Literature DB >> 23476443

2-(1-Phenyl-1H-benzimidazol-2-yl)phenol.

A Thiruvalluvar1, S Rosepriya, K Jayamoorthy, J Jayabharathi, Sema Oztürk Yildirim, R J Butcher.   

Abstract

In the title mol-ecule, C19H14N2O, the benzimidazole unit is close to being planar [maximum deviation = 0.0253 (11) Å] and forms dihedral angles of 68.98 (6) and 20.38 (7)° with the adjacent phenyl and benzene rings; the dihedral angle between the latter two planes is 64.30 (7)°. An intra-molecular O-H⋯N hydrogen bond generates an S(6) ring motif. In the crystal, mol-ecules are linked by C-H⋯N and C-H⋯O hydrogen bonds, and consolidated into a three-dimensional architecture by π-π stacking inter-actions, with a centroid-centroid distance of 3.8428 (12) Å.

Entities:  

Year:  2012        PMID: 23476443      PMCID: PMC3588362          DOI: 10.1107/S1600536812049859

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


Related literature

For the range of pharmacological activities and toxicological properties of benzimidazole derivatives, see: Spasov et al. (1999 ▶). For closely related crystal structures, see: Jayamoorthy et al. (2012 ▶); Rosepriya et al. (2012 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C19H14N2O M = 286.32 Triclinic, a = 8.1941 (6) Å b = 9.5983 (14) Å c = 10.3193 (18) Å α = 64.637 (16)° β = 80.356 (10)° γ = 83.610 (9)° V = 722.3 (2) Å3 Z = 2 Cu Kα radiation μ = 0.66 mm−1 T = 123 K 0.76 × 0.46 × 0.32 mm

Data collection

Agilent Xcalibur Ruby Gemini diffractometer Absorption correction: analytical [CrysAlis PRO (Agilent, 2012 ▶), using a multi-faceted crystal model (Clark & Reid, 1995 ▶)] T min = 0.731, T max = 0.811 4335 measured reflections 2826 independent reflections 2420 reflections with I > 2σ(I) R int = 0.076

