Literature DB >> 22199747

1,3-Dibenzyl-1H-benzimidazol-2(3H)-one.

Youssef Kandri Rodi, Fouad Ouazzani Chahdi, El Mokhtar Essassi, Santiago V Luis, Michael Bolte, Lahcen El Ammari.   

Abstract

In the mol-ecular structure of the title compound, C(21)H(18)N(2)O, the fused-ring system is essentially planar, the largest deviation from the mean plane being 0.0121 (9) Å. The O atom and adjacent C atom are located in Wyckoff position 4e on a twofold axis (0, y, 1/4). The two benzyl groups are almost perpendicular to the benzimidazole plane, but point in opposite directions. The dihedral angle between the benzimidazole mean plane and the phenyl ring is 81.95 (5)°, whereas that between the two benzyl groups is 60.96 (7)°.

Entities:  

Year:  2011        PMID: 22199747      PMCID: PMC3238894          DOI: 10.1107/S1600536811046071

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


Related literature

For pharmacological and biochemical properties of benzimidazoles, see: Gravatt et al. (1994 ▶); Horton et al. (2003 ▶); Kim et al. (1996 ▶); Roth et al. (1997 ▶). Ouzidan et al. (2011a ▶,b ▶,c ▶).

Experimental

Crystal data

C21H18N2O M = 314.37 Monoclinic, a = 19.5983 (7) Å b = 9.0882 (2) Å c = 10.0473 (3) Å β = 115.593 (4)° V = 1613.98 (10) Å3 Z = 4 Cu Kα radiation μ = 0.63 mm−1 T = 200 K 0.37 × 0.21 × 0.15 mm

Data collection

Agilent SuperNova Dual Cu at zero Atlas diffractometer Absorption correction: multi-scan [CrysAlis PRO (Agilent, 2011) ▶, using spherical harmonics, implemented in SCALE3 ABSPACK scaling algorithm (Clark & Reid (1995 ▶)] T min = 0.950, T max = 1.000 7837 measured reflections 1611 independent reflections 1397 reflections with I > 2σ(I) R int = 0.028

