Literature DB >> 21578756

1-(4-tert-Butyl-benz-yl)-2-(4-tert-butyl-phen-yl)-1H-benzimidazole.

Jian-Cheng Zhou, Zheng-Yun Zhang, Nai-Xu Li, Chuan-Ming Zhang.   

Abstract

In the mol-ecule of the title compound, C(28)H(32)N(2), the benzimidazole ring system is almost planar [maximum deviation = 0.0221 (15) Å] and forms dihedral angles of 85.86 (4) and 32.09 (6)° with the benzene rings. In the crystal structure, mol-ecules are linked into chains running parallel to the a axis by inter-molecular C-H⋯N hydrogen bonds. The methyl groups of a tert-butyl group are rotationally disordered over two positions with refined site-occupancy factors of 0.636 (4) and 0.364 (4).

Entities:  

Year:  2009        PMID: 21578756      PMCID: PMC2971974          DOI: 10.1107/S1600536809045668

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


Related literature

For the biological and pharmaceutical properties of benzimidazole derivatives, see: Matsuno et al. (2000 ▶). Garuti et al. (1999 ▶). For reference structural data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C28H32N2 M = 396.56 Monoclinic, a = 6.2142 (5) Å b = 21.1112 (13) Å c = 17.4624 (12) Å β = 92.869 (6)° V = 2288.0 (3) Å3 Z = 4 Mo Kα radiation μ = 0.07 mm−1 T = 293 K 0.20 × 0.20 × 0.10 mm

Data collection

Rigaku SCXmini diffractometer Absorption correction: multi-scan (CrystalClear; Rigaku, 2005 ▶) T min = 0.987, T max = 0.993 24819 measured reflections 5239 independent reflections 4315 reflections with I > 2σ(I) R int = 0.047

