Literature DB >> 24826179

4-Bromo-2-(5-bromo-thio-phen-2-yl)-1-[(5-bromo-thio-phen-2-yl)meth-yl]-5,6-dimethyl-1H-benzimidazole.

H Cristina Geiger1, James S Donohoe1, David K Geiger1.   

Abstract

The title compound, C18H13Br3N2S2, was obtained via the reaction of N-bromo-succinamide with 5,6-dimethyl-2-(thio-phen-2-yl)-1-[(thio-phen-2-yl)meth-yl]-1H-benzimidazole. The compound exhibits rotational disorder of the 5-bromo-thio-phen-2-yl substituent with a refined major:minor occupancy ratio of 0.876 (7):0.124 (7). The 5-bromo-thio-phen-2-yl mean plane is canted to the benzimidazole plane by 20.0 (4) and 21 (4)° in the major and minor components, respectively. In the crystal, weak C-H⋯N inter-actions link the mol-ecules into infinite C(7) chains along the 21 axes.

Entities:  

Year:  2014        PMID: 24826179      PMCID: PMC3998606          DOI: 10.1107/S160053681400628X

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


Related literature

Bromination of thio­phenes using N-bromo­succinamide has been reported by Arsenyan et al. (2010 ▶). For the structure of 5,6-di­methyl­benzimidazole, see: Lee & Scheidt (1986 ▶). For the structure of 2-(thio­phen-2-yl)-1-(thio­phen-2-ylmeth­yl)-1H-benzimidazole, see: Geiger et al. (2012 ▶). For the 5-chloro derivative, see: Geiger & Nellist (2013a ▶), for the 6-chloro derivative, see: Geiger & Nellist (2013b ▶) and for the 6-bromo derivative, see: Geiger & Destefano (2012 ▶). For a discussion of the biological activity of benzimidazole derivatives, see: López-Rodríguez et al. (1999 ▶); Horton et al. (2003 ▶).

Experimental

Crystal data

C18H13Br3N2S2 M = 561.15 Monoclinic, a = 13.6796 (13) Å b = 9.6144 (8) Å c = 14.8093 (15) Å β = 98.305 (3)° V = 1927.3 (3) Å3 Z = 4 Mo Kα radiation μ = 6.50 mm−1 T = 200 K 0.60 × 0.40 × 0.10 mm

Data collection

Bruker SMART X2S benchtop diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2013 ▶) T min = 0.35, T max = 0.56 12301 measured reflections 3561 independent reflections 2810 reflections with I > 2σ(I) R int = 0.036

