Literature DB >> 21754050

4,4'-Dibromo-2,2'-{[(3aS,7aS)-2,3,3a,4,5,6,7,7a-octa-hydro-1H-1,3-benzimidazole-1,3-di-yl]bis-(methyl-idene)}diphenol.

Augusto Rivera, Diego Quiroga, Jaime Ríos-Motta, Michal Dušek, Karla Fejfarová.   

Abstract

The cyclo-hexane ring in the title compound, C(21)H(24)Br(2)N(2)O(2), adopts a chair conformation and the five-membered ring to which it is fused has a twisted envelope conformation. The asymmetric unit contains one half-mol-ecule, which is related to the other half by a twofold rotation axis. The two N atoms of the five-membered ring are linked to the hy-droxy groups by intra-molecular O-H⋯N hydrogen bonds. In the crystal, inter-molecular C-H⋯O and C-H⋯π inter-actions occur.

Entities:  

Year:  2011        PMID: 21754050      PMCID: PMC3099886          DOI: 10.1107/S1600536811006489

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


Related literature

For a related structure, see: Rivera et al. (2010 ▶). For uses of di-Mannich bases, see: Mitra et al. (2006 ▶).

Experimental

Crystal data

C21H24Br2N2O2 M = 496.2 Orthorhombic, a = 5.9645 (2) Å b = 18.5497 (4) Å c = 9.0494 (2) Å V = 1001.22 (5) Å3 Z = 2 Cu Kα radiation μ = 5.32 mm−1 T = 120 K 0.19 × 0.13 × 0.10 mm

Data collection

Oxford Diffraction Xcalibur diffractometer with an Atlas detector Absorption correction: analytical (CrysAlis PRO; Oxford Diffraction, 2009 ▶) T min = 0.454, T max = 0.678 17493 measured reflections 1749 independent reflections 1739 reflections with I > 3σ(I) R int = 0.022

