Literature DB >> 21578934

2-Methyl-6-(6-methyl-1H-benzimidazol-2-yl)phenol-2-methyl-6-(5-methyl-1H-benzimidazol-2-yl)phenol (3/1).

Naser Eltaher Eltayeb, Siang Guan Teoh, Rohana Adnan, Hoong-Kun Fun, Suchada Chantrapromma.   

Abstract

The title compound, 0.75C(15)H(14)N(2)O·0.25C(15)H(14)N(2)O, is a co-crystal of 2-methyl-6-(6-methyl-1H-benzimidazol-2-yl)phenol as the major component and 2-methyl-6-(5-methyl-1H-benz-imidazol-2-yl)phenol as the minor component. The refined site-occupancy ratio is 0.746 (4)/0.254 (4). The conformations of both components are identical except for that of the methyl substituent on the benzene ring of the benzimidazole unit which is positionally disordered over two positions. The mol-ecule is essentially planar, the dihedral angle between the benzimidazole plane and the benzene ring being 3.49 (4)°. An intra-molecular O-H⋯N hydrogen bond generates an S(6) ring motif. In the crystal packing, mol-ecules are linked through N-H⋯O hydrogen bonds into chains along [201]. These chains are stacked approximately along the a-axis direction. The crystal packing is further stabilized by weak N-H⋯O and O⋯H⋯N hydrogen bonds, together with weak inter-molecular C-H⋯π inter-actions. A π-π inter-action with a centroid-centroid distance of 3.6241 (6) Å is also observed between the substituted phenyl ring and that of the benzimidazole system.

Entities:  

Year:  2009        PMID: 21578934      PMCID: PMC2972110          DOI: 10.1107/S1600536809049770

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


Related literature

For bond-length data, see: Allen et al. (1987 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For background to benzimidazoles and their bioactivity, see: Demirayak et al. (2002 ▶); Guven et al. (2007 ▶); Minoura et al. (2004 ▶); Pawar et al. (2005 ▶); Thakurdesai et al. (2007 ▶); Tomei et al. (2003 ▶). For related structures, see: Eltayeb et al. (2007 ▶, 2009a ▶,b ▶); Xiao et al. (2009 ▶). For the stability of the temperature controller used in the data collection, see Cosier & Glazer, (1986 ▶).