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.106 S = 1.07 1611 reflections 111 parameters H-atom parameters constrained Δρmax = 0.15 e Å−3 Δρmin = −0.16 e Å−3 Data collection: CrysAlis PRO (Agilent, 2011 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: XP (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811046071/im2334sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811046071/im2334Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811046071/im2334Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C21H18N2OF(000) = 664
Mr = 314.37Dx = 1.294 Mg m3
Monoclinic, C2/cCu Kα radiation, λ = 1.54184 Å
Hall symbol: -C 2ycCell parameters from 5000 reflections
a = 19.5983 (7) Åθ = 5–50°
b = 9.0882 (2) ŵ = 0.63 mm1
c = 10.0473 (3) ÅT = 200 K
β = 115.593 (4)°Block, colourless
V = 1613.98 (10) Å30.37 × 0.21 × 0.15 mm
Z = 4
Agilent SuperNova Dual Cu at zero Atlas diffractometer1611 independent reflections
Radiation source: SuperNova (Cu) X-ray Source1397 reflections with I > 2σ(I)
mirrorRint = 0.028
Detector resolution: 10.4051 pixels mm-1θmax = 73.4°, θmin = 5.0°
ω scansh = −23→18
Absorption correction: multi-scan [CrysAlis PRO (Agilent, 2011), using spherical harmonics, implemented in SCALE3 ABSPACK scaling algorithm (Clark & Reid (1995)]k = −11→11
Tmin = 0.950, Tmax = 1.000l = −12→12
7837 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)] = 0.037H-atom parameters constrained
wR(F2) = 0.106w = 1/[σ2(Fo2) + (0.0565P)2 + 0.4305P] where P = (Fo2 + 2Fc2)/3
S = 1.07(Δ/σ)max = 0.001
1611 reflectionsΔρmax = 0.15 e Å3
111 parametersΔρmin = −0.16 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0010 (2)
Experimental. CrysAlisPro, Agilent Technologies, Version 1.171.35.11 (release 16-05-2011 CrysAlis171 .NET) Empirical absorption correction using spherical harmonics, implemented in SCALE3 ABSPACK scaling algorithm (Clark & Reid (1995)).
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
O10.50000.58201 (13)0.25000.0492 (4)
N10.53746 (5)0.35600 (11)0.19370 (10)0.0366 (3)
C10.52407 (6)0.20943 (12)0.21516 (11)0.0333 (3)
C20.54925 (7)0.08014 (14)0.17958 (13)0.0390 (3)
H20.58350.08060.13460.047*
C30.52422 (7)−0.05071 (14)0.21593 (14)0.0432 (3)
H30.5402−0.14440.19070.052*
C40.50000.44731 (19)0.25000.0378 (4)
C50.58741 (7)0.40758 (14)0.13068 (13)0.0412 (3)
H5A0.57850.51170.10880.049*
H5B0.57510.35640.03840.049*
C110.67024 (7)0.38418 (13)0.23142 (12)0.0376 (3)
C120.71696 (8)0.30976 (15)0.18389 (14)0.0459 (3)
H120.69700.26940.08960.055*
C130.79366 (8)0.29464 (16)0.27566 (17)0.0522 (4)
H130.82490.24500.24250.063*
C140.82333 (8)0.35325 (17)0.41560 (16)0.0518 (4)
H140.87480.34450.47650.062*
C150.77703 (8)0.42476 (16)0.46569 (14)0.0507 (4)
H150.79700.46260.56100.061*
C160.70099 (8)0.44026 (15)0.37424 (14)0.0450 (3)
H160.66990.48880.40850.054*
U11U22U33U12U13U23
O10.0546 (8)0.0361 (7)0.0477 (7)0.0000.0136 (6)0.000
N10.0302 (5)0.0396 (6)0.0357 (5)−0.0023 (4)0.0103 (4)0.0015 (4)
C10.0233 (5)0.0391 (6)0.0293 (5)−0.0018 (4)0.0036 (4)0.0003 (4)
C20.0295 (6)0.0461 (7)0.0374 (6)0.0012 (5)0.0107 (5)−0.0031 (5)
C30.0371 (7)0.0390 (6)0.0469 (7)0.0015 (5)0.0120 (6)−0.0036 (5)
C40.0329 (9)0.0390 (9)0.0311 (8)0.0000.0038 (7)0.000
C50.0356 (7)0.0493 (7)0.0337 (6)−0.0049 (5)0.0101 (5)0.0064 (5)
C110.0331 (6)0.0406 (6)0.0349 (6)−0.0063 (5)0.0106 (5)0.0064 (5)
C120.0424 (7)0.0531 (8)0.0415 (6)−0.0052 (6)0.0174 (6)0.0003 (6)
C130.0403 (8)0.0581 (9)0.0592 (8)0.0011 (6)0.0224 (7)0.0053 (7)
C140.0336 (7)0.0607 (9)0.0511 (8)−0.0050 (6)0.0088 (6)0.0129 (6)
C150.0412 (7)0.0618 (9)0.0377 (7)−0.0089 (6)0.0065 (6)0.0011 (6)
C160.0393 (7)0.0527 (7)0.0397 (7)−0.0028 (6)0.0139 (6)0.0000 (6)
O1—C41.224 (2)C5—H5B0.9700
N1—C41.3807 (14)C11—C121.3790 (19)
N1—C11.3924 (15)C11—C161.3910 (18)
N1—C51.4541 (15)C12—C131.3896 (19)
C1—C21.3801 (17)C12—H120.9300
C1—C1i1.397 (2)C13—C141.376 (2)
C2—C31.3939 (18)C13—H130.9300
C2—H20.9576C14—C151.376 (2)
C3—C3i1.390 (3)C14—H140.9300
C3—H30.9773C15—C161.3790 (18)
C4—N1i1.3807 (14)C15—H150.9300
C5—C111.5118 (17)C16—H160.9300
C5—H5A0.9700
C4—N1—C1110.02 (10)H5A—C5—H5B107.8
C4—N1—C5124.18 (11)C12—C11—C16118.71 (12)
C1—N1—C5125.68 (10)C12—C11—C5121.24 (11)
C2—C1—N1131.45 (11)C16—C11—C5120.04 (12)
C2—C1—C1i121.63 (7)C11—C12—C13120.56 (12)
N1—C1—C1i106.92 (6)C11—C12—H12119.7
C1—C2—C3116.92 (12)C13—C12—H12119.7
C1—C2—H2121.4C14—C13—C12119.89 (14)
C3—C2—H2121.7C14—C13—H13120.1
C3i—C3—C2121.44 (8)C12—C13—H13120.1
C3i—C3—H3119.4C13—C14—C15120.15 (13)
C2—C3—H3119.1C13—C14—H14119.9
O1—C4—N1i126.94 (7)C15—C14—H14119.9
O1—C4—N1126.94 (7)C14—C15—C16119.88 (13)
N1i—C4—N1106.12 (14)C14—C15—H15120.1
N1—C5—C11113.16 (9)C16—C15—H15120.1
N1—C5—H5A108.9C15—C16—C11120.78 (13)
C11—C5—H5A108.9C15—C16—H16119.6
N1—C5—H5B108.9C11—C16—H16119.6
C11—C5—H5B108.9
  8 in total

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