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.179 S = 1.06 3561 reflections 247 parameters 16 restraints H-atom parameters constrained Δρmax = 0.87 e Å−3 Δρmin = −1.90 e Å−3 Data collection: APEX2 (Bruker, 2013 ▶); cell refinement: SAINT (Bruker, 2013 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL2013 (Sheldrick, 2013 ▶); molecular graphics: PLATON (Spek, 2009 ▶) and Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S160053681400628X/rz5112sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681400628X/rz5112Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S160053681400628X/rz5112Isup3.mol Click here for additional data file. Supporting information file. DOI: 10.1107/S160053681400628X/rz5112Isup4.cml CCDC reference: 992876 Additional supporting information: crystallographic information; 3D view; checkCIF report
C18H13Br3N2S2F(000) = 1088
Mr = 561.15Dx = 1.934 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 4288 reflections
a = 13.6796 (13) Åθ = 2.5–25.0°
b = 9.6144 (8) ŵ = 6.50 mm1
c = 14.8093 (15) ÅT = 200 K
β = 98.305 (3)°Plate, clear colourless
V = 1927.3 (3) Å30.60 × 0.40 × 0.10 mm
Z = 4
Bruker SMART X2S benchtop diffractometer3561 independent reflections
Radiation source: sealed microfocus tube2810 reflections with I > 2σ(I)
Doubly curved silicon crystal monochromatorRint = 0.036
Detector resolution: 8.3330 pixels mm-1θmax = 25.5°, θmin = 1.9°
ω scansh = −16→16
Absorption correction: multi-scan (SADABS; Bruker, 2013)k = −11→11
Tmin = 0.35, Tmax = 0.56l = −17→11
12301 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)] = 0.056Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.179H-atom parameters constrained
S = 1.06w = 1/[σ2(Fo2) + (0.0876P)2 + 13.3538P] where P = (Fo2 + 2Fc2)/3
3561 reflections(Δ/σ)max < 0.001
247 parametersΔρmax = 0.87 e Å3
16 restraintsΔρmin = −1.90 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)
C10.6567 (5)0.4489 (7)0.0616 (5)0.0297 (15)
C20.5806 (5)0.3747 (7)0.0935 (5)0.0291 (15)
C30.5164 (5)0.2979 (7)0.0299 (5)0.0328 (16)
C40.5271 (6)0.2972 (7)−0.0623 (5)0.0345 (17)
C50.6069 (6)0.3752 (9)−0.0909 (5)0.0388 (18)
C60.6698 (6)0.4519 (8)−0.0296 (5)0.0341 (16)
H60.72110.5058−0.04910.041*
C410.4614 (7)0.2091 (9)−0.1300 (6)0.048 (2)
H41A0.49830.1275−0.1460.071*
H41B0.43950.2637−0.1850.071*
H41C0.40370.1787−0.10290.071*
C510.6220 (7)0.3744 (12)−0.1887 (5)0.055 (2)
H51A0.67320.442−0.19790.083*
H51B0.560.3992−0.22710.083*
H51C0.64260.2813−0.20530.083*
Br30.41595 (6)0.19379 (9)0.07516 (6)0.0461 (3)
N10.7086 (4)0.5125 (6)0.1385 (4)0.0291 (13)
C70.6621 (5)0.4710 (7)0.2112 (5)0.0282 (15)
N20.5860 (4)0.3888 (6)0.1866 (4)0.0284 (13)
C80.6925 (12)0.5165 (15)0.3059 (6)0.0252 (18)0.876 (7)
C90.7801 (11)0.5660 (14)0.3497 (7)0.031 (2)0.876 (7)
H90.83650.58030.32030.037*0.876 (7)
C100.7787 (8)0.5937 (9)0.4431 (6)0.030 (2)0.876 (7)
H100.83340.62880.48350.036*0.876 (7)
C110.6903 (8)0.5643 (9)0.4674 (5)0.032 (2)0.876 (7)
S10.6069 (8)0.5018 (9)0.3795 (3)0.0336 (12)0.876 (7)
Br10.65371 (11)0.5955 (3)0.58337 (8)0.0544 (5)0.876 (7)
