Literature DB >> 21580081

1-Methyl-4-(1-methyl-1H-benzimidazol-2-yl)pyridinium iodide.

Fang-Ming Wang1.   

Abstract

The cation of the title compound, C(14)H(14)N(3) (+)·I(-), is non-planar, the dihedral angle between the benzimidazole and the 1-methyl-pyridinium planes being 37.4 (2)°. The crystal structure is stabilized by weak π-π stacking inter-actions, the centroid-centroid distances between 1-methyl-imidazole and benzimidazole planes being 3.678 (4) Å.

Entities:  

Year:  2009        PMID: 21580081      PMCID: PMC2980206          DOI: 10.1107/S1600536809053938

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


Related literature

For background to imidazole and its derivatives, see: Huang et al. (2004 ▶). For the biological activity of benzimidazole, see: Demirayak et al. (2002 ▶); Pawar et al. (2004 ▶).

Experimental

Crystal data

C14H14N3 +·I− M = 351.18 Triclinic, a = 7.7048 (15) Å b = 9.9264 (18) Å c = 10.1772 (19) Å α = 64.888 (3)° β = 72.933 (3)° γ = 76.394 (4)° V = 668.2 (2) Å3 Z = 2 Mo Kα radiation μ = 2.38 mm−1 T = 291 K 0.35 × 0.25 × 0.05 mm

Data collection

Bruker SMART CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2000 ▶) T min = 0.493, T max = 0.887 3353 measured reflections 2307 independent reflections 1840 reflections with I > 2σ(I) R int = 0.058