Refinement

R[F 2 > 2σ(F 2)] = 0.061 wR(F 2) = 0.135 S = 1.09 5239 reflections 302 parameters H-atom parameters constrained Δρmax = 0.22 e Å−3 Δρmin = −0.18 e Å−3 Data collection: CrystalClear (Rigaku, 2005 ▶); cell refinement: CrystalClear; data reduction: CrystalClear; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809045668/rz2378sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809045668/rz2378Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C28H32N2F(000) = 856
Mr = 396.56Dx = 1.151 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3426 reflections
a = 6.2142 (5) Åθ = 2.3–27.5°
b = 21.1112 (13) ŵ = 0.07 mm1
c = 17.4624 (12) ÅT = 293 K
β = 92.869 (6)°Block, colourless
V = 2288.0 (3) Å30.20 × 0.20 × 0.10 mm
Z = 4
Rigaku SCXmini diffractometer5239 independent reflections
Radiation source: fine-focus sealed tube4315 reflections with I > 2σ(I)
graphiteRint = 0.047
Detector resolution: 13.6612 pixels mm-1θmax = 27.5°, θmin = 3.3°
ω scansh = −8→8
Absorption correction: multi-scan (CrystalClear; Rigaku, 2005)k = −27→27
Tmin = 0.987, Tmax = 0.993l = −22→22
24819 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)] = 0.061Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.135H-atom parameters constrained
S = 1.09w = 1/[σ2(Fo2) + (0.0431P)2 + 0.936P] where P = (Fo2 + 2Fc2)/3
5239 reflections(Δ/σ)max < 0.001
302 parametersΔρmax = 0.22 e Å3
0 restraintsΔρmin = −0.18 e Å3
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*/UeqOcc. (<1)
N10.7010 (2)0.17678 (6)0.27399 (7)0.0256 (3)
N21.0343 (2)0.14275 (6)0.31033 (7)0.0298 (3)
C10.7112 (3)0.17535 (7)0.35346 (9)0.0270 (3)
C20.5570 (3)0.18846 (8)0.40650 (10)0.0346 (4)
H2B0.41920.20210.39130.041*
C30.6195 (3)0.18016 (9)0.48290 (10)0.0392 (4)
H3A0.52140.18840.52010.047*
C40.8268 (3)0.15961 (9)0.50544 (10)0.0382 (4)
H4A0.86320.15470.55740.046*
C50.9793 (3)0.14633 (8)0.45281 (10)0.0344 (4)
H5A1.11700.13280.46840.041*
C60.9185 (3)0.15411 (7)0.37498 (9)0.0282 (3)
C70.8992 (2)0.15635 (7)0.25137 (9)0.0258 (3)
C80.9583 (2)0.14654 (7)0.17169 (9)0.0272 (3)
C90.8876 (3)0.18418 (8)0.10959 (9)0.0310 (4)
H9A0.78870.21640.11680.037*
C100.9638 (3)0.17391 (9)0.03713 (10)0.0355 (4)
H10A0.91410.1995−0.00330.043*
C111.1119 (3)0.12648 (8)0.02342 (10)0.0344 (4)
C121.1810 (3)0.08896 (8)0.08579 (10)0.0370 (4)
H12A1.28020.05680.07850.044*
C131.1055 (3)0.09845 (8)0.15806 (10)0.0335 (4)
H13A1.15370.07230.19820.040*
C141.1974 (3)0.11519 (9)−0.05650 (10)0.0424 (5)
C151.4372 (5)0.1228 (2)−0.0550 (2)0.0569 (10)0.636 (4)
H15A1.47260.1670−0.05760.085*0.636 (4)
H15B1.49300.1011−0.09800.085*0.636 (4)
H15C1.49960.1051−0.00830.085*0.636 (4)
C161.1017 (6)0.16598 (17)−0.11722 (17)0.0508 (9)0.636 (4)
H16A0.94750.1625−0.12120.076*0.636 (4)
H16B1.15870.1580−0.16640.076*0.636 (4)
H16C1.14140.2079−0.10040.076*0.636 (4)
C171.1189 (8)0.0513 (2)−0.0846 (2)0.0687 (14)0.636 (4)
H17A0.96950.0541−0.10110.103*0.636 (4)
H17B1.13600.0209−0.04380.103*0.636 (4)
