0.21 e Å3
0 restraintsΔρmin = −0.20 e Å3
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
O1−0.0219 (3)0.06137 (6)0.88685 (15)0.0754 (5)
O2−0.0295 (3)0.00662 (6)0.71012 (17)0.0797 (5)
O30.4080 (3)0.24272 (5)0.87268 (12)0.0634 (4)
N10.4208 (3)0.22490 (6)0.65426 (14)0.0496 (4)
H1N10.37680.23570.57020.060*
C10.1365 (4)0.08000 (7)0.78849 (19)0.0525 (5)
C20.1354 (4)0.04694 (8)0.6838 (2)0.0585 (5)
C30.2867 (5)0.05485 (8)0.5769 (2)0.0733 (6)
H30.28780.03220.50650.088*
C40.4407 (4)0.09851 (8)0.5771 (2)0.0649 (6)
H40.54830.10470.50530.078*
C50.4398 (3)0.13305 (7)0.68029 (18)0.0503 (5)
C60.2825 (3)0.12319 (7)0.79020 (18)0.0505 (5)
H60.27820.14530.86160.061*
C7−0.1575 (5)0.01955 (9)0.8290 (2)0.0740 (7)
H7A−0.34440.02790.80940.089*
H7B−0.1510−0.00860.89030.089*
C80.5961 (4)0.18139 (7)0.6730 (2)0.0556 (5)
H8A0.70420.18560.75450.067*
H8B0.71690.17950.59970.067*
C90.3359 (3)0.25214 (7)0.75640 (17)0.0467 (5)
C100.1449 (3)0.29384 (7)0.72454 (16)0.0440 (4)
C11−0.0105 (4)0.29652 (7)0.60682 (19)0.0547 (5)
H110.00650.27190.54220.066*
C12−0.1888 (4)0.33522 (8)0.5853 (2)0.0620 (6)
H12−0.29180.33600.50620.074*
C13−0.2198 (4)0.37300 (7)0.6775 (2)0.0535 (5)
C14−0.0639 (4)0.37058 (8)0.7936 (2)0.0598 (5)
H14−0.07790.39580.85700.072*
C150.1126 (4)0.33142 (8)0.81753 (18)0.0576 (5)
H150.21170.33030.89770.069*
C16−0.4161 (4)0.41514 (8)0.6534 (2)0.0710 (6)
H16A−0.36340.43450.57820.106*
H16B−0.41800.43630.73070.106*
H16C−0.59240.40160.63580.106*
U11U22U33U12U13U23
O10.0884 (10)0.0677 (10)0.0708 (10)−0.0258 (8)0.0130 (8)−0.0058 (8)
O20.0972 (11)0.0531 (9)0.0875 (12)−0.0117 (8)−0.0135 (9)−0.0127 (8)
O30.0857 (10)0.0681 (10)0.0363 (8)0.0119 (8)−0.0003 (6)0.0050 (7)
N10.0628 (9)0.0497 (9)0.0366 (8)0.0042 (7)0.0049 (7)0.0051 (7)
C10.0582 (11)0.0506 (12)0.0482 (11)0.0027 (9)−0.0053 (9)−0.0010 (9)
C20.0697 (13)0.0469 (11)0.0577 (13)0.0060 (10)−0.0126 (10)−0.0048 (10)
C30.1024 (17)0.0590 (14)0.0577 (14)0.0133 (13)−0.0077 (12)−0.0177 (11)
C40.0821 (14)0.0646 (14)0.0486 (12)0.0180 (11)0.0101 (10)−0.0022 (10)
C50.0545 (11)0.0504 (11)0.0459 (11)0.0121 (9)0.0000 (8)0.0027 (9)
C60.0592 (11)0.0481 (11)0.0440 (11)0.0028 (9)0.0003 (8)−0.0066 (9)
C70.0766 (14)0.0614 (14)0.0827 (17)−0.0153 (12)−0.0136 (13)−0.0005 (12)
C80.0553 (11)0.0590 (12)0.0530 (11)0.0067 (10)0.0089 (8)0.0053 (9)
C90.0559 (10)0.0482 (11)0.0361 (10)−0.0035 (8)0.0040 (8)0.0042 (8)
C100.0507 (10)0.0452 (10)0.0365 (9)−0.0044 (8)0.0069 (7)0.0020 (8)
C110.0632 (11)0.0533 (12)0.0474 (11)0.0016 (9)−0.0009 (9)−0.0075 (9)
C120.0610 (12)0.0660 (14)0.0582 (13)0.0061 (11)−0.0090 (9)−0.0025 (11)
C130.0481 (10)0.0524 (12)0.0605 (12)−0.0026 (9)0.0088 (9)0.0040 (10)
C140.0707 (13)0.0547 (13)0.0544 (12)0.0039 (10)0.0093 (10)−0.0095 (10)
C150.0712 (13)0.0598 (13)0.0417 (11)0.0020 (10)−0.0008 (9)−0.0037 (9)
C160.0593 (13)0.0664 (14)0.0879 (17)0.0101 (11)0.0121 (11)0.0065 (12)
O1—C11.380 (2)C7—H7B0.9700
O1—C71.417 (3)C8—H8A0.9700
O2—C21.384 (2)C8—H8B0.9700
O2—C71.418 (3)C9—C101.490 (3)
O3—C91.2358 (19)C10—C151.384 (3)
N1—C91.339 (2)C10—C111.392 (3)
N1—C81.459 (2)C11—C121.373 (3)
N1—H1N10.9124C11—H110.9300
C1—C61.361 (3)C12—C131.382 (3)
C1—C21.372 (3)C12—H120.9300