C800.685 (8)0.502 (10)0.302 (3)0.0252 (18)0.124 (7)
C900.775 (7)0.543 (11)0.347 (4)0.031 (2)0.124 (7)
H900.83040.56030.31660.037*0.124 (7)
C1000.777 (5)0.557 (9)0.442 (4)0.030 (2)0.124 (7)
H1000.83380.58360.48290.036*0.124 (7)
C1100.689 (4)0.529 (7)0.4662 (19)0.032 (2)0.124 (7)
S100.602 (6)0.480 (8)0.377 (2)0.0336 (12)0.124 (7)
Br100.6580 (9)0.530 (2)0.5862 (6)0.0544 (5)0.124 (7)
C120.7869 (5)0.6148 (7)0.1354 (5)0.0312 (16)
H12A0.78510.68240.18560.037*
H12B0.77340.66660.07720.037*
C130.8884 (5)0.5541 (7)0.1435 (4)0.0267 (15)
C140.9740 (6)0.6115 (9)0.1828 (5)0.0399 (18)
H140.97730.69710.21510.048*
C151.0593 (6)0.5319 (9)0.1713 (6)0.0426 (19)
H151.12510.55730.1950.051*
C161.0341 (6)0.4152 (8)0.1220 (5)0.0387 (18)
S20.90879 (16)0.3984 (2)0.09103 (14)0.0396 (5)
Br21.11809 (9)0.28087 (11)0.08705 (7)0.0637 (4)
U11U22U33U12U13U23
C10.036 (4)0.020 (3)0.032 (4)0.003 (3)0.005 (3)0.001 (3)
C20.034 (4)0.021 (3)0.032 (4)0.009 (3)0.003 (3)0.003 (3)
C30.033 (4)0.025 (4)0.037 (4)0.003 (3)−0.005 (3)0.003 (3)
C40.037 (4)0.029 (4)0.035 (4)0.015 (3)−0.004 (3)−0.001 (3)
C50.040 (4)0.046 (5)0.029 (4)0.019 (4)0.002 (3)0.004 (3)
C60.038 (4)0.035 (4)0.029 (4)0.005 (3)0.007 (3)0.002 (3)
C410.049 (5)0.050 (5)0.039 (4)0.007 (4)−0.010 (4)−0.009 (4)
C510.049 (5)0.086 (7)0.030 (4)0.023 (5)0.000 (4)0.001 (4)
Br30.0447 (5)0.0381 (5)0.0518 (5)−0.0119 (4)−0.0055 (4)0.0037 (4)
N10.034 (3)0.026 (3)0.027 (3)−0.006 (3)0.004 (2)−0.002 (2)
C70.033 (4)0.021 (3)0.031 (4)0.002 (3)0.006 (3)0.001 (3)
N20.031 (3)0.021 (3)0.032 (3)−0.002 (2)0.002 (2)0.001 (2)
C80.030 (5)0.017 (4)0.029 (3)−0.003 (3)0.007 (3)0.002 (3)
C90.030 (4)0.029 (6)0.033 (4)−0.007 (4)0.005 (3)−0.001 (3)
C100.036 (4)0.023 (6)0.029 (4)−0.006 (4)0.000 (3)0.001 (4)
C110.050 (5)0.019 (5)0.027 (4)−0.002 (4)0.006 (3)0.003 (3)
S10.0328 (17)0.038 (4)0.0307 (10)−0.0099 (19)0.0077 (9)−0.0001 (11)
Br10.0781 (7)0.0542 (15)0.0354 (5)−0.0216 (8)0.0230 (5)−0.0079 (6)
C800.030 (5)0.017 (4)0.029 (3)−0.003 (3)0.007 (3)0.002 (3)
C900.030 (4)0.029 (6)0.033 (4)−0.007 (4)0.005 (3)−0.001 (3)
C1000.036 (4)0.023 (6)0.029 (4)−0.006 (4)0.000 (3)0.001 (4)
C1100.050 (5)0.019 (5)0.027 (4)−0.002 (4)0.006 (3)0.003 (3)
S100.0328 (17)0.038 (4)0.0307 (10)−0.0099 (19)0.0077 (9)−0.0001 (11)
Br100.0781 (7)0.0542 (15)0.0354 (5)−0.0216 (8)0.0230 (5)−0.0079 (6)
C120.039 (4)0.025 (3)0.031 (4)−0.006 (3)0.008 (3)0.003 (3)
C130.035 (4)0.023 (3)0.024 (3)0.001 (3)0.009 (3)0.001 (3)
C140.044 (5)0.037 (4)0.039 (4)0.000 (4)0.007 (4)−0.006 (3)
C150.032 (4)0.052 (5)0.046 (5)0.000 (4)0.011 (3)−0.002 (4)
C160.041 (5)0.042 (4)0.036 (4)0.009 (4)0.014 (3)0.005 (3)
S20.0445 (11)0.0302 (10)0.0444 (11)0.0010 (9)0.0071 (9)−0.0083 (8)
Br20.0795 (7)0.0563 (6)0.0619 (6)0.0217 (5)0.0329 (5)0.0114 (5)
C1—C61.389 (10)C9—C101.410 (10)
C1—N11.393 (9)C9—H90.95
C1—C21.399 (10)C10—C111.341 (11)
C2—N21.376 (9)C10—H100.95
C2—C31.402 (10)C11—S11.711 (8)
C3—C41.394 (11)C11—Br11.882 (8)
C3—Br31.899 (8)C80—C901.36 (2)
C4—C51.439 (12)C80—S101.717 (19)
C4—C411.506 (11)C90—C1001.41 (2)
C5—C61.372 (11)C90—H900.95