H17C1.20140.0381−0.12680.103*0.636 (4)
C16'1.3128 (12)0.1723 (4)−0.0785 (4)0.073 (2)0.364 (4)
H16D1.21280.2068−0.08510.109*0.364 (4)
H16E1.38110.1648−0.12580.109*0.364 (4)
H16F1.42010.1828−0.03910.109*0.364 (4)
C15'1.3773 (13)0.0576 (4)−0.0524 (3)0.077 (3)0.364 (4)
H15D1.31070.0193−0.03600.116*0.364 (4)
H15E1.49340.0688−0.01660.116*0.364 (4)
H15F1.43230.0514−0.10230.116*0.364 (4)
C17'1.0230 (11)0.0946 (4)−0.1102 (3)0.0593 (19)0.364 (4)
H17D0.91320.1266−0.11370.089*0.364 (4)
H17E0.96270.0558−0.09220.089*0.364 (4)
H17F1.07870.0879−0.15980.089*0.364 (4)
C180.5117 (2)0.19700 (7)0.22771 (9)0.0276 (3)
H18A0.38340.18450.25330.033*
H18B0.51000.17530.17870.033*
C190.5039 (2)0.26793 (7)0.21354 (8)0.0244 (3)
C200.6751 (3)0.30771 (8)0.23238 (10)0.0345 (4)
H20A0.79920.29120.25680.041*
C210.6647 (3)0.37210 (8)0.21545 (10)0.0354 (4)
H21A0.78230.39760.22920.042*
C220.4846 (2)0.39941 (7)0.17869 (9)0.0255 (3)
C230.3127 (3)0.35908 (8)0.16148 (11)0.0380 (4)
H23A0.18750.37560.13790.046*
C240.3214 (3)0.29478 (8)0.17827 (11)0.0370 (4)
H24A0.20260.26940.16560.044*
C250.4755 (3)0.47028 (7)0.15925 (10)0.0314 (4)
C260.6985 (3)0.49533 (9)0.14043 (12)0.0454 (5)
H26A0.74890.47290.09700.068*
H26B0.79740.48910.18380.068*
H26C0.68870.53970.12870.068*
C270.3234 (3)0.48367 (9)0.08955 (12)0.0474 (5)
H27A0.37230.46120.04590.071*
H27B0.32180.52830.07910.071*
H27C0.18060.46990.10000.071*
C280.3968 (4)0.50619 (9)0.22849 (12)0.0586 (6)
H28A0.25700.49090.24040.088*
H28B0.38820.55060.21680.088*
H28C0.49590.49970.27170.088*
U11U22U33U12U13U23
N10.0275 (7)0.0240 (6)0.0255 (7)0.0003 (5)0.0032 (5)0.0028 (5)
N20.0303 (7)0.0312 (7)0.0280 (7)0.0019 (5)0.0030 (6)0.0021 (6)
C10.0328 (8)0.0225 (7)0.0259 (8)−0.0023 (6)0.0048 (6)0.0025 (6)
C20.0335 (9)0.0364 (9)0.0344 (9)0.0014 (7)0.0075 (7)0.0009 (7)
C30.0449 (11)0.0425 (10)0.0311 (9)−0.0027 (8)0.0118 (8)−0.0010 (8)
C40.0482 (11)0.0403 (10)0.0263 (9)−0.0046 (8)0.0030 (7)0.0035 (7)
C50.0375 (9)0.0350 (9)0.0306 (9)−0.0009 (7)0.0007 (7)0.0044 (7)
C60.0321 (8)0.0255 (8)0.0271 (8)−0.0018 (6)0.0038 (6)0.0023 (6)
C70.0281 (8)0.0217 (7)0.0277 (8)−0.0012 (6)0.0038 (6)0.0016 (6)
C80.0281 (8)0.0261 (8)0.0276 (8)−0.0049 (6)0.0029 (6)−0.0006 (6)
C90.0323 (9)0.0304 (8)0.0303 (9)−0.0015 (7)0.0032 (7)0.0001 (7)
C100.0395 (10)0.0388 (9)0.0282 (9)−0.0057 (7)0.0023 (7)0.0015 (7)
C110.0351 (9)0.0387 (9)0.0300 (9)−0.0102 (7)0.0067 (7)−0.0082 (7)
C120.0371 (10)0.0354 (9)0.0391 (10)0.0023 (7)0.0076 (8)−0.0077 (8)
C130.0353 (9)0.0323 (9)0.0330 (9)0.0015 (7)0.0034 (7)−0.0003 (7)
C140.0468 (11)0.0484 (11)0.0333 (10)−0.0098 (9)0.0136 (8)−0.0078 (8)
C150.048 (2)0.078 (3)0.047 (2)0.0041 (18)0.0199 (15)0.0108 (18)
C160.056 (2)0.070 (2)0.0278 (15)−0.0027 (17)0.0097 (14)0.0037 (15)
C170.105 (4)0.059 (2)0.045 (2)−0.023 (2)0.032 (2)−0.0254 (19)
C16'0.081 (6)0.077 (5)0.063 (4)−0.019 (4)0.041 (4)−0.001 (4)
C15'0.095 (6)0.103 (6)0.036 (3)0.056 (5)0.024 (3)0.003 (4)