C2—C31.352 (3)C13—C141.380 (3)
C3—C41.394 (3)C13—C161.503 (3)
C3—H30.9300C14—C151.380 (3)
C4—C51.387 (3)C14—H140.9300
C4—H40.9300C15—H150.9300
C5—C61.403 (3)C16—H16A0.9600
C5—C81.508 (3)C16—H16B0.9600
C6—H60.9300C16—H16C0.9600
C7—H7A0.9700
C1—O1—C7105.39 (16)C5—C8—H8A109.2
C2—O2—C7105.13 (16)N1—C8—H8B109.2
C9—N1—C8122.43 (15)C5—C8—H8B109.2
C9—N1—H1N1117.9H8A—C8—H8B107.9
C8—N1—H1N1119.5O3—C9—N1121.77 (17)
C6—C1—C2122.7 (2)O3—C9—C10121.03 (16)
C6—C1—O1127.92 (18)N1—C9—C10117.19 (15)
C2—C1—O1109.40 (18)C15—C10—C11117.55 (17)
C3—C2—C1121.5 (2)C15—C10—C9118.96 (16)
C3—C2—O2128.7 (2)C11—C10—C9123.47 (17)
C1—C2—O2109.73 (19)C12—C11—C10120.57 (18)
C2—C3—C4116.89 (19)C12—C11—H11119.7
C2—C3—H3121.6C10—C11—H11119.7
C4—C3—H3121.6C11—C12—C13121.98 (18)
C5—C4—C3122.5 (2)C11—C12—H12119.0
C5—C4—H4118.7C13—C12—H12119.0
C3—C4—H4118.7C14—C13—C12117.42 (18)
C4—C5—C6118.83 (19)C14—C13—C16120.94 (19)
C4—C5—C8120.96 (17)C12—C13—C16121.64 (18)
C6—C5—C8120.17 (17)C13—C14—C15121.17 (18)
C1—C6—C5117.52 (17)C13—C14—H14119.4
C1—C6—H6121.2C15—C14—H14119.4
C5—C6—H6121.2C14—C15—C10121.30 (17)
O1—C7—O2108.35 (18)C14—C15—H15119.4
O1—C7—H7A110.0C10—C15—H15119.4
O2—C7—H7A110.0C13—C16—H16A109.5
O1—C7—H7B110.0C13—C16—H16B109.5
O2—C7—H7B110.0H16A—C16—H16B109.5
H7A—C7—H7B108.4C13—C16—H16C109.5
N1—C8—C5112.19 (14)H16A—C16—H16C109.5
N1—C8—H8A109.2H16B—C16—H16C109.5
C7—O1—C1—C6172.16 (19)C9—N1—C8—C593.3 (2)
C7—O1—C1—C2−9.7 (2)C4—C5—C8—N1108.75 (19)
C6—C1—C2—C31.8 (3)C6—C5—C8—N1−68.9 (2)
O1—C1—C2—C3−176.41 (17)C8—N1—C9—O32.1 (3)
C6—C1—C2—O2179.79 (16)C8—N1—C9—C10−176.54 (15)
O1—C1—C2—O21.6 (2)O3—C9—C10—C1520.0 (3)
C7—O2—C2—C3−174.9 (2)N1—C9—C10—C15−161.38 (17)
C7—O2—C2—C17.3 (2)O3—C9—C10—C11−158.13 (18)
C1—C2—C3—C4−0.9 (3)N1—C9—C10—C1120.5 (3)
O2—C2—C3—C4−178.44 (19)C15—C10—C11—C12−0.1 (3)
C2—C3—C4—C5−0.7 (3)C9—C10—C11—C12178.03 (17)
C3—C4—C5—C61.5 (3)C10—C11—C12—C130.6 (3)
C3—C4—C5—C8−176.20 (18)C11—C12—C13—C140.0 (3)
C2—C1—C6—C5−1.0 (3)C11—C12—C13—C16−179.77 (18)
O1—C1—C6—C5176.87 (17)C12—C13—C14—C15−1.1 (3)
C4—C5—C6—C1−0.6 (3)C16—C13—C14—C15178.62 (18)
C8—C5—C6—C1177.12 (16)C13—C14—C15—C101.7 (3)
C1—O1—C7—O214.2 (2)C11—C10—C15—C14−1.1 (3)
C2—O2—C7—O1−13.3 (2)C9—C10—C15—C14−179.27 (17)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O3i0.912.082.958 (2)162
C7—H7A···Cg10.972.743.603 (3)149
C16—H16C···Cg20.962.963.829 (2)151
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 and Cg2 are the centroids of the C1–C6 and C10–C15 rings, respectively.

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1N1⋯O3i 0.912.082.958 (2)162
C7—H7ACg10.972.743.603 (3)149
C16—H16CCg20.962.963.829 (2)151

Symmetry code: (i) .

  2 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.  Synthesis of a new [6]-gingerol analogue and its protective effect with respect to the development of metabolic syndrome in mice fed a high-fat diet.

Authors:  Mayumi Okamoto; Hiroyuki Irii; Yu Tahara; Hiroyuki Ishii; Akiko Hirao; Haruhide Udagawa; Masaki Hiramoto; Kazuki Yasuda; Atsuo Takanishi; Shigenobu Shibata; Isao Shimizu
Journal:  J Med Chem       Date:  2011-08-26       Impact factor: 7.446

  2 in total

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