Refinement

R[F 2 > 2σ(F 2)] = 0.059 wR(F 2) = 0.171 S = 1.04 2826 reflections 203 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.32 e Å−3 Δρmin = −0.31 e Å−3 Data collection: CrysAlis PRO (Agilent, 2012 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS86 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: PLATON. Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812049859/tk5179sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812049859/tk5179Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812049859/tk5179Isup3.cdx Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812049859/tk5179Isup4.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H14N2OZ = 2
Mr = 286.32F(000) = 300
Triclinic, P1Dx = 1.316 Mg m3
Hall symbol: -P 1Melting point: 387 K
a = 8.1941 (6) ÅCu Kα radiation, λ = 1.54184 Å
b = 9.5983 (14) ÅCell parameters from 772 reflections
c = 10.3193 (18) Åθ = 4.8–75.4°
α = 64.637 (16)°µ = 0.66 mm1
β = 80.356 (10)°T = 123 K
γ = 83.610 (9)°Block, colourless
V = 722.3 (2) Å30.76 × 0.46 × 0.32 mm
Agilent Xcalibur Ruby Gemini diffractometer2826 independent reflections
Radiation source: Enhance (Cu) X-ray Source2420 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.076
Detector resolution: 10.5081 pixels mm-1θmax = 75.8°, θmin = 5.5°
ω scansh = −10→10
Absorption correction: analytical [CrysAlis PRO (Agilent, 2012), using a multi-faceted crystal model (Clark & Reid, 1995)]k = −9→12
Tmin = 0.731, Tmax = 0.811l = −12→12
4335 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)] = 0.059Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.171H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.1182P)2 + 0.1646P] where P = (Fo2 + 2Fc2)/3
2826 reflections(Δ/σ)max = 0.001
203 parametersΔρmax = 0.32 e Å3
0 restraintsΔρmin = −0.31 e Å3
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
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
O260.61570 (15)−0.11111 (15)−0.08352 (15)0.0336 (4)
N10.78361 (16)0.03924 (16)0.19436 (15)0.0249 (4)
N30.70983 (17)−0.15812 (16)0.15919 (16)0.0262 (4)
C20.75812 (18)−0.01378 (18)0.09515 (18)0.0238 (4)
C40.6537 (2)−0.3401 (2)0.4242 (2)0.0331 (5)
C50.6508 (2)−0.3488 (2)0.5613 (2)0.0384 (5)
C60.6940 (3)−0.2238 (2)0.5834 (2)0.0386 (6)
C70.7442 (2)−0.0876 (2)0.4680 (2)0.0340 (5)
C80.7465 (2)−0.07982 (18)0.33084 (19)0.0272 (5)
C90.70108 (19)−0.20226 (19)0.30605 (19)0.0269 (5)
C110.8035 (2)0.19445 (18)0.17495 (18)0.0250 (5)
C120.9424 (2)0.2276 (2)0.2142 (2)0.0301 (5)
C130.9554 (2)0.3752 (2)0.2042 (2)0.0344 (5)
C140.8320 (2)0.4876 (2)0.1542 (2)0.0331 (5)
C150.6936 (2)0.4524 (2)0.1156 (2)0.0345 (5)
C160.6775 (2)0.30484 (19)0.1263 (2)0.0306 (5)
C210.77729 (18)0.07290 (18)−0.06192 (18)0.0245 (5)
C220.8703 (2)0.2056 (2)−0.13605 (19)0.0286 (5)
C230.8821 (2)0.2863 (2)−0.2849 (2)0.0343 (5)
C240.7977 (2)0.2376 (2)−0.3632 (2)0.0359 (5)
C250.7070 (2)0.1065 (2)−0.2933 (2)0.0330 (5)
