Literature DB >> 21754094

2-Methyl-5,6-dinitro-benzimidazolium chloride.

Sebla Dinçer, Gonca Gönülalan, Barış Tercan, Tuncer Hökelek.   

Abstract

In the title compound, C(8)H(7)N(4)O(4) (+)·Cl(-), the cation possesses twofold symmetry, with the twofold axis bis-ecting the 2-methyl-5,6-dinitro-benzimidazolium cation. The methyl H atoms are disordered about this twofold axis and were assigned equal half-occupancies. The chloride anion also lies on a twofold axis. In the crystal, N-H⋯Cl and C-H⋯O hydrogen bonds link the ions to form a three-dimensional network.

Entities:  

Year:  2011        PMID: 21754094      PMCID: PMC3100037          DOI: 10.1107/S1600536811008105

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


Related literature

For literature on the anti­tumour, anthelmintic, anti­bacterial, virucidal and fungicidal properties of benzimidazole derivatives, see: Refaat (2010 ▶); Laryea et al. (2010 ▶); Horton et al. (2003 ▶); Spasov et al. (1999 ▶); Soula & Luu-Duc (1986 ▶). For literature on the coordination and corrosion inhibitor abilities of the benzimidazoles, see: Kuznetsov & Kaza­nsky (2008 ▶); Subramanyam & Mayanna (1985 ▶). For literature on the use of benzimidazole derivatives as photographic materials and dyes, see: Hoffmann et al. (2011 ▶); Alamgir et al. (2007 ▶). For a related structure, see: Hökelek et al. (2002 ▶).

Experimental

Crystal data

C8H7N4O4 +·Cl− M = 258.63 Orthorhombic, a = 4.9453 (1) Å b = 20.4691 (4) Å c = 10.4543 (3) Å V = 1058.25 (4) Å3 Z = 4 Mo Kα radiation μ = 0.37 mm−1 T = 100 K 0.46 × 0.40 × 0.20 mm

Data collection

Bruker Kappa APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2001 ▶) T min = 0.848, T max = 0.929 3043 measured reflections 1302 independent reflections 1264 reflections with I > 2σ(I) R int = 0.016