Experimental

Crystal data

0.75C15H14N2O·0.25C15H14N2O M = 238.28 Monoclinic, a = 4.9231 (1) Å b = 19.8900 (6) Å c = 12.3199 (3) Å β = 105.085 (1)° V = 1164.80 (5) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.59 × 0.17 × 0.10 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.951, T max = 0.992 34431 measured reflections 3703 independent reflections 3165 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.131 S = 1.07 3703 reflections 184 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.61 e Å−3 Δρmin = −0.20 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); 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 and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809049770/sj2688sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809049770/sj2688Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
0.75C15H14N2O·0.25C15H14N2OF(000) = 504
Mr = 238.28Dx = 1.359 Mg m3
Monoclinic, P21/cMelting point: ?' K
Hall symbol: -P 2ybcMo Kα radiation, λ = 0.71073 Å
a = 4.9231 (1) ÅCell parameters from 3703 reflections
b = 19.8900 (6) Åθ = 2.0–31.0°
c = 12.3199 (3) ŵ = 0.09 mm1
β = 105.085 (1)°T = 100 K
V = 1164.80 (5) Å3Needle, yellow
Z = 40.59 × 0.17 × 0.10 mm
Bruker APEXII CCD area-detector diffractometer3703 independent reflections
Radiation source: sealed tube3165 reflections with I > 2σ(I)
graphiteRint = 0.030
φ and ω scansθmax = 31.0°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −7→7
Tmin = 0.951, Tmax = 0.992k = −28→28
34431 measured reflectionsl = −17→17
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.046Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.131H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0668P)2 + 0.4392P] where P = (Fo2 + 2Fc2)/3
3703 reflections(Δ/σ)max = 0.001
184 parametersΔρmax = 0.61 e Å3
0 restraintsΔρmin = −0.20 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K.
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)
O11.19279 (16)0.73306 (4)0.38129 (6)0.01798 (17)
N10.75983 (18)0.80945 (5)0.29676 (7)0.01616 (18)
N20.51410 (19)0.79954 (5)0.11676 (8)0.01659 (18)
C11.1529 (2)0.70454 (5)0.27765 (8)0.01503 (19)
C21.3414 (2)0.65397 (5)0.26490 (9)0.0167 (2)
C31.3081 (2)0.62518 (6)0.15941 (10)0.0202 (2)
H3A1.43260.59180.15010.024*
C41.0927 (2)0.64511 (6)0.06716 (10)0.0226 (2)
H4A1.07560.6256−0.00290.027*
C50.9042 (2)0.69426 (6)0.08074 (9)0.0189 (2)
H5A0.75910.70730.01960.023*
C60.9303 (2)0.72445 (5)0.18570 (8)0.01520 (19)
C70.7363 (2)0.77685 (5)0.20056 (8)0.01523 (19)
C80.3873 (2)0.85056 (5)0.16229 (9)0.0164 (2)
C90.1586 (2)0.89213 (5)0.11465 (9)0.0187 (2)
H9A0.05870.88760.03980.022*
C100.0862 (2)0.94063 (6)0.18357 (10)0.0197 (2)
H10A−0.06920.97020.15370.024*0.254 (4)
C110.2396 (2)0.94650 (6)0.29702 (10)0.0202 (2)