C260.69972 (19)0.0214 (2)−0.14465 (19)0.0272 (5)
H40.62439−0.425230.410120.0397*
H50.61885−0.441360.642700.0460*
H60.68856−0.232870.679340.0463*
H70.77567−0.003490.482460.0408*
H121.027920.150690.247560.0361*
H131.049930.398900.231890.0413*
H140.842180.588630.146490.0397*
H150.608630.529660.081290.0414*
H160.581780.280370.100800.0367*
H220.926330.24072−0.082870.0343*
H230.947520.37448−0.333270.0411*
H240.802490.29466−0.464940.0431*
H250.649020.07421−0.347400.0395*
H260.629 (4)−0.158 (3)0.018 (3)0.057 (7)*
U11U22U33U12U13U23
O260.0296 (6)0.0337 (7)0.0436 (8)−0.0070 (5)−0.0042 (5)−0.0208 (6)
N10.0230 (7)0.0213 (7)0.0301 (7)−0.0004 (5)−0.0039 (5)−0.0105 (6)
N30.0218 (6)0.0218 (7)0.0342 (8)−0.0001 (5)−0.0030 (5)−0.0113 (6)
C20.0175 (7)0.0225 (7)0.0316 (8)0.0013 (5)−0.0026 (6)−0.0123 (6)
C40.0269 (8)0.0230 (8)0.0422 (10)−0.0008 (6)−0.0021 (7)−0.0078 (7)
C50.0349 (9)0.0295 (9)0.0374 (10)−0.0012 (7)0.0001 (8)−0.0032 (8)
C60.0390 (10)0.0397 (10)0.0310 (9)0.0025 (8)−0.0034 (8)−0.0106 (8)
C70.0360 (9)0.0297 (9)0.0360 (9)0.0011 (7)−0.0065 (7)−0.0135 (8)
C80.0222 (7)0.0231 (8)0.0335 (9)0.0006 (6)−0.0020 (6)−0.0103 (7)
C90.0209 (7)0.0236 (8)0.0342 (9)0.0019 (6)−0.0034 (6)−0.0111 (7)
C110.0252 (8)0.0201 (8)0.0287 (8)−0.0022 (6)−0.0007 (6)−0.0100 (6)
C120.0244 (8)0.0262 (8)0.0401 (10)0.0016 (6)−0.0068 (7)−0.0140 (7)
C130.0265 (8)0.0341 (10)0.0474 (10)−0.0045 (7)−0.0055 (7)−0.0206 (8)
C140.0331 (9)0.0237 (8)0.0422 (10)−0.0041 (7)0.0008 (7)−0.0149 (7)
C150.0289 (9)0.0243 (8)0.0481 (11)0.0034 (6)−0.0053 (7)−0.0141 (8)
C160.0234 (8)0.0251 (8)0.0433 (10)−0.0007 (6)−0.0068 (7)−0.0135 (7)
C210.0170 (7)0.0243 (8)0.0322 (9)0.0023 (6)−0.0018 (6)−0.0130 (7)
C220.0208 (7)0.0293 (9)0.0347 (9)−0.0009 (6)−0.0013 (6)−0.0134 (7)
C230.0285 (9)0.0318 (9)0.0357 (10)−0.0009 (7)0.0019 (7)−0.0100 (8)
C240.0316 (9)0.0406 (10)0.0300 (9)0.0077 (7)−0.0027 (7)−0.0122 (8)
C250.0259 (8)0.0399 (10)0.0368 (10)0.0059 (7)−0.0054 (7)−0.0208 (8)
C260.0189 (7)0.0295 (8)0.0352 (9)0.0029 (6)−0.0018 (6)−0.0170 (7)
O26—C261.361 (2)C21—C261.411 (3)
O26—H260.97 (3)C21—C221.405 (3)
N1—C21.376 (2)C22—C231.384 (3)
N1—C81.392 (2)C23—C241.390 (3)
N1—C111.440 (2)C24—C251.381 (3)
N3—C91.379 (2)C25—C261.389 (3)
N3—C21.328 (2)C4—H40.9500
C2—C211.460 (2)C5—H50.9500
C4—C91.401 (3)C6—H60.9500
C4—C51.377 (3)C7—H70.9500
C5—C61.405 (3)C12—H120.9500
C6—C71.385 (3)C13—H130.9500
C7—C81.382 (3)C14—H140.9500
C8—C91.404 (3)C15—H150.9500
C11—C121.381 (2)C16—H160.9500
C11—C161.384 (3)C22—H220.9500
C12—C131.391 (3)C23—H230.9500
C13—C141.381 (3)C24—H240.9500
C14—C151.382 (2)C25—H250.9500
C15—C161.392 (3)
C26—O26—H26106.6 (19)C23—C24—C25120.11 (17)
C2—N1—C8106.88 (15)C24—C25—C26120.62 (17)
C8—N1—C11121.93 (15)O26—C26—C25117.70 (16)
C2—N1—C11129.56 (15)C21—C26—C25120.26 (17)
C2—N3—C9106.46 (15)O26—C26—C21122.04 (16)
N1—C2—C21126.44 (16)C5—C4—H4121.00
N3—C2—C21121.90 (16)C9—C4—H4121.00
N1—C2—N3111.66 (15)C4—C5—H5119.00