Refinement

R[F 2 > 2σ(F 2)] = 0.024 wR(F 2) = 0.062 S = 1.11 1302 reflections 83 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.27 e Å−3 Δρmin = −0.16 e Å−3 Absolute structure: Flack (1983 ▶), 517 Friedel pairs Flack parameter: 0.10 (6) Data collection: APEX2 (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶) and Mercury (Macrae et al., 2006 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811008105/su2261sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811008105/su2261Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C8H7N4O4+·ClF(000) = 528
Mr = 258.63Dx = 1.623 Mg m3
Orthorhombic, C2221Mo Kα radiation, λ = 0.71073 Å
Hall symbol: C 2c 2Cell parameters from 2425 reflections
a = 4.9453 (1) Åθ = 2.8–28.2°
b = 20.4691 (4) ŵ = 0.37 mm1
c = 10.4543 (3) ÅT = 100 K
V = 1058.25 (4) Å3Block, yellow
Z = 40.46 × 0.40 × 0.20 mm
Bruker Kappa APEXII CCD area-detector diffractometer1302 independent reflections
Radiation source: fine-focus sealed tube1264 reflections with I > 2σ(I)
graphiteRint = 0.016
φ and ω scansθmax = 28.3°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Bruker, 2001)h = −6→6
Tmin = 0.848, Tmax = 0.929k = −20→26
3043 measured reflectionsl = −13→13
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.024H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.062w = 1/[σ2(Fo2) + (0.0335P)2 + 0.4282P] where P = (Fo2 + 2Fc2)/3
S = 1.11(Δ/σ)max < 0.001
1302 reflectionsΔρmax = 0.27 e Å3
83 parametersΔρmin = −0.16 e Å3
0 restraintsAbsolute structure: Flack (1983), 517 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: 0.10 (6)
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 > 2sigma(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)
Cl10.38240 (8)0.00000.50000.02165 (12)
O10.9799 (2)0.31462 (5)0.62135 (10)0.0235 (2)
O20.5726 (2)0.27552 (5)0.60594 (10)0.0234 (2)
N10.8093 (2)0.27227 (6)0.64031 (11)0.0174 (2)
N20.8329 (2)0.03251 (5)0.68250 (10)0.0133 (2)
H2A0.712 (4)0.0200 (10)0.628 (2)0.035 (6)*
C10.8975 (3)0.21173 (6)0.70323 (11)0.0143 (2)
C20.7865 (3)0.15455 (7)0.65679 (12)0.0146 (3)
H20.64860.15450.59630.018*
C30.8933 (3)0.09724 (6)0.70596 (11)0.0124 (2)
C41.0000−0.00475 (10)0.75000.0143 (3)
C51.0000−0.07722 (10)0.75000.0207 (4)
H5A0.8609−0.09290.69370.031*0.50
H5B0.9666−0.09290.83510.031*0.50
H5C1.1726−0.09290.72110.031*0.50
U11U22U33U12U13U23
Cl10.01317 (19)0.0379 (3)0.01385 (18)0.0000.000−0.00422 (19)
O10.0284 (5)0.0159 (5)0.0261 (5)−0.0007 (4)0.0058 (4)0.0042 (4)
O20.0231 (5)0.0213 (5)0.0259 (5)0.0069 (4)−0.0046 (4)0.0017 (4)
N10.0222 (6)0.0145 (5)0.0156 (5)0.0036 (5)0.0015 (4)0.0010 (4)
N20.0137 (5)0.0129 (5)0.0133 (5)−0.0011 (4)0.0006 (4)−0.0010 (4)
C10.0145 (6)0.0127 (6)0.0157 (5)0.0026 (5)0.0030 (5)0.0019 (4)
C20.0133 (5)0.0169 (6)0.0137 (5)0.0015 (5)0.0000 (4)0.0009 (5)
C30.0129 (5)0.0125 (6)0.0117 (5)−0.0009 (5)0.0026 (5)−0.0007 (4)
C40.0145 (7)0.0154 (9)0.0131 (7)0.0000.0035 (6)0.000
C50.0250 (10)0.0110 (9)0.0261 (10)0.0000.0025 (8)0.000
N1—O11.2259 (16)C2—H20.9300
N1—O21.2260 (16)C3—C3i1.401 (3)
N1—C11.4692 (17)C4—N21.3275 (16)
N2—C31.3801 (16)C4—N2i1.3275 (16)
N2—H2A0.86 (2)C4—C51.483 (3)
C1—C1i1.409 (3)C5—H5A0.9600
C2—C11.3808 (18)C5—H5B0.9600
C2—C31.3855 (18)C5—H5C0.9600
O1—N1—O2124.84 (12)N2—C3—C2131.66 (12)
O1—N1—C1117.67 (11)N2—C3—C3i106.24 (7)
O2—N1—C1117.41 (11)C2—C3—C3i122.08 (8)
C3—N2—H2A123.5 (14)N2i—C4—N2109.87 (17)
C4—N2—C3108.82 (12)N2i—C4—C5125.07 (9)
C4—N2—H2A127.6 (14)N2—C4—C5125.07 (9)
C1i—C1—N1121.63 (7)C4—C5—H5A109.5
C2—C1—N1116.07 (11)C4—C5—H5B109.5
C2—C1—C1i122.02 (8)C4—C5—H5C109.5
C1—C2—C3115.83 (12)H5A—C5—H5B109.5
C1—C2—H2122.1H5A—C5—H5C109.5
C3—C2—H2122.1H5B—C5—H5C109.5
O1—N1—C1—C1i33.8 (2)C3—C2—C1—N1172.73 (11)
O1—N1—C1—C2−140.30 (13)C3—C2—C1—C1i−1.3 (2)
O2—N1—C1—C1i−149.18 (15)C1—C2—C3—N2179.82 (13)
O2—N1—C1—C236.76 (17)C1—C2—C3—C3i−2.1 (2)
C4—N2—C3—C2177.52 (13)N2i—C4—N2—C30.32 (6)
C4—N2—C3—C3i−0.81 (16)C5—C4—N2—C3−179.68 (6)
D—H···AD—HH···AD···AD—H···A
N2—H2A···Cl10.86 (2)2.15 (2)3.008 (1)172.5 (18)
C2—H2···O1ii0.932.513.339 (2)150
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H2A⋯Cl10.86 (2)2.15 (2)3.008 (1)172.5 (18)
C2—H2⋯O1i0.932.513.339 (2)150

Symmetry code: (i) .

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