Literature DB >> 21523024

2-(4-Methyl-sulfanylphen-yl)-1H-benzimidazol-3-ium bromide.

Mohamed Ziaulla, M N Manjunatha, Ravish Sankolli, K R Nagasundara, Noor Shahina Begum.   

Abstract

In the cation of the title compound, C(14)H(13)N(2)S(+)·Br(-), the essentially planar benzimidazole system (r.m.s. deviation = 0.0082 Å) is substituted with a 4-methyl-sulfanylphenyl ring. The dihedral angle between the benzimidazole system and the 4-methyl-sulfanylphenyl ring is 2.133 (2)°. The crystal structure is characterized by strong and highly directional inter-molecular N-H⋯Br hydrogen bonds involving the bromide ion. Moreover, C-H⋯S inter-actions result in chains of mol-ecules along the c axis. The supra-molecular assembly is further stabilized by π-π stacking inter-actions between the benzimidazole system and 4-methyl-sulfanylphenyl rings [centroid-centroid distance = 3.477 (4) Å].

Entities:  

Year:  2011        PMID: 21523024      PMCID: PMC3051663          DOI: 10.1107/S1600536811000146

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


Related literature

For general background to benzimidazoles and their derivatives, see: Huang & Scarborough (1999 ▶); Preston (1974 ▶); Zarrinmayeh et al. (1998 ▶); Zhu et al. (2000 ▶). For related structures, see: Goker et al. (1995 ▶); Ozbey et al. (1998 ▶); Vasudevan et al. (1994 ▶). For hydrogen bonding, see: Bernstein et al. (1995 ▶); Nardelli (1983 ▶).

Experimental

Crystal data

C14H13N2S+·Br M = 321.23 Monoclinic, a = 5.3289 (2) Å b = 24.0195 (12) Å c = 10.9544 (5) Å β = 100.113 (2)° V = 1380.35 (11) Å3 Z = 4 Mo Kα radiation μ = 3.11 mm−1 T = 296 K 0.20 × 0.18 × 0.16 mm

Data collection

Bruker SMART APEX CCD detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 1998 ▶) T min = 0.575, T max = 0.636 23823 measured reflections 3009 independent reflections 2273 reflections with I > 2σ(I) R int = 0.039