Refinement

R[F 2 > 2σ(F 2)] = 0.043 wR(F 2) = 0.092 S = 1.00 2307 reflections 163 parameters H-atom parameters constrained Δρmax = 0.94 e Å−3 Δρmin = −0.48 e Å−3 Data collection: SMART (Bruker, 2000 ▶); cell refinement: SAINT (Bruker, 2000 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809053938/bx2252sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809053938/bx2252Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H14N3+·IZ = 2
Mr = 351.18F(000) = 344
Triclinic, P1Dx = 1.745 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 7.7048 (15) ÅCell parameters from 1236 reflections
b = 9.9264 (18) Åθ = 3.1–22.1°
c = 10.1772 (19) ŵ = 2.38 mm1
α = 64.888 (3)°T = 291 K
β = 72.933 (3)°Piece, colorless
γ = 76.394 (4)°0.35 × 0.25 × 0.05 mm
V = 668.2 (2) Å3
Bruker SMART CCD area-detector diffractometer2307 independent reflections
Radiation source: sealed tube1840 reflections with I > 2σ(I)
graphiteRint = 0.058
phi and ω scansθmax = 25.0°, θmin = 2.3°
Absorption correction: multi-scan (SADABS; Bruker, 2000)h = −9→7
Tmin = 0.493, Tmax = 0.887k = −10→11
3353 measured reflectionsl = −12→12
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.043Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.092H-atom parameters constrained
S = 1.00w = 1/[σ2(Fo2) + (0.0301P)2] where P = (Fo2 + 2Fc2)/3
2307 reflections(Δ/σ)max < 0.001
163 parametersΔρmax = 0.94 e Å3
0 restraintsΔρmin = −0.48 e Å3
Geometry. Least-squares planes (x,y,z in crystal coordinates) and deviations from them (* indicates atom used to define plane)7.5483 (0.0040) x + 0.9256 (0.0225) y + 1.1206 (0.0247) z = 6.5511 (0.0171)* 0.0017 (0.0039) N1 * 0.0018 (0.0041) C2 * -0.0063 (0.0040) C3 * 0.0074 (0.0040) C4 * -0.0041 (0.0042) C5 * -0.0004 (0.0041) C6Rms deviation of fitted atoms = 0.00446.8822 (0.0088) x + 3.4760 (0.0239) y + 7.0324 (0.0184) z = 8.6547 (0.0229)Angle to previous plane (with approximate e.s.d.) = 37.43 (0.15)* -0.0020 (0.0031) C7 * -0.0067 (0.0031) N2 * 0.0128 (0.0031) C8 * -0.0138 (0.0030) C13 * 0.0098 (0.0030) N3Rms deviation of fitted atoms = 0.0100
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
C10.7976 (9)0.1720 (7)0.3724 (7)0.0574 (18)
H1A0.78500.14180.47740.086*
H1B0.91490.12930.33110.086*
H1C0.70270.13740.35570.086*
C20.7960 (8)0.4044 (7)0.1519 (7)0.0443 (15)
H2A0.81210.34520.09770.053*
C30.7870 (8)0.5551 (6)0.0807 (7)0.0422 (15)
H3A0.79480.5992−0.02140.051*
C40.7660 (8)0.6442 (6)0.1610 (6)0.0387 (14)
C50.7505 (8)0.5736 (6)0.3135 (6)0.0422 (15)
H5A0.73370.62970.37070.051*
C60.7598 (8)0.4226 (7)0.3784 (7)0.0445 (15)
H6A0.75060.37590.48060.053*
C70.7700 (8)0.8070 (6)0.0779 (6)0.0339 (13)
C80.8426 (8)1.0150 (6)−0.0938 (6)0.0395 (14)
C90.9152 (8)1.1306 (7)−0.2232 (7)0.0443 (15)
H9A1.00631.1104−0.29830.053*
C100.8473 (9)1.2748 (7)−0.2354 (7)0.0498 (17)
H10A0.89411.3536−0.32020.060*
C110.7082 (9)1.3076 (7)−0.1230 (7)0.0482 (16)
H11A0.66441.4071−0.13610.058*
C120.6369 (8)1.1955 (6)0.0047 (7)0.0423 (15)
H12A0.54541.21610.07930.051*
C130.7076 (7)1.0494 (6)0.0175 (6)0.0344 (13)
C140.5260 (8)0.8957 (7)0.2645 (7)0.0478 (16)
H14A0.52250.79090.32450.072*
H14B0.40900.94050.24000.072*
H14C0.55410.94380.31870.072*
I10.26309 (6)0.26836 (5)0.37099 (4)0.05037 (19)
N10.7821 (6)0.3387 (5)0.2996 (6)0.0432 (12)
N20.8779 (7)0.8606 (5)−0.0548 (5)0.0426 (12)
N30.6668 (6)0.9141 (5)0.1277 (5)0.0367 (11)
U11U22U33U12U13U23
C10.062 (5)0.042 (4)0.064 (5)−0.010 (3)−0.008 (4)−0.019 (3)
C20.047 (4)0.049 (4)0.045 (4)−0.011 (3)−0.011 (3)−0.023 (3)
C30.043 (4)0.046 (4)0.042 (4)0.001 (3)−0.011 (3)−0.022 (3)
C40.030 (3)0.047 (4)0.042 (4)−0.001 (3)−0.008 (3)−0.021 (3)
C50.046 (4)0.045 (4)0.042 (4)−0.010 (3)−0.007 (3)−0.022 (3)
C60.053 (4)0.044 (4)0.037 (3)−0.004 (3)−0.008 (3)−0.018 (3)
C70.032 (3)0.039 (3)0.033 (3)−0.005 (3)−0.008 (3)−0.016 (3)