Refinement

R[F 2 > 2σ(F 2)] = 0.015 wR(F 2) = 0.049 S = 1.21 1749 reflections 126 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.11 e Å−3 Δρmin = −0.12 e Å−3 Absolute structure: Flack (1983 ▶), 670 Friedel pairs Flack parameter: 0.008 (20) Data collection: CrysAlis CCD (Oxford Diffraction, 2009 ▶); cell refinement: CrysAlis RED (Oxford Diffraction, 2009 ▶); data reduction: CrysAlis RED; program(s) used to solve structure: SIR2002 (Burla et al., 2003 ▶); program(s) used to refine structure: JANA2006 (Petříček et al., 2006 ▶); molecular graphics: DIAMOND (Brandenburg & Putz, 2005 ▶); software used to prepare material for publication: JANA2006. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536811006489/ng5118sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811006489/ng5118Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C21H24Br2N2O2F(000) = 500
Mr = 496.2Dx = 1.646 Mg m3
Orthorhombic, P21212Cu Kα radiation, λ = 1.54184 Å
Hall symbol: P 2 2abCell parameters from 16248 reflections
a = 5.9645 (2) Åθ = 4.8–66.5°
b = 18.5497 (4) ŵ = 5.32 mm1
c = 9.0494 (2) ÅT = 120 K
V = 1001.22 (5) Å3Prism, colorless
Z = 20.19 × 0.13 × 0.10 mm
Oxford Diffraction Xcalibur diffractometer with an Atlas detector1749 independent reflections
Radiation source: X-ray tube1739 reflections with I > 3σ(I)
mirrorRint = 0.022
Detector resolution: 10.3784 pixels mm-1θmax = 66.8°, θmin = 4.8°
Rotation method data acquisition using ω scansh = −7→6
Absorption correction: analytical (CrysAlis PRO; Oxford Diffraction, 2009)k = −10→10
Tmin = 0.454, Tmax = 0.678l = −21→21
17493 measured reflections
Refinement on F2H atoms treated by a mixture of independent and constrained refinement
R[F2 > 2σ(F2)] = 0.015Weighting scheme based on measured s.u.'s w = 1/[σ2(I) + 0.0016I2]
wR(F2) = 0.049(Δ/σ)max = 0.001
S = 1.21Δρmax = 0.11 e Å3
1749 reflectionsΔρmin = −0.12 e Å3
126 parametersAbsolute structure: Flack (1983), 670 Friedel pairs
1 restraintFlack parameter: 0.008 (20)
45 constraints
Refinement. The refinement was carried out against all reflections. The conventional R-factor is always based on F. The goodness of fit as well as the weighted R-factor are based on F and F2 for refinement carried out on F and F2, respectively. The threshold expression is used only for calculating R-factors etc. and it is not relevant to the choice of reflections for refinement.The program used for refinement, Jana2006, uses the weighting scheme based on the experimental expectations, see _refine_ls_weighting_details, that does not force S to be one. Therefore the values of S are usually larger than the ones from the SHELX program.
xyzUiso*/Ueq
Br10.55638 (3)0.229059 (8)0.146172 (18)0.02610 (7)
O10.99958 (19)0.42005 (6)0.59844 (13)0.0226 (3)
N10.59652 (10)0.44416 (5)0.71146 (11)0.0163 (4)
C10.50.50.61175 (12)0.0154 (6)
C20.5511 (3)0.36959 (8)0.66196 (17)0.0165 (4)
C30.6757 (3)0.35153 (7)0.52184 (17)0.0156 (4)
C40.8947 (3)0.37777 (8)0.49815 (18)0.0174 (4)
C51.0085 (3)0.35992 (9)0.36866 (19)0.0204 (4)
C60.9120 (3)0.31499 (8)0.26478 (18)0.0205 (5)
C70.6975 (3)0.28860 (8)0.29074 (18)0.0180 (4)
C80.5810 (2)0.30615 (8)0.41680 (17)0.0160 (4)
C90.5029 (3)0.45921 (8)0.85825 (17)0.0179 (4)
C100.6319 (3)0.43125 (9)0.99165 (18)0.0268 (5)
C110.5129 (4)0.45880 (10)1.13117 (19)0.0322 (6)
H1a0.3825270.4790080.5533760.0185*
H2a0.393020.3635980.6461780.0198*
H2b0.5935390.3363990.7383870.0198*
H51.1556620.3790870.3514340.0245*
H60.9916270.3022570.1763550.0245*
H80.4334420.2869470.432340.0192*
H90.3624160.4346660.8702960.0214*
H10a0.7824120.4495890.9891850.0322*
H10b0.630820.37950.9911450.0322*
H11a0.59570.4441431.2170410.0386*
H11b0.3677220.436761.1386660.0386*
H1o0.904 (3)0.4361 (12)0.657 (2)0.0272*
U11U22U33U12U13U23
Br10.03375 (13)0.02617 (12)0.01839 (12)−0.00261 (7)−0.00326 (7)−0.00361 (7)
O10.0184 (6)0.0183 (5)0.0312 (7)−0.0015 (4)−0.0002 (5)−0.0041 (5)
N10.0203 (7)0.0104 (6)0.0182 (7)0.0013 (5)0.0010 (5)−0.0010 (5)
C10.0145 (10)0.0119 (9)0.0197 (10)0.0006 (7)00
C20.0189 (7)0.0107 (7)0.0199 (7)−0.0017 (5)0.0040 (7)−0.0010 (6)
C30.0185 (7)0.0095 (6)0.0188 (7)0.0034 (6)0.0013 (6)0.0036 (6)
C40.0176 (7)0.0110 (7)0.0236 (8)0.0019 (5)−0.0012 (6)0.0012 (6)
C50.0174 (7)0.0167 (7)0.0271 (8)0.0016 (6)0.0032 (6)0.0049 (7)
C60.0229 (9)0.0184 (7)0.0201 (8)0.0063 (6)0.0029 (6)0.0046 (6)
C70.0243 (8)0.0134 (6)0.0165 (8)0.0034 (6)−0.0013 (6)0.0005 (6)
C80.0143 (7)0.0119 (7)0.0220 (8)0.0018 (5)−0.0021 (6)0.0023 (6)
C90.0215 (8)0.0153 (8)0.0169 (7)0.0023 (5)0.0009 (6)0.0022 (6)
C100.0437 (10)0.0176 (7)0.0191 (8)0.0094 (6)−0.0006 (8)0.0008 (7)
C110.0521 (12)0.0251 (10)0.0193 (8)0.0110 (8)0.0014 (9)0.0042 (7)
Br1—C71.9080 (16)C5—H50.96
O1—C41.353 (2)C6—C71.390 (2)
O1—H1o0.84 (2)C6—H60.96
N1—C11.4895 (12)C7—C81.375 (2)
N1—C21.4789 (18)C8—H80.96
N1—C91.4677 (18)C9—C9i1.514 (2)
C1—H1a0.96C9—C101.523 (2)
C1—H1ai0.96C9—H90.96
C2—C31.507 (2)C10—C111.536 (3)
C2—H2a0.96C10—H10a0.96
C2—H2b0.96C10—H10b0.96
C3—C41.410 (2)C11—C11i1.536 (3)
C3—C81.390 (2)C11—H11a0.96
C4—C51.394 (2)C11—H11b0.96
C5—C61.382 (2)
C4—O1—H1o108.6 (14)C5—C6—H6120.6356
C1—N1—C2113.34 (9)C7—C6—H6120.636
C1—N1—C9105.60 (9)Br1—C7—C6119.62 (12)
C2—N1—C9112.48 (10)Br1—C7—C8118.88 (12)
N1—C1—N1i105.43 (9)C6—C7—C8121.48 (15)
N1—C1—H1a109.4713C3—C8—C7120.37 (14)
N1—C1—H1ai109.4712C3—C8—H8119.8142
N1i—C1—H1a109.4712C7—C8—H8119.8142
N1i—C1—H1ai109.4713N1—C9—C9i101.48 (12)
H1a—C1—H1ai113.2317N1—C9—C10117.42 (13)
N1—C2—C3111.86 (12)N1—C9—H9110.1556
N1—C2—H2a109.4713C9i—C9—C10110.62 (13)
N1—C2—H2b109.4715C9i—C9—H9117.0073
C3—C2—H2a109.471C10—C9—H9100.9265
C3—C2—H2b109.4709C9—C10—C11107.74 (15)
H2a—C2—H2b106.9725C9—C10—H10a109.471
C2—C3—C4120.52 (13)C9—C10—H10b109.4714
C2—C3—C8120.64 (14)C11—C10—H10a109.4709
C4—C3—C8118.78 (14)C11—C10—H10b109.4716
O1—C4—C3121.76 (14)H10a—C10—H10b111.1472
O1—C4—C5118.47 (13)C10—C11—C11i112.17 (15)
C3—C4—C5119.78 (14)C10—C11—H11a109.4713
C4—C5—C6120.83 (14)C10—C11—H11b109.4711
C4—C5—H5119.5819C11i—C11—H11a109.4712
C6—C5—H5119.5833C11i—C11—H11b109.4713
C5—C6—C7118.73 (15)H11a—C11—H11b106.632
C2—N1—C1—N1i138.00 (9)O1—C4—C5—C6177.87 (15)
C9—N1—C1—N1i14.44 (9)C3—C4—C5—C6−1.9 (2)
C1—N1—C2—C368.53 (14)C4—C5—C6—C70.9 (2)
C9—N1—C2—C3−171.77 (12)C5—C6—C7—Br1177.93 (12)
C1—N1—C9—C10−157.29 (11)C5—C6—C7—C8−0.1 (2)
C1—N1—C9—C9i−36.62 (13)Br1—C7—C8—C3−177.66 (11)
C2—N1—C9—C1078.61 (16)C6—C7—C8—C30.4 (2)
C2—N1—C9—C9i−160.72 (12)N1—C9—C10—C11175.39 (13)
N1—C2—C3—C437.37 (19)C9i—C9—C10—C1159.64 (18)
N1—C2—C3—C8−145.54 (13)N1—C9—C9i—N1i45.12 (14)
C2—C3—C4—O1−0.5 (2)N1—C9—C9i—C10i170.46 (12)
C2—C3—C4—C5179.31 (14)C10—C9—C9i—N1i170.46 (12)
C8—C3—C4—O1−177.62 (14)C10—C9—C9i—C10i−64.21 (18)
C8—C3—C4—C52.2 (2)C9—C10—C11—C11i−55.1 (2)
C2—C3—C8—C7−178.55 (14)C10—C11—C11i—C10i54.8 (2)
C4—C3—C8—C7−1.4 (2)
Cg2 is the centroid of the C3–C8 ring.
D—H···AD—HH···AD···AD—H···A
O1—H1o···N10.833 (19)1.905 (18)2.6506 (13)148.3 (19)
C1—H1a···O1ii0.962.573.3351 (11)137
C8—H8···Cg2iii0.962.853.5407 (16)130
C11—H11b···Cg2iv0.962.863.728 (2)150
Table 1