H11A0.18530.98010.34320.024*0.746 (4)
C120.4672 (2)0.90501 (6)0.34381 (9)0.0199 (2)
H12A0.56650.90940.41880.024*
C130.5427 (2)0.85640 (5)0.27486 (9)0.0163 (2)
C141.5751 (2)0.63299 (6)0.36352 (9)0.0208 (2)
H14A1.68600.59880.34050.031*
H14B1.49730.61560.42160.031*
H14C1.69180.67110.39160.031*
C15−0.1576 (3)0.98865 (7)0.13834 (13)0.0201 (3)0.746 (4)
H15A−0.21190.98660.05770.030*0.746 (4)
H15B−0.10061.03360.16200.030*0.746 (4)
H15C−0.31420.97600.16680.030*0.746 (4)
C15A0.1355 (10)0.9949 (2)0.3651 (5)0.0267 (11)0.254 (4)
H15D0.25930.99590.43950.040*0.254 (4)
H15E−0.04960.98200.36890.040*0.254 (4)
H15F0.12821.03870.33170.040*0.254 (4)
H1N20.445 (4)0.7809 (10)0.0451 (16)0.041 (5)*
H1O11.058 (5)0.7671 (11)0.3717 (19)0.058 (6)*
U11U22U33U12U13U23
O10.0181 (4)0.0218 (4)0.0123 (3)0.0025 (3)0.0008 (3)−0.0007 (3)
N10.0156 (4)0.0180 (4)0.0141 (4)0.0009 (3)0.0025 (3)0.0006 (3)
N20.0152 (4)0.0189 (4)0.0138 (4)0.0011 (3)0.0005 (3)0.0000 (3)
C10.0143 (4)0.0174 (4)0.0126 (4)−0.0020 (3)0.0021 (3)0.0010 (3)
C20.0149 (4)0.0180 (4)0.0164 (5)−0.0004 (3)0.0026 (3)0.0014 (4)
C30.0183 (5)0.0219 (5)0.0196 (5)0.0025 (4)0.0037 (4)−0.0019 (4)
C40.0211 (5)0.0272 (5)0.0181 (5)0.0024 (4)0.0030 (4)−0.0046 (4)
C50.0174 (5)0.0238 (5)0.0137 (4)0.0013 (4)0.0007 (4)−0.0014 (4)
C60.0142 (4)0.0174 (4)0.0133 (4)−0.0003 (3)0.0024 (3)0.0001 (3)
C70.0136 (4)0.0175 (4)0.0136 (4)−0.0005 (3)0.0019 (3)0.0018 (3)
C80.0148 (4)0.0172 (4)0.0163 (5)−0.0010 (3)0.0024 (3)0.0008 (3)
C90.0157 (4)0.0201 (5)0.0184 (5)0.0001 (4)0.0010 (4)0.0022 (4)
C100.0162 (4)0.0194 (5)0.0228 (5)−0.0002 (4)0.0037 (4)0.0032 (4)
C110.0197 (5)0.0195 (5)0.0216 (5)0.0008 (4)0.0060 (4)−0.0005 (4)
C120.0201 (5)0.0220 (5)0.0172 (5)0.0007 (4)0.0040 (4)−0.0007 (4)
C130.0152 (4)0.0174 (4)0.0157 (5)−0.0002 (3)0.0027 (3)0.0020 (3)
C140.0177 (5)0.0234 (5)0.0192 (5)0.0033 (4)0.0012 (4)0.0023 (4)
C150.0167 (6)0.0179 (7)0.0243 (7)0.0024 (5)0.0027 (5)0.0019 (5)
C15A0.023 (2)0.024 (2)0.035 (3)0.0009 (17)0.0110 (19)−0.0034 (18)
O1—C11.3639 (12)C9—H9A0.9300
O1—H1O10.93 (2)C10—C111.4100 (16)
N1—C71.3291 (13)C10—C151.5217 (18)
N1—C131.3919 (13)C10—H10A0.9599
N2—C71.3706 (13)C11—C121.3902 (15)
N2—C81.3842 (14)C11—C15A1.454 (5)
N2—H1N20.936 (19)C11—H11A0.9600
C1—C21.4045 (14)C12—C131.3996 (15)
C1—C61.4124 (14)C12—H12A0.9300
C2—C31.3904 (15)C14—H14A0.9600
C2—C141.4990 (15)C14—H14B0.9600
C3—C41.3951 (16)C14—H14C0.9600
C3—H3A0.9300C15—H10A0.5624
C4—C51.3877 (15)C15—H15A0.9600
C4—H4A0.9300C15—H15B0.9600
C5—C61.4009 (14)C15—H15C0.9600
C5—H5A0.9300C15A—H11A0.5030
C6—C71.4572 (14)C15A—H15D0.9600
C8—C91.3970 (14)C15A—H15E0.9600
C8—C131.4035 (14)C15A—H15F0.9600
C9—C101.3915 (16)
C1—O1—H1O1105.0 (14)C9—C10—C15120.98 (11)
C7—N1—C13105.67 (8)C11—C10—C15118.62 (11)