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.069 S = 1.03 3009 reflections 215 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.35 e Å−3 Δρmin = −0.29 e Å−3 Data collection: SMART (Bruker, 1998 ▶); cell refinement: SAINT-Plus (Bruker, 1998 ▶); data reduction: SAINT-Plus; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and CAMERON (Watkin et al., 1996) ▶; software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536811000146/pb2053sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811000146/pb2053Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H13N2S+·BrF(000) = 648
Mr = 321.23Dx = 1.546 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3009 reflections
a = 5.3289 (2) Åθ = 1.7–27.0°
b = 24.0195 (12) ŵ = 3.11 mm1
c = 10.9544 (5) ÅT = 296 K
β = 100.113 (2)°Block, yellow
V = 1380.35 (11) Å30.20 × 0.18 × 0.16 mm
Z = 4
Bruker SMART APEX CCD detector diffractometer3009 independent reflections
Radiation source: Enhance (Mo) X-ray Source2273 reflections with I > 2σ(I)
graphiteRint = 0.039
ω scansθmax = 27.0°, θmin = 1.7°
Absorption correction: multi-scan Bruker Kappa APEXh = −6→6
Tmin = 0.575, Tmax = 0.636k = −30→30
23823 measured reflectionsl = −13→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.029Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.069H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0338P)2 + 0.3109P] where P = (Fo2 + 2Fc2)/3
3009 reflections(Δ/σ)max = 0.001
215 parametersΔρmax = 0.35 e Å3
0 restraintsΔρmin = −0.29 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*/Ueq
Br10.27225 (4)0.295277 (10)0.33608 (2)0.04982 (10)
S10.57379 (16)−0.00128 (3)0.21720 (8)0.0710 (2)
N10.6485 (4)0.28057 (8)0.13508 (19)0.0421 (5)
N20.9186 (4)0.25577 (8)0.01982 (17)0.0408 (4)
C10.9109 (4)0.31328 (10)0.0161 (2)0.0415 (5)
C21.0437 (5)0.35189 (11)−0.0424 (2)0.0555 (6)
C30.9910 (6)0.40696 (12)−0.0233 (3)0.0644 (7)
C40.8149 (6)0.42307 (12)0.0504 (3)0.0659 (8)
C50.6847 (5)0.38481 (11)0.1084 (3)0.0555 (6)
C60.7381 (4)0.32913 (10)0.0906 (2)0.0430 (5)
C70.7610 (4)0.23676 (9)0.09243 (19)0.0387 (5)
C80.7198 (4)0.17861 (9)0.1213 (2)0.0391 (5)
C90.5449 (5)0.16389 (11)0.1960 (2)0.0516 (6)
C100.5058 (5)0.10930 (11)0.2220 (2)0.0558 (6)
C110.6392 (5)0.06710 (10)0.1762 (2)0.0453 (5)
C120.8139 (6)0.08164 (11)0.1013 (3)0.0586 (7)
C130.8530 (5)0.13648 (11)0.0746 (3)0.0548 (7)
C140.7734 (8)−0.04379 (14)0.1398 (4)0.0721 (9)
H1N0.562 (5)0.2802 (10)0.181 (2)0.042 (7)*
H90.464 (5)0.1907 (12)0.233 (2)0.062 (8)*
H2N0.991 (5)0.2357 (11)−0.017 (2)0.049 (8)*
H120.909 (5)0.0539 (11)0.070 (2)0.065 (8)*
H14C0.736 (6)−0.0776 (16)0.159 (3)0.086 (11)*
H14B0.947 (7)−0.0359 (13)0.169 (3)0.090 (11)*
H50.567 (5)0.3946 (12)0.163 (2)0.075 (9)*
H40.781 (6)0.4619 (13)0.063 (3)0.085 (10)*
H21.159 (5)0.3398 (11)−0.092 (2)0.058 (7)*
H130.975 (5)0.1462 (12)0.022 (3)0.079 (9)*
H100.389 (5)0.0996 (11)0.276 (2)0.064 (7)*
H31.080 (5)0.4350 (12)−0.060 (2)0.070 (8)*
H14A0.736 (6)−0.0374 (14)0.054 (3)0.097 (12)*
U11U22U33U12U13U23
Br10.05371 (15)0.05390 (17)0.04775 (15)0.00057 (11)0.02515 (10)0.00017 (11)
S10.0965 (6)0.0390 (4)0.0891 (5)−0.0055 (3)0.0480 (4)0.0060 (3)
N10.0446 (11)0.0397 (11)0.0476 (11)−0.0021 (8)0.0233 (9)−0.0012 (9)
N20.0441 (10)0.0396 (11)0.0436 (11)−0.0006 (9)0.0212 (9)−0.0029 (9)
C10.0442 (12)0.0399 (12)0.0414 (12)−0.0043 (10)0.0105 (10)−0.0003 (10)
C20.0593 (16)0.0521 (16)0.0598 (15)−0.0093 (12)0.0233 (13)0.0045 (13)
C30.0741 (19)0.0474 (16)0.0755 (18)−0.0129 (14)0.0231 (15)0.0080 (14)
C40.077 (2)0.0386 (16)0.082 (2)−0.0056 (13)0.0140 (16)−0.0001 (14)
C50.0626 (16)0.0411 (15)0.0655 (16)0.0024 (12)0.0185 (13)−0.0077 (13)
C60.0433 (12)0.0414 (13)0.0450 (12)−0.0031 (10)0.0099 (9)−0.0011 (10)
C70.0380 (11)0.0407 (13)0.0392 (11)−0.0013 (10)0.0121 (9)0.0001 (10)
C80.0400 (12)0.0394 (13)0.0392 (11)−0.0015 (10)0.0109 (9)0.0009 (10)
C90.0621 (16)0.0380 (13)0.0626 (15)0.0046 (11)0.0331 (13)0.0005 (12)
C100.0620 (16)0.0484 (15)0.0665 (16)−0.0018 (12)0.0377 (13)0.0054 (13)