C80.043 (4)0.042 (4)0.039 (3)−0.006 (3)−0.016 (3)−0.016 (3)
C90.045 (4)0.046 (4)0.043 (4)−0.011 (3)−0.010 (3)−0.016 (3)
C100.052 (4)0.051 (4)0.046 (4)−0.020 (3)−0.021 (3)−0.005 (3)
C110.048 (4)0.038 (4)0.065 (5)−0.001 (3)−0.024 (4)−0.021 (3)
C120.041 (4)0.044 (4)0.048 (4)0.001 (3)−0.013 (3)−0.024 (3)
C130.032 (3)0.041 (4)0.036 (3)−0.003 (3)−0.014 (3)−0.017 (3)
C140.042 (4)0.047 (4)0.053 (4)−0.004 (3)−0.008 (3)−0.021 (3)
I10.0493 (3)0.0535 (3)0.0478 (3)−0.0021 (2)−0.0128 (2)−0.0197 (2)
N10.034 (3)0.039 (3)0.057 (3)−0.003 (2)−0.013 (3)−0.017 (3)
N20.045 (3)0.046 (3)0.044 (3)−0.006 (2)−0.014 (3)−0.021 (2)
N30.031 (3)0.045 (3)0.038 (3)−0.004 (2)−0.009 (2)−0.020 (3)
C1—N11.490 (8)C8—N21.389 (7)
C1—H1A0.9600C8—C131.397 (8)
C1—H1B0.9600C8—C91.397 (8)
C1—H1C0.9600C9—C101.368 (8)
C2—N11.343 (7)C9—H9A0.9300
C2—C31.353 (8)C10—C111.412 (9)
C2—H2A0.9300C10—H10A0.9300
C3—C41.395 (7)C11—C121.368 (8)
C3—H3A0.9300C11—H11A0.9300
C4—C51.386 (7)C12—C131.388 (7)
C4—C71.475 (8)C12—H12A0.9300
C5—C61.350 (7)C13—N31.369 (7)
C5—H5A0.9300C14—N31.462 (7)
C6—N11.336 (7)C14—H14A0.9600
C6—H6A0.9300C14—H14B0.9600
C7—N21.318 (7)C14—H14C0.9600
C7—N31.357 (7)
N1—C1—H1A109.5C10—C9—H9A121.3
N1—C1—H1B109.5C8—C9—H9A121.3
H1A—C1—H1B109.5C9—C10—C11122.1 (6)
N1—C1—H1C109.5C9—C10—H10A119.0
H1A—C1—H1C109.5C11—C10—H10A119.0
H1B—C1—H1C109.5C12—C11—C10121.1 (6)
N1—C2—C3121.1 (5)C12—C11—H11A119.5
N1—C2—H2A119.5C10—C11—H11A119.5
C3—C2—H2A119.5C11—C12—C13116.7 (6)
C2—C3—C4119.7 (6)C11—C12—H12A121.6
C2—C3—H3A120.1C13—C12—H12A121.6
C4—C3—H3A120.1N3—C13—C12131.6 (5)
C5—C4—C3118.0 (5)N3—C13—C8105.5 (5)
C5—C4—C7123.9 (5)C12—C13—C8122.9 (6)
C3—C4—C7118.1 (5)N3—C14—H14A109.5
C6—C5—C4119.6 (5)N3—C14—H14B109.5
C6—C5—H5A120.2H14A—C14—H14B109.5
C4—C5—H5A120.2N3—C14—H14C109.5
N1—C6—C5121.8 (6)H14A—C14—H14C109.5
N1—C6—H6A119.1H14B—C14—H14C109.5
C5—C6—H6A119.1C6—N1—C2119.9 (5)
N2—C7—N3114.0 (5)C6—N1—C1121.0 (5)
N2—C7—C4121.4 (5)C2—N1—C1119.1 (5)
N3—C7—C4124.6 (5)C7—N2—C8103.7 (5)
N2—C8—C13110.2 (5)C7—N3—C13106.5 (5)
N2—C8—C9130.0 (6)C7—N3—C14128.7 (5)
C13—C8—C9119.8 (5)C13—N3—C14124.6 (5)
C10—C9—C8117.4 (6)
N1—C2—C3—C41.1 (9)N2—C8—C13—C12−176.0 (5)
C2—C3—C4—C5−1.6 (9)C9—C8—C13—C121.7 (8)
C2—C3—C4—C7175.7 (5)C5—C6—N1—C20.1 (9)
C3—C4—C5—C61.3 (9)C5—C6—N1—C1178.2 (6)
C7—C4—C5—C6−175.7 (5)C3—C2—N1—C6−0.3 (9)
C4—C5—C6—N1−0.6 (9)C3—C2—N1—C1−178.5 (6)
C5—C4—C7—N2141.4 (6)N3—C7—N2—C80.4 (6)
C3—C4—C7—N2−35.7 (8)C4—C7—N2—C8−179.7 (5)
C5—C4—C7—N3−38.7 (8)C13—C8—N2—C7−1.9 (6)
C3—C4—C7—N3144.2 (5)C9—C8—N2—C7−179.3 (6)
N2—C8—C9—C10176.4 (5)N2—C7—N3—C131.2 (6)
C13—C8—C9—C10−0.8 (8)C4—C7—N3—C13−178.7 (5)
C8—C9—C10—C11−0.4 (8)N2—C7—N3—C14176.0 (5)
C9—C10—C11—C120.9 (9)C4—C7—N3—C14−3.8 (8)
C10—C11—C12—C13−0.1 (8)C12—C13—N3—C7176.2 (5)
C11—C12—C13—N3−179.4 (5)C8—C13—N3—C7−2.2 (5)
C11—C12—C13—C8−1.2 (8)C12—C13—N3—C141.1 (9)
N2—C8—C13—N32.6 (6)C8—C13—N3—C14−177.3 (5)
C9—C8—C13—N3−179.7 (5)
  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.  Synthesis and anticancer and anti-HIV testing of some pyrazino[1,2-a]benzimidazole derivatives.

Authors:  Seref Demirayak; Usama Abu Mohsen; Ahmet Cağri Karaburun
Journal:  Eur J Med Chem       Date:  2002-03       Impact factor: 6.514

3.  A new route to supramolecular isomers via molecular templating: nanosized molecular polygons of copper(I) 2-methylimidazolates.

Authors:  Xiao-Chun Huang; Jie-Peng Zhang; Xiao-Ming Chen
Journal:  J Am Chem Soc       Date:  2004-10-20       Impact factor: 15.419

4.  Studies of antimicrobial activity of N-alkyl and N-acyl 2-(4-thiazolyl)-1H-benzimidazoles.

Authors:  N S Pawar; D S Dalal; S R Shimpi; P P Mahulikar
Journal:  Eur J Pharm Sci       Date:  2004-02       Impact factor: 4.384

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