Literature DB >> 22259435

(2R)-8-Benzyl-2-[(S)-hy-droxy(phen-yl)meth-yl]-8-aza-bicyclo-[3.2.1]octan-3-one.

Krzysztof Brzezinski, Ryszard Lazny, Michal Sienkiewicz, Sławomir Wojtulewski, Zbigniew Dauter.   

Abstract

The crystal of the title compound, C(21)H(23)NO(2), was chosen from a conglomerate formed by a racemic mixture. An intra-molecular hydrogen bond is formed between hy-droxy group and heterocyclic N atom of the aza-bicyclo-[3.2.1]octan-3-one system. The crystal structure is stabilized by C-H⋯O inter-actions between aliphatic C-H groups and the carbonyl O atom. For the title chiral crystal, the highly redundant and accurate diffraction data set collected with low energy copper radiation gave a Flack parameter of 0.12 (18) for anomalous scattering effects originating from O atoms.

Entities:  

Year:  2011        PMID: 22259435      PMCID: PMC3254493          DOI: 10.1107/S1600536811053190

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


Related literature

For recent background literature on the chemistry of related tropane-derived aldols and their applications, including stereoselective syntheses of bioactive alkaloids, see: Lazny et al. (2011 ▶); Sienkiewicz et al. (2009 ▶) and references cited therein. For stereoselective syntheses of related nortropinone aldols, see: Lazny et al. (2001 ▶); Lazny & Nodzewska (2003 ▶). For a representative review of the biological activity of tropane derivatives, see: Singh (2000 ▶).

Experimental

Crystal data

C21H23NO2 M = 321.40 Orthorhombic, a = 5.9354 (1) Å b = 13.3091 (2) Å c = 22.1511 (3) Å V = 1749.82 (5) Å3 Z = 4 Cu Kα radiation μ = 0.61 mm−1 T = 100 K 0.65 × 0.25 × 0.19 mm