C5—C511.492 (11)C100—C1101.34 (2)
C6—H60.95C100—H1000.95
C41—H41A0.98C110—S101.710 (19)
C41—H41B0.98C110—Br101.884 (18)
C41—H41C0.98C12—C131.494 (10)
C51—H51A0.98C12—H12A0.99
C51—H51B0.98C12—H12B0.99
C51—H51C0.98C13—C141.349 (11)
N1—C71.387 (9)C13—S21.728 (7)
N1—C121.460 (9)C14—C151.426 (11)
C7—N21.317 (9)C14—H140.95
C7—C801.37 (5)C15—C161.356 (12)
C7—C81.470 (11)C15—H150.95
C8—C91.363 (10)C16—S21.717 (8)
C8—S11.717 (7)C16—Br21.852 (8)
C6—C1—N1131.5 (7)C8—C9—C10113.4 (7)
C6—C1—C2123.1 (7)C8—C9—H9123.3
N1—C1—C2105.3 (6)C10—C9—H9123.3
N2—C2—C1110.7 (6)C11—C10—C9111.3 (7)
N2—C2—C3131.5 (7)C11—C10—H10124.4
C1—C2—C3117.8 (7)C9—C10—H10124.4
C4—C3—C2121.1 (7)C10—C11—S1113.5 (6)
C4—C3—Br3121.7 (6)C10—C11—Br1125.5 (6)
C2—C3—Br3117.1 (5)S1—C11—Br1120.9 (5)
C3—C4—C5118.5 (7)C11—S1—C890.7 (4)
C3—C4—C41121.2 (8)C90—C80—C7127 (6)
C5—C4—C41120.2 (7)C90—C80—S10111.0 (17)
C6—C5—C4121.0 (7)C7—C80—S10122 (6)
C6—C5—C51118.9 (8)C80—C90—C100114 (2)
C4—C5—C51120.0 (8)C80—C90—H90123.2
C5—C6—C1118.4 (7)C100—C90—H90123.2
C5—C6—H6120.8C110—C100—C90111 (2)
C1—C6—H6120.8C110—C100—H100124.5
C4—C41—H41A109.5C90—C100—H100124.5
C4—C41—H41B109.5C100—C110—S10113.7 (16)
H41A—C41—H41B109.5C100—C110—Br10126 (2)
C4—C41—H41C109.5S10—C110—Br10120 (2)
H41A—C41—H41C109.5C110—S10—C8090.7 (13)
H41B—C41—H41C109.5N1—C12—C13114.3 (6)
C5—C51—H51A109.5N1—C12—H12A108.7
C5—C51—H51B109.5C13—C12—H12A108.7
H51A—C51—H51B109.5N1—C12—H12B108.7
C5—C51—H51C109.5C13—C12—H12B108.7
H51A—C51—H51C109.5H12A—C12—H12B107.6
H51B—C51—H51C109.5C14—C13—C12127.9 (7)
C7—N1—C1105.8 (6)C14—C13—S2111.2 (6)
C7—N1—C12129.7 (6)C12—C13—S2120.7 (5)
C1—N1—C12124.1 (6)C13—C14—C15113.8 (7)
N2—C7—C80118 (4)C13—C14—H14123.1
N2—C7—N1113.0 (6)C15—C14—H14123.1
C80—C7—N1129 (4)C16—C15—C14111.1 (7)
N2—C7—C8123.1 (7)C16—C15—H15124.5
N1—C7—C8123.9 (7)C14—C15—H15124.5
C7—N2—C2105.2 (6)C15—C16—S2112.9 (6)
C9—C8—C7131.8 (10)C15—C16—Br2127.4 (6)
C9—C8—S1111.1 (6)S2—C16—Br2119.7 (5)
C7—C8—S1117.1 (8)C16—S2—C1391.1 (4)
D—H···AD—HH···AD···AD—H···A
C14—H14···N2i0.952.573.461 (10)156
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
C14—H14⋯N2i 0.952.573.461 (10)156

Symmetry code: (i) .

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Authors:  David K Geiger; H Cristina Geiger; Leo Williams; Bruce C Noll
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-01-18

5.  6-Chloro-2-(thio-phen-2-yl)-1-[(thio-phen-2-yl)meth-yl]-1H-benzimidazole.

Authors:  David K Geiger; Michael R Nellist
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2013-04-30

6.  5-Bromo-2-(thio-phen-2-yl)-1-(thio-phen-2-ylmeth-yl)-1H-benzimidazole.

Authors:  David K Geiger; Matthew R Destefano
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-13

7.  5-Chloro-2-(thio-phen-2-yl)-1-(thio-phen-2-ylmeth-yl)-1H-benzimidazole-6-chloro-2-(thiophen-2-yl)-1-(thiophen-2-ylmethyl)-1H-benzimidazole (0.94/0.06).

Authors:  David K Geiger; Michael R Nellist
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2013-09-12

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