Literature DB >> 21579238

An ortho-rhom-bic polymorph of 1-benzyl-1H-benzimidazole.

Ying-Jun Zhang1, Xue-Wen Zhu, Heng-Yu Qian, Zhi-Gang Yin, Chun-Xia Zhang.   

Abstract

The title compound, C(14)H(12)N(2), in contrast to the previously reported monoclinic polymorph [Lei et al. (2009 ▶). Acta Cryst. E65, o2613], crystallizes in the ortho-rhom-bic crystal system. The dihedral angle between the imidazole ring system and the phenyl ring is 76.78 (16)°. Weak C-H⋯N and C-H⋯π inter-actions are observed in the crystal structure.

Entities:  

Year:  2010        PMID: 21579238      PMCID: PMC2979212          DOI: 10.1107/S1600536810015114

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


Related literature

For the synthesis, see: Lionel et al. (1996 ▶). For the monoclinic polymorph, see: Lei & Zhou (2009 ▶).

Experimental

Crystal data

C14H12N2 M = 208.26 Orthorhombic, a = 6.124 (3) Å b = 7.443 (4) Å c = 23.860 (8) Å V = 1087.6 (8) Å3 Z = 4 Mo Kα radiation μ = 0.08 mm−1 T = 293 K 0.25 × 0.20 × 0.18 mm

Data collection

Oxford Diffraction Xcalibur Eos Gemini diffractometer 3168 measured reflections 1886 independent reflections 892 reflections with I > 2σ(I) R int = 0.069