C110.0512 (13)0.0386 (13)0.0483 (13)−0.0036 (10)0.0147 (10)0.0016 (10)
C120.0705 (18)0.0389 (15)0.0762 (18)0.0019 (12)0.0400 (15)−0.0019 (13)
C130.0615 (16)0.0436 (15)0.0689 (16)0.0011 (12)0.0377 (14)−0.0004 (12)
C140.091 (3)0.0407 (18)0.089 (3)0.0024 (16)0.028 (2)−0.0003 (16)
S1—C111.754 (2)C5—C61.388 (3)
S1—C141.791 (4)C5—H50.97 (3)
N1—C71.335 (3)C7—C81.457 (3)
N1—C61.381 (3)C8—C131.384 (3)
N1—H1N0.74 (3)C8—C91.390 (3)
N2—C71.334 (3)C9—C101.365 (4)
N2—C11.382 (3)C9—H90.91 (3)
N2—H2N0.77 (3)C10—C111.382 (3)
C1—C61.386 (3)C10—H100.96 (3)
C1—C21.390 (3)C11—C121.389 (3)
C2—C31.376 (4)C12—C131.373 (4)
C2—H20.93 (3)C12—H120.94 (3)
C3—C41.395 (4)C13—H130.97 (3)
C3—H30.95 (3)C14—H14C0.87 (4)
C4—C51.373 (4)C14—H14B0.94 (3)
C4—H40.96 (3)C14—H14A0.94 (3)
C11—S1—C14104.57 (15)N2—C7—C8126.29 (19)
C7—N1—C6109.73 (19)N1—C7—C8125.82 (18)
C7—N1—H1N127.0 (19)C13—C8—C9118.2 (2)
C6—N1—H1N123.0 (19)C13—C8—C7120.93 (19)
C7—N2—C1109.94 (18)C9—C8—C7120.9 (2)
C7—N2—H2N121.6 (19)C10—C9—C8120.6 (2)
C1—N2—H2N128.3 (19)C10—C9—H9118.9 (17)
N2—C1—C6106.04 (19)C8—C9—H9120.3 (17)
N2—C1—C2131.7 (2)C9—C10—C11121.5 (2)
C6—C1—C2122.2 (2)C9—C10—H10120.0 (16)
C3—C2—C1115.9 (3)C11—C10—H10118.4 (16)
C3—C2—H2124.1 (16)C10—C11—C12118.1 (2)
C1—C2—H2120.0 (16)C10—C11—S1117.15 (18)
C2—C3—C4122.1 (3)C12—C11—S1124.79 (19)
C2—C3—H3119.2 (17)C13—C12—C11120.6 (2)
C4—C3—H3118.7 (17)C13—C12—H12119.2 (17)
C5—C4—C3121.9 (3)C11—C12—H12120.2 (17)
C5—C4—H4117.2 (19)C12—C13—C8121.1 (2)
C3—C4—H4121.0 (19)C12—C13—H13120.1 (17)
C4—C5—C6116.5 (3)C8—C13—H13118.9 (18)
C4—C5—H5123.9 (18)S1—C14—H14C104 (2)
C6—C5—H5119.5 (18)S1—C14—H14B111 (2)
N1—C6—C1106.4 (2)H14C—C14—H14B111 (3)
N1—C6—C5132.2 (2)S1—C14—H14A110 (2)
C1—C6—C5121.4 (2)H14C—C14—H14A112 (3)
N2—C7—N1107.9 (2)H14B—C14—H14A109 (3)
C7—N2—C1—C6−0.2 (3)C6—N1—C7—C8178.60 (19)
C7—N2—C1—C2177.8 (3)N2—C7—C8—C131.4 (3)
N2—C1—C2—C3−178.5 (2)N1—C7—C8—C13−178.0 (2)
C6—C1—C2—C3−0.8 (4)N2—C7—C8—C9−178.3 (2)
C1—C2—C3—C40.0 (4)N1—C7—C8—C92.2 (3)
C2—C3—C4—C50.3 (5)C13—C8—C9—C10−0.2 (4)
C3—C4—C5—C60.3 (4)C7—C8—C9—C10179.5 (2)
C7—N1—C6—C10.8 (3)C8—C9—C10—C110.6 (4)
C7—N1—C6—C5−179.2 (3)C9—C10—C11—C12−0.7 (4)
N2—C1—C6—N1−0.4 (2)C9—C10—C11—S1179.5 (2)
C2—C1—C6—N1−178.6 (2)C14—S1—C11—C10178.8 (2)
N2—C1—C6—C5179.6 (2)C14—S1—C11—C12−1.0 (3)
C2—C1—C6—C51.4 (4)C10—C11—C12—C130.4 (4)
C4—C5—C6—N1178.9 (3)S1—C11—C12—C13−179.8 (2)
C4—C5—C6—C1−1.1 (4)C11—C12—C13—C8−0.1 (5)
C1—N2—C7—N10.7 (3)C9—C8—C13—C12−0.1 (4)
C1—N2—C7—C8−178.83 (19)C7—C8—C13—C12−179.8 (2)
C6—N1—C7—N2−0.9 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1N···Br10.74 (2)2.51 (2)3.247 (2)171 (2)
N2—H2N···Br1i0.77 (3)2.50 (2)3.231 (2)159
C5—H5···S1ii0.97 (3)2.98 (3)3.736 (3)135
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N⋯Br10.74 (2)2.51 (2)3.247 (2)171 (2)
N2—H2N⋯Br1i0.77 (3)2.50 (2)3.231 (2)159
C5—H5⋯S1ii0.97 (3)2.98 (3)3.736 (3)135

Symmetry codes: (i) ; (ii) .

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Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

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3.  Synthesis and evaluation of a series of novel 2-[(4-chlorophenoxy)methyl]benzimidazoles as selective neuropeptide Y Y1 receptor antagonists.

Authors:  H Zarrinmayeh; A M Nunes; P L Ornstein; D M Zimmerman; M B Arnold; D A Schober; S L Gackenheimer; R F Bruns; P A Hipskind; T C Britton; B E Cantrell; D R Gehlert
Journal:  J Med Chem       Date:  1998-07-16       Impact factor: 7.446

  3 in total
  2 in total

1.  Bis{2-[4-(methyl-sulfan-yl)phen-yl]-1H-benzimidazol-3-ium} tetra-bromido-cuprate(II) dihydrate.

Authors:  M N Manjunatha; Mohamed Ziaulla; Ravish Sankolli; Noor Shahina Begum; K R Nagasundara
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-04-13

2.  Bis{2-[4-(methyl-sulfan-yl)phen-yl]-1H-benzimidazol-3-ium} tetra-bromido-cadmate(II) ethanol monosolvate.

Authors:  M N Manjunatha; Mohamed Ziaulla; Noor Shahina Begum; K R Nagasundara
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-05-20
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