C5—C4—C9118.13 (18)C6—C5—H5119.00
C4—C5—C6121.46 (18)C5—C6—H6119.00
C5—C6—C7121.27 (18)C7—C6—H6119.00
C6—C7—C8116.87 (18)C6—C7—H7122.00
N1—C8—C7131.52 (18)C8—C7—H7122.00
N1—C8—C9105.57 (15)C11—C12—H12120.00
C7—C8—C9122.88 (17)C13—C12—H12120.00
N3—C9—C8109.43 (16)C12—C13—H13120.00
C4—C9—C8119.38 (17)C14—C13—H13120.00
N3—C9—C4131.18 (18)C13—C14—H14120.00
N1—C11—C16119.08 (15)C15—C14—H14120.00
C12—C11—C16121.35 (18)C14—C15—H15120.00
N1—C11—C12119.43 (16)C16—C15—H15120.00
C11—C12—C13119.07 (17)C11—C16—H16121.00
C12—C13—C14120.50 (17)C15—C16—H16121.00
C13—C14—C15119.69 (19)C21—C22—H22119.00
C14—C15—C16120.66 (17)C23—C22—H22119.00
C11—C16—C15118.73 (16)C22—C23—H23120.00
C2—C21—C26118.85 (16)C24—C23—H23120.00
C22—C21—C26117.79 (16)C23—C24—H24120.00
C2—C21—C22123.35 (16)C25—C24—H24120.00
C21—C22—C23121.43 (17)C24—C25—H25120.00
C22—C23—C24119.65 (18)C26—C25—H25120.00
C8—N1—C2—N3−0.83 (19)C6—C7—C8—N1177.26 (19)
C8—N1—C2—C21178.31 (15)C6—C7—C8—C9−0.1 (3)
C11—N1—C2—N3−166.19 (16)N1—C8—C9—N3−0.26 (19)
C11—N1—C2—C2113.0 (3)N1—C8—C9—C4−179.06 (15)
C2—N1—C8—C7−177.06 (18)C7—C8—C9—N3177.69 (16)
C2—N1—C8—C90.64 (18)C7—C8—C9—C4−1.1 (3)
C11—N1—C8—C7−10.3 (3)N1—C11—C12—C13−175.74 (16)
C11—N1—C8—C9167.36 (15)C16—C11—C12—C13−0.1 (3)
C2—N1—C11—C12−124.86 (19)N1—C11—C16—C15176.42 (16)
C2—N1—C11—C1659.4 (2)C12—C11—C16—C150.8 (3)
C8—N1—C11—C1271.7 (2)C11—C12—C13—C14−0.7 (3)
C8—N1—C11—C16−104.04 (19)C12—C13—C14—C150.8 (3)
C9—N3—C2—N10.66 (19)C13—C14—C15—C16−0.2 (3)
C9—N3—C2—C21−178.53 (15)C14—C15—C16—C11−0.6 (3)
C2—N3—C9—C4178.37 (18)C2—C21—C22—C23−178.51 (17)
C2—N3—C9—C8−0.23 (19)C26—C21—C22—C231.8 (3)
N1—C2—C21—C2219.6 (3)C2—C21—C26—O26−3.8 (3)
N1—C2—C21—C26−160.78 (16)C2—C21—C26—C25176.02 (16)
N3—C2—C21—C22−161.38 (17)C22—C21—C26—O26175.86 (16)
N3—C2—C21—C2618.3 (2)C22—C21—C26—C25−4.3 (3)
C9—C4—C5—C6−0.1 (3)C21—C22—C23—C241.4 (3)
C5—C4—C9—N3−177.34 (17)C22—C23—C24—C25−2.1 (3)
C5—C4—C9—C81.2 (3)C23—C24—C25—C26−0.4 (3)
C4—C5—C6—C7−1.2 (3)C24—C25—C26—O26−176.50 (17)
C5—C6—C7—C81.2 (3)C24—C25—C26—C213.7 (3)
D—H···AD—HH···AD···AD—H···A
O26—H26···N30.97 (3)1.70 (3)2.583 (2)150 (3)
C14—H14···N3i0.952.603.456 (3)151
C16—H16···O26ii0.952.493.388 (2)157
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O26—H26⋯N30.97 (3)1.70 (3)2.583 (2)150 (3)
C14—H14⋯N3i 0.952.603.456 (3)151
C16—H16⋯O26ii 0.952.493.388 (2)157

Symmetry codes: (i) ; (ii) .

  4 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.  1,2-Diphenyl-1H-benzimidazole.

Authors:  S Rosepriya; A Thiruvalluvar; K Jayamoorthy; J Jayabharathi; Sema Oztürk Yildirim; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-03

3.  2-(4-Fluoro-phen-yl)-1-phenyl-1H-benzimidazole.

Authors:  K Jayamoorthy; S Rosepriya; A Thiruvalluvar; J Jayabharathi; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-08-15

4.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  4 in total

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