Refinement

R[F 2 > 2σ(F 2)] = 0.068 wR(F 2) = 0.148 S = 0.98 1886 reflections 154 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.19 e Å−3 Δρmin = −0.20 e Å−3 Data collection: CrysAlis PRO (Oxford Diffraction, 2008 ▶); 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 in SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536810015114/hb5418sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810015114/hb5418Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H12N2Dx = 1.272 Mg m3
Mr = 208.26Melting point: 387 K
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 500 reflections
a = 6.124 (3) Åθ = 3.2–26.2°
b = 7.443 (4) ŵ = 0.08 mm1
c = 23.860 (8) ÅT = 293 K
V = 1087.6 (8) Å3Block, colorless
Z = 40.25 × 0.20 × 0.18 mm
F(000) = 440
Oxford Diffraction Xcalibur Eos Gemini diffractometerRint = 0.069
Radiation source: fine-focus sealed tubeθmax = 26.2°, θmin = 3.2°
graphiteh = −7→7
φ and ω scansk = −9→6
3168 measured reflectionsl = −22→29
1886 independent reflections1886 standard reflections every 0 min
892 reflections with I > 2σ(I) intensity decay: none
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.068H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.148w = 1/[σ2(Fo2) + (0.0605P)2] where P = (Fo2 + 2Fc2)/3
S = 0.98(Δ/σ)max < 0.001
1886 reflectionsΔρmax = 0.19 e Å3
154 parametersΔρmin = −0.20 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: 0.022 (5)
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 > 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
N10.9512 (6)0.9532 (5)0.13981 (13)0.0379 (9)
C20.9503 (7)1.1255 (6)0.16196 (16)0.0376 (11)
C70.7567 (8)0.8802 (8)0.15157 (18)0.0515 (13)
H70.71900.76390.14110.062*
N20.6248 (7)0.9861 (7)0.17888 (16)0.0614 (13)
C31.1077 (8)1.2581 (7)0.16401 (18)0.0524 (14)
H31.24381.24290.14740.063*
C100.9963 (8)0.9160 (6)0.01210 (18)0.0463 (13)
H100.86890.85670.02240.056*
C91.1566 (7)0.9393 (6)0.05047 (16)0.0379 (11)
C141.3448 (8)1.0270 (7)0.03496 (18)0.0478 (13)
H141.45531.04470.06110.057*
C81.1293 (10)0.8674 (8)0.1093 (2)0.0502 (13)
C131.3702 (9)1.0881 (7)−0.0187 (2)0.0567 (15)
H131.49841.1465−0.02900.068*
C111.0182 (9)0.9782 (7)−0.04190 (18)0.0564 (14)
H110.90570.9624−0.06760.068*
C10.7441 (8)1.1405 (8)0.18669 (18)0.0484 (14)
C50.8491 (14)1.4320 (9)0.2169 (2)0.0766 (19)
H50.81801.53770.23620.092*
C41.0542 (12)1.4117 (8)0.1914 (2)0.0692 (17)
H41.15501.50490.19340.083*
C121.2063 (9)1.0635 (6)−0.05752 (19)0.0570 (15)
H121.22361.1045−0.09410.068*
C60.6953 (10)1.3013 (9)0.21424 (19)0.0647 (17)
H60.55881.31840.23050.078*
H8B1.274 (8)0.887 (6)0.1303 (18)0.058 (15)*
H8A1.078 (7)0.746 (6)0.1111 (16)0.046 (13)*
U11U22U33U12U13U23
N10.037 (2)0.043 (2)0.0343 (18)−0.002 (2)0.0042 (18)0.0001 (19)
C20.043 (3)0.047 (3)0.023 (2)0.001 (3)−0.011 (2)0.000 (2)
C70.045 (3)0.057 (3)0.052 (3)−0.010 (3)0.000 (3)0.009 (3)
N20.051 (3)0.081 (3)0.052 (3)0.001 (3)0.008 (2)−0.001 (3)
C30.059 (3)0.051 (3)0.048 (3)−0.005 (3)−0.017 (3)0.004 (3)
C100.051 (3)0.046 (3)0.042 (2)−0.013 (3)0.005 (3)−0.007 (2)
C90.039 (3)0.038 (3)0.037 (2)0.003 (3)−0.001 (3)−0.011 (2)
C140.041 (3)0.054 (3)0.049 (3)−0.003 (3)−0.002 (3)−0.007 (3)
C80.053 (3)0.052 (3)0.045 (3)0.007 (3)0.004 (3)0.005 (3)
C130.054 (3)0.053 (4)0.063 (3)−0.007 (3)0.022 (3)−0.006 (3)
C110.064 (3)0.061 (3)0.044 (3)−0.004 (3)−0.008 (3)−0.003 (3)
C10.048 (3)0.072 (4)0.025 (2)0.021 (3)0.007 (3)0.006 (3)
C50.119 (6)0.069 (4)0.042 (3)0.032 (5)−0.038 (4)−0.026 (3)
C40.095 (5)0.053 (4)0.060 (3)0.003 (3)−0.025 (4)−0.006 (3)
C120.078 (4)0.048 (3)0.045 (3)0.003 (3)0.016 (3)−0.003 (3)
C60.072 (4)0.090 (5)0.032 (3)0.029 (4)0.002 (3)−0.010 (3)
N1—C71.339 (6)C14—C131.367 (6)
N1—C21.387 (5)C14—H140.9300
N1—C81.459 (6)C8—H8B1.03 (5)
C2—C31.380 (6)C8—H8A0.96 (5)
C2—C11.398 (6)C13—C121.379 (6)
C7—N21.303 (6)C13—H130.9300
C7—H70.9300C11—C121.367 (6)
N2—C11.374 (6)C11—H110.9300
C3—C41.358 (7)C1—C61.398 (7)
C3—H30.9300C5—C61.356 (8)
C10—C91.354 (5)C5—C41.404 (8)
C10—C111.376 (6)C5—H50.9300
C10—H100.9300C4—H40.9300
C9—C141.375 (6)C12—H120.9300
C9—C81.511 (6)C6—H60.9300
C7—N1—C2107.0 (4)N1—C8—H8A98 (3)
C7—N1—C8126.3 (4)C9—C8—H8A114 (2)
C2—N1—C8126.7 (4)H8B—C8—H8A113 (4)
C3—C2—N1132.2 (4)C14—C13—C12120.1 (5)
C3—C2—C1124.0 (5)C14—C13—H13119.9
N1—C2—C1103.8 (4)C12—C13—H13119.9
N2—C7—N1114.3 (5)C12—C11—C10119.6 (5)
N2—C7—H7122.9C12—C11—H11120.2
N1—C7—H7122.9C10—C11—H11120.2
C7—N2—C1104.1 (4)N2—C1—C6131.7 (5)
C4—C3—C2116.8 (5)N2—C1—C2110.9 (4)
C4—C3—H3121.6C6—C1—C2117.4 (6)
C2—C3—H3121.6C6—C5—C4121.6 (5)
C9—C10—C11121.3 (5)C6—C5—H5119.2
C9—C10—H10119.4C4—C5—H5119.2
C11—C10—H10119.4C3—C4—C5121.1 (6)
C10—C9—C14119.1 (4)C3—C4—H4119.5
C10—C9—C8120.2 (5)C5—C4—H4119.5
C14—C9—C8120.7 (4)C11—C12—C13119.5 (4)
C13—C14—C9120.4 (5)C11—C12—H12120.3
C13—C14—H14119.8C13—C12—H12120.3
C9—C14—H14119.8C5—C6—C1119.2 (6)
N1—C8—C9113.0 (4)C5—C6—H6120.4
N1—C8—H8B110 (2)C1—C6—H6120.4
C9—C8—H8B108 (2)
C7—N1—C2—C3177.5 (5)C14—C9—C8—N1116.5 (6)
C8—N1—C2—C3−2.7 (7)C9—C14—C13—C120.5 (8)
C7—N1—C2—C10.4 (4)C9—C10—C11—C120.8 (7)
C8—N1—C2—C1−179.8 (4)C7—N2—C1—C6−178.1 (4)
C2—N1—C7—N20.5 (5)C7—N2—C1—C21.5 (5)
C8—N1—C7—N2−179.2 (4)C3—C2—C1—N2−178.6 (4)
N1—C7—N2—C1−1.2 (5)N1—C2—C1—N2−1.2 (5)
N1—C2—C3—C4−177.3 (4)C3—C2—C1—C61.1 (6)
C1—C2—C3—C4−0.7 (7)N1—C2—C1—C6178.5 (4)
C11—C10—C9—C140.0 (7)C2—C3—C4—C50.8 (7)
C11—C10—C9—C8−179.2 (5)C6—C5—C4—C3−1.4 (8)
C10—C9—C14—C13−0.6 (7)C10—C11—C12—C13−0.9 (7)
C8—C9—C14—C13178.5 (5)C14—C13—C12—C110.3 (7)
C7—N1—C8—C9106.1 (5)C4—C5—C6—C11.8 (8)
C2—N1—C8—C9−73.7 (6)N2—C1—C6—C5178.0 (5)
C10—C9—C8—N1−64.3 (6)C2—C1—C6—C5−1.6 (7)
Cg2 is the centroid of the C1–C6 ring.
D—H···AD—HH···AD···AD—H···A
C8—H8B···N2i1.03 (5)2.55 (5)3.570 (8)171 (4)
C12—H12···Cg2ii0.932.663.559 (5)162
Table 1

Hydrogen-bond geometry (Å, °)

Cg2 is the centroid of the C1–C6 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
C8—H8B⋯N2i1.03 (5)2.55 (5)3.570 (8)171 (4)
C12—H12⋯Cg2ii0.932.663.559 (5)162

Symmetry codes: (i) ; (ii) .

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