C17'0.069 (4)0.073 (5)0.036 (3)0.006 (3)0.002 (3)−0.015 (3)
C180.0254 (8)0.0258 (8)0.0316 (8)−0.0026 (6)−0.0001 (6)0.0012 (6)
C190.0251 (8)0.0247 (7)0.0236 (7)−0.0008 (6)0.0039 (6)−0.0004 (6)
C200.0289 (9)0.0296 (8)0.0437 (10)−0.0010 (6)−0.0107 (7)0.0043 (7)
C210.0303 (9)0.0272 (8)0.0476 (11)−0.0054 (6)−0.0080 (7)0.0018 (7)
C220.0273 (8)0.0250 (7)0.0243 (8)0.0017 (6)0.0041 (6)−0.0007 (6)
C230.0271 (9)0.0309 (9)0.0548 (11)0.0012 (7)−0.0097 (8)0.0059 (8)
C240.0260 (8)0.0303 (9)0.0538 (11)−0.0057 (7)−0.0074 (7)0.0032 (8)
C250.0382 (9)0.0248 (8)0.0316 (9)0.0022 (7)0.0056 (7)0.0022 (7)
C260.0454 (11)0.0331 (9)0.0576 (12)−0.0072 (8)0.0028 (9)0.0099 (9)
C270.0487 (12)0.0408 (10)0.0525 (12)0.0016 (9)−0.0011 (9)0.0176 (9)
C280.1005 (19)0.0285 (9)0.0493 (12)0.0113 (10)0.0287 (12)0.0019 (9)
N1—C71.3816 (19)C17—H17A0.9600
N1—C11.386 (2)C17—H17B0.9600
N1—C181.4571 (19)C17—H17C0.9600
N2—C71.327 (2)C16'—H16D0.9600
N2—C61.390 (2)C16'—H16E0.9600
C1—C21.393 (2)C16'—H16F0.9600
C1—C61.398 (2)C15'—H15D0.9600
C2—C31.382 (2)C15'—H15E0.9600
C2—H2B0.9300C15'—H15F0.9600
C3—C41.397 (3)C17'—H17D0.9600
C3—H3A0.9300C17'—H17E0.9600
C4—C51.381 (2)C17'—H17F0.9600
C4—H4A0.9300C18—C191.518 (2)
C5—C61.402 (2)C18—H18A0.9700
C5—H5A0.9300C18—H18B0.9700
C7—C81.471 (2)C19—C201.382 (2)
C8—C131.395 (2)C19—C241.385 (2)
C8—C91.397 (2)C20—C211.392 (2)
C9—C101.390 (2)C20—H20A0.9300
C9—H9A0.9300C21—C221.387 (2)
C10—C111.389 (2)C21—H21A0.9300
C10—H10A0.9300C22—C231.387 (2)
C11—C121.397 (3)C22—C251.535 (2)
C11—C141.536 (2)C23—C241.389 (2)
C12—C131.383 (2)C23—H23A0.9300
C12—H12A0.9300C24—H24A0.9300
C13—H13A0.9300C25—C281.528 (2)
C14—C17'1.463 (6)C25—C271.530 (2)
C14—C16'1.465 (7)C25—C261.534 (2)
C14—C151.498 (4)C26—H26A0.9600
C14—C171.508 (4)C26—H26B0.9600
C14—C161.601 (4)C26—H26C0.9600
C14—C15'1.650 (6)C27—H27A0.9600
C15—H15A0.9600C27—H27B0.9600
C15—H15B0.9600C27—H27C0.9600
C15—H15C0.9600C28—H28A0.9600
C16—H16A0.9600C28—H28B0.9600
C16—H16B0.9600C28—H28C0.9600
C16—H16C0.9600
C7—N1—C1106.40 (13)C14—C17—H17A109.5
C7—N1—C18129.74 (13)C14—C17—H17B109.5
C1—N1—C18123.86 (13)H17A—C17—H17B109.5
C7—N2—C6105.05 (13)C14—C17—H17C109.5
N1—C1—C2131.48 (15)H17A—C17—H17C109.5
N1—C1—C6105.77 (13)H17B—C17—H17C109.5
C2—C1—C6122.70 (15)C14—C16'—H16D109.5
C3—C2—C1116.56 (16)C14—C16'—H16E109.5
C3—C2—H2B121.7H16D—C16'—H16E109.5
C1—C2—H2B121.7C14—C16'—H16F109.5
C2—C3—C4121.47 (16)H16D—C16'—H16F109.5
C2—C3—H3A119.3H16E—C16'—H16F109.5
C4—C3—H3A119.3C14—C15'—H15D109.5
C5—C4—C3121.94 (16)C14—C15'—H15E109.5
C5—C4—H4A119.0H15D—C15'—H15E109.5
C3—C4—H4A119.0C14—C15'—H15F109.5
C4—C5—C6117.44 (16)H15D—C15'—H15F109.5
C4—C5—H5A121.3H15E—C15'—H15F109.5
C6—C5—H5A121.3C14—C17'—H17D109.5
N2—C6—C1110.16 (13)C14—C17'—H17E109.5
N2—C6—C5129.95 (15)H17D—C17'—H17E109.5
C1—C6—C5119.88 (15)C14—C17'—H17F109.5
N2—C7—N1112.61 (14)H17D—C17'—H17F109.5
N2—C7—C8121.68 (14)H17E—C17'—H17F109.5
N1—C7—C8125.63 (14)N1—C18—C19113.43 (12)
C13—C8—C9117.69 (15)N1—C18—H18A108.9