C7—N2—C8106.97 (9)C9—C10—H10A119.8
C7—N2—H1N2127.1 (12)C11—C10—H10A119.8
C8—N2—H1N2125.5 (12)C12—C11—C10121.86 (10)
O1—C1—C2117.66 (9)C12—C11—C15A121.4 (2)
O1—C1—C6121.79 (9)C10—C11—C15A116.6 (2)
C2—C1—C6120.55 (9)C12—C11—H11A119.1
C3—C2—C1118.62 (10)C10—C11—H11A119.0
C3—C2—C14121.45 (10)C11—C12—C13118.11 (10)
C1—C2—C14119.92 (9)C11—C12—H12A120.9
C2—C3—C4121.60 (10)C13—C12—H12A120.9
C2—C3—H3A119.2N1—C13—C12131.12 (10)
C4—C3—H3A119.2N1—C13—C8109.24 (9)
C5—C4—C3119.50 (10)C12—C13—C8119.63 (10)
C5—C4—H4A120.2C2—C14—H14A109.5
C3—C4—H4A120.2C2—C14—H14B109.5
C4—C5—C6120.63 (10)H14A—C14—H14B109.5
C4—C5—H5A119.7C2—C14—H14C109.5
C6—C5—H5A119.7H14A—C14—H14C109.5
C5—C6—C1119.07 (9)H14B—C14—H14C109.5
C5—C6—C7121.12 (9)C10—C15—H15A109.5
C1—C6—C7119.80 (9)H10A—C15—H15A107.6
N1—C7—N2112.23 (9)C10—C15—H15B109.5
N1—C7—C6123.58 (9)H10A—C15—H15B111.4
N2—C7—C6124.17 (9)C10—C15—H15C109.5
N2—C8—C9131.51 (10)H10A—C15—H15C109.4
N2—C8—C13105.89 (9)C11—C15A—H15D109.5
C9—C8—C13122.58 (10)C11—C15A—H15E109.5
C10—C9—C8117.42 (10)H15D—C15A—H15E109.5
C10—C9—H9A121.3C11—C15A—H15F109.5
C8—C9—H9A121.3H15D—C15A—H15F109.5
C9—C10—C11120.40 (10)H15E—C15A—H15F109.5
O1—C1—C2—C3−178.69 (9)C1—C6—C7—N2−179.91 (9)
C6—C1—C2—C31.56 (15)C7—N2—C8—C9178.20 (11)
O1—C1—C2—C140.27 (14)C7—N2—C8—C13−0.17 (11)
C6—C1—C2—C14−179.49 (9)N2—C8—C9—C10−178.36 (11)
C1—C2—C3—C4−0.34 (17)C13—C8—C9—C10−0.22 (16)
C14—C2—C3—C4−179.28 (10)C8—C9—C10—C11−0.31 (16)
C2—C3—C4—C5−0.80 (18)C8—C9—C10—C15179.22 (11)
C3—C4—C5—C60.73 (17)C9—C10—C11—C120.42 (17)
C4—C5—C6—C10.46 (16)C15—C10—C11—C12−179.13 (11)
C4—C5—C6—C7179.02 (10)C9—C10—C11—C15A−175.2 (2)
O1—C1—C6—C5178.63 (9)C15—C10—C11—C15A5.2 (3)
C2—C1—C6—C5−1.62 (15)C10—C11—C12—C130.03 (17)
O1—C1—C6—C70.06 (15)C15A—C11—C12—C13175.5 (2)
C2—C1—C6—C7179.81 (9)C7—N1—C13—C12−178.89 (11)
C13—N1—C7—N2−0.43 (12)C7—N1—C13—C80.31 (11)
C13—N1—C7—C6177.88 (9)C11—C12—C13—N1178.57 (10)
C8—N2—C7—N10.39 (12)C11—C12—C13—C8−0.56 (16)
C8—N2—C7—C6−177.91 (9)N2—C8—C13—N1−0.08 (11)
C5—C6—C7—N1−176.56 (10)C9—C8—C13—N1−178.63 (9)
C1—C6—C7—N11.98 (15)N2—C8—C13—C12179.22 (9)
C5—C6—C7—N21.55 (16)C9—C8—C13—C120.67 (16)
D—H···AD—HH···AD···AD—H···A
N2—H1N2···O1i0.936 (19)2.095 (19)2.9916 (12)160.1 (18)
O1—H1O1···N10.93 (2)1.74 (2)2.6040 (12)153 (2)
C15—H15C···Cg3ii0.962.663.5731 (16)160
C15A—H15F···Cg2iii0.962.963.780 (4)144
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H1N2⋯O1i 0.936 (19)2.095 (19)2.9916 (12)160.1 (18)
O1—H1O1⋯N10.93 (2)1.74 (2)2.6040 (12)153 (2)
C15—H15CCg3ii 0.962.663.5731 (16)160
C15A—H15FCg2iii 0.962.963.780 (4)144

Symmetry codes: (i) ; (ii) ; (iii) . Cg2 and Cg3 are the centroids of the C1–C6 and C8–C13 rings, respectively.

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