Hydrogen-bond geometry (Å, °)

Cg2 is the centroid of the C3–C8 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1o⋯N10.833 (19)1.905 (18)2.6506 (13)148.3 (19)
C1—H1a⋯O1i0.962.573.3351 (11)137
C8—H8⋯Cg2ii0.962.853.5407 (16)130
C11—H11bCg2iii0.962.863.728 (2)150

Symmetry codes: (i) ; (ii) ; (iii) .

  1 in total

1.  4,4'-Dichloro-2,2'-[(3aR,7aR/3aS,7aS)-2,3,3a,4,5,6,7,7a-octa-hydro-1H-1,3-benzimidazole-1,3-di-yl)bis-(methyl-ene)]diphenol.

Authors:  Augusto Rivera; Diego Quiroga; Jaime Ríos-Motta; Michal Dušek; Karla Fejfarová
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-09-30
  1 in total
  4 in total

1.  12,12'-[2,2'-Oxybis(ethane-2,1-di-yl)bis-(-oxy)]bis-[(R(p))-4-bromo-[2.2]paracyclo-phane].

Authors:  Bing Hong; Yudao Ma; Wenzeng Duan; Fuyan He; Lei Zhao
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-03-23

2.  4,4'-Difluoro-2,2'-{[(3aRS,7aRS)-2,3,3a,4,5,6,7,7a-octa-hydro-1H-1,3-benzimidazole-1,3-di-yl]bis-(methyl-ene)]}diphenol.

Authors:  Augusto Rivera; Diego Quiroga; Jaime Ríos-Motta; Michal Dušek; Karla Fejfarová
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-05-28

3.  2,2'-[1,3-Diazinane-1,3-diylbis(methyl-ene)]bis-(4-bromo-phenol).

Authors:  Augusto Rivera; Ginna Paola Trujillo; Jaime Ríos-Motta; Karla Fejfarová; Michal Dušek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-01-21

4.  4,4'-Diiodo-2,2'-[(3aR,7aR)-2,3,3a,4,5,6,7,7a-octa-hydro-1H-1,3-benzimidazole-1,3-di-yl)bis-(methyl-ene)]diphenol.

Authors:  Augusto Rivera; Diego Quiroga; Jaime Ríos-Motta; Karla Fejfarová; Michal Dušek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-08-06
  4 in total

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