C13—C8—C7117.42 (14)C19—C18—H18A108.9
C9—C8—C7124.78 (14)N1—C18—H18B108.9
C10—C9—C8120.65 (16)C19—C18—H18B108.9
C10—C9—H9A119.7H18A—C18—H18B107.7
C8—C9—H9A119.7C20—C19—C24117.44 (14)
C11—C10—C9121.88 (16)C20—C19—C18122.86 (14)
C11—C10—H10A119.1C24—C19—C18119.67 (14)
C9—C10—H10A119.1C19—C20—C21121.05 (15)
C10—C11—C12117.05 (15)C19—C20—H20A119.5
C10—C11—C14122.04 (17)C21—C20—H20A119.5
C12—C11—C14120.91 (16)C22—C21—C20122.13 (15)
C13—C12—C11121.63 (16)C22—C21—H21A118.9
C13—C12—H12A119.2C20—C21—H21A118.9
C11—C12—H12A119.2C23—C22—C21116.09 (14)
C12—C13—C8121.10 (16)C23—C22—C25122.07 (14)
C12—C13—H13A119.5C21—C22—C25121.83 (14)
C8—C13—H13A119.5C22—C23—C24122.19 (15)
C17'—C14—C16'115.7 (5)C22—C23—H23A118.9
C17'—C14—C15138.4 (3)C24—C23—H23A118.9
C16'—C14—C1554.3 (4)C19—C24—C23121.07 (15)
C17'—C14—C1746.3 (3)C19—C24—H24A119.5
C16'—C14—C17143.7 (3)C23—C24—H24A119.5
C15—C14—C17114.0 (3)C28—C25—C27109.18 (16)
C17'—C14—C11110.5 (3)C28—C25—C26109.07 (16)
C16'—C14—C11107.9 (3)C27—C25—C26107.14 (15)
C15—C14—C11110.84 (19)C28—C25—C22108.57 (14)
C17—C14—C11108.26 (19)C27—C25—C22111.76 (14)
C17'—C14—C1662.4 (3)C26—C25—C22111.08 (14)
C16'—C14—C1656.3 (4)C25—C26—H26A109.5
C15—C14—C16106.1 (2)C25—C26—H26B109.5
C17—C14—C16106.3 (3)H26A—C26—H26B109.5
C11—C14—C16111.34 (18)C25—C26—H26C109.5
C17'—C14—C15'106.7 (4)H26A—C26—H26C109.5
C16'—C14—C15'106.2 (5)H26B—C26—H26C109.5
C15—C14—C15'53.6 (4)C25—C27—H27A109.5
C17—C14—C15'64.1 (4)C25—C27—H27B109.5
C11—C14—C15'109.8 (2)H27A—C27—H27B109.5
C16—C14—C15'138.6 (3)C25—C27—H27C109.5
C14—C15—H15A109.5H27A—C27—H27C109.5
C14—C15—H15B109.5H27B—C27—H27C109.5
H15A—C15—H15B109.5C25—C28—H28A109.5
C14—C15—H15C109.5C25—C28—H28B109.5
H15A—C15—H15C109.5H28A—C28—H28B109.5
H15B—C15—H15C109.5C25—C28—H28C109.5
C14—C16—H16A109.5H28A—C28—H28C109.5
C14—C16—H16B109.5H28B—C28—H28C109.5
C14—C16—H16C109.5
D—H···AD—HH···AD···AD—H···A
C18—H18A···N2i0.972.593.553 (2)174
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
C18—H18A⋯N2i 0.972.593.553 (2)174

Symmetry code: (i) .

  3 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 and antiviral activity of some N-benzenesulphonylbenzimidazoles.

Authors:  L Garuti; M Roberti; C Cermelli
Journal:  Bioorg Med Chem Lett       Date:  1999-09-06       Impact factor: 2.823

3.  Synthesis and antitumor activity of benzimidazolyl-1,3,5-triazine and benzimidazolylpyrimidine derivatives.

Authors:  T Matsuno; M Karo; H Sasahara; T Watanabe; M Inaba; M Takahashi; S I Yaguchi; K Yoshioka; M Sakato; S Kawashima
Journal:  Chem Pharm Bull (Tokyo)       Date:  2000-11       Impact factor: 1.645

  3 in total
  1 in total

1.  1-[4-(Prop-2-en-1-yl-oxy)benz-yl]-2-[4-(prop-2-en-1-yl-oxy)phen-yl]-1H-benzimidazole.

Authors:  Md Lutfor Rahman; Huey Chong Kwong; Mashitah Mohd Yusoff; Gurumurthy Hegde; Mohamed Ibrahim Mohamed Tahir
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-10
  1 in total

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