Data collection

Oxford Diffraction SuperNova Dual diffractometer Absorption correction: analytical (CrysAlis PRO; Agilent, 2011 ▶) T min = 0.75, T max = 0.89 32829 measured reflections 3323 independent reflections 3276 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.027 wR(F 2) = 0.070 S = 1.18 3323 reflections 218 parameters H-atom parameters constrained Δρmax = 0.16 e Å−3 Δρmin = −0.16 e Å−3 Absolute structure: Flack (1983 ▶), 1257 Friedel pairs Flack parameter: 0.12 (18) Data collection: CrysAlis PRO (Agilent, 2011 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXD (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and pyMOL (DeLano, 2002 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811053190/gk2429sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811053190/gk2429Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811053190/gk2429Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C21H23NO2F(000) = 688
Mr = 321.40Dx = 1.220 Mg m3
Orthorhombic, P212121Cu Kα radiation, λ = 1.54180 Å
Hall symbol: P 2ac 2abCell parameters from 23874 reflections
a = 5.9354 (1) Åθ = 3.3–73.6°
b = 13.3091 (2) ŵ = 0.61 mm1
c = 22.1511 (3) ÅT = 100 K
V = 1749.82 (5) Å3Needle, colourless
Z = 40.65 × 0.25 × 0.19 mm
Oxford Diffraction SuperNova Dual diffractometer3323 independent reflections
Radiation source: SuperNova (Cu) X-ray Source3276 reflections with I > 2σ(I)
mirrorRint = 0.026
Detector resolution: 10.4052 pixels mm-1θmax = 73.6°, θmin = 3.9°
ω scansh = −7→6
Absorption correction: analytical (CrysAlis PRO; Agilent, 2011)k = 0→16
Tmin = 0.75, Tmax = 0.89l = 0→27
32829 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.027H-atom parameters constrained
wR(F2) = 0.070w = 1/[σ2(Fo2) + (0.0283P)2 + 0.4297P] where P = (Fo2 + 2Fc2)/3
S = 1.18(Δ/σ)max < 0.001
3323 reflectionsΔρmax = 0.16 e Å3
218 parametersΔρmin = −0.16 e Å3
0 restraintsAbsolute structure: Flack (1983), 1257 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: 0.12 (18)
Geometry. All e.s.d.'s 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.
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 > 2σ(F2) is used only for calculating R-factors 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.
xyzUiso*/Ueq
C10.8760 (2)0.63105 (8)0.16890 (5)0.0158 (2)
H10.91720.66560.13040.019*
C20.8530 (2)0.51680 (8)0.15913 (5)0.0153 (2)
H21.00310.49030.14620.018*
C30.7921 (2)0.46720 (9)0.21973 (5)0.0169 (3)
O30.88275 (17)0.38983 (7)0.23623 (4)0.0256 (2)
C40.6185 (2)0.52123 (8)0.25898 (5)0.0177 (3)
H4A0.62930.49670.30110.021*
H4B0.46490.50660.24390.021*
C50.6612 (2)0.63510 (8)0.25734 (5)0.0164 (2)
H50.54760.67190.28230.020*
C60.9079 (2)0.65823 (10)0.27939 (6)0.0202 (3)
H6A0.96030.60670.30840.024*
H6B0.91660.72520.29870.024*
C71.0516 (2)0.65523 (9)0.21957 (6)0.0204 (3)
H7A1.12530.72080.21210.025*
H7B1.16860.60240.22180.025*
N80.65350 (19)0.66906 (7)0.19242 (4)0.0150 (2)
O90.45290 (16)0.52672 (6)0.12196 (4)0.0204 (2)
H90.46140.58080.14140.031*
C90.6768 (2)0.49154 (9)0.10786 (5)0.0165 (3)
H9C0.72690.52630.07010.020*
C100.6686 (2)0.38004 (9)0.09495 (5)0.0166 (3)
C110.8557 (3)0.33441 (10)0.06662 (5)0.0210 (3)
H110.98140.37420.05510.025*
C120.8568 (3)0.23166 (10)0.05557 (6)0.0238 (3)
H120.98330.20090.03690.029*
C130.6694 (3)0.17393 (9)0.07224 (6)0.0241 (3)
H130.66990.10350.06520.029*
C140.4813 (3)0.21910 (10)0.09918 (6)0.0226 (3)
H140.35370.17940.10930.027*
C150.4803 (2)0.32179 (9)0.11116 (5)0.0196 (3)
H150.35390.35220.13010.023*
C160.6383 (2)0.78046 (8)0.19028 (5)0.0171 (3)
H16A0.76390.80980.21380.020*
H16B0.49520.80220.20910.020*
C170.6486 (2)0.81981 (8)0.12530 (6)0.0176 (3)
C180.4719 (3)0.80051 (9)0.08410 (6)0.0212 (3)
H180.34490.76260.09690.025*
C190.4813 (3)0.83679 (10)0.02427 (6)0.0252 (3)
H190.36140.8234−0.00300.030*
C200.6690 (3)0.89285 (10)0.00518 (6)0.0262 (3)
H200.67630.9177−0.03500.031*
C210.8457 (3)0.91194 (9)0.04567 (6)0.0265 (3)
H210.97290.94940.03260.032*
C220.8362 (3)0.87590 (9)0.10572 (6)0.0227 (3)
H220.95640.88950.13280.027*
U11U22U33U12U13U23
C10.0150 (6)0.0132 (5)0.0194 (6)0.0009 (5)0.0025 (5)−0.0001 (4)
C20.0143 (6)0.0129 (5)0.0186 (5)0.0017 (5)−0.0010 (5)−0.0008 (4)
C30.0174 (7)0.0140 (5)0.0192 (6)−0.0017 (5)−0.0041 (5)−0.0006 (5)
O30.0324 (6)0.0175 (4)0.0269 (5)0.0076 (4)−0.0038 (4)0.0032 (4)
C40.0197 (7)0.0154 (5)0.0178 (5)0.0003 (5)0.0000 (5)0.0026 (4)
C50.0180 (7)0.0157 (5)0.0156 (5)0.0014 (5)0.0006 (5)−0.0002 (4)
C60.0210 (8)0.0187 (6)0.0207 (6)0.0000 (5)−0.0046 (5)−0.0004 (5)
C70.0147 (7)0.0183 (6)0.0283 (7)0.0003 (5)−0.0008 (5)−0.0043 (5)
N80.0169 (6)0.0120 (4)0.0160 (5)0.0020 (4)0.0010 (4)0.0004 (4)
O90.0178 (5)0.0165 (4)0.0269 (5)0.0037 (3)−0.0038 (4)−0.0048 (4)
C90.0179 (7)0.0157 (5)0.0159 (5)0.0005 (5)0.0003 (5)0.0004 (4)
C100.0207 (7)0.0166 (5)0.0126 (5)0.0006 (5)−0.0028 (5)−0.0009 (4)
C110.0220 (7)0.0223 (6)0.0187 (6)−0.0001 (5)0.0002 (5)−0.0029 (5)
C120.0260 (8)0.0246 (6)0.0209 (6)0.0072 (6)−0.0024 (6)−0.0065 (5)
C130.0371 (9)0.0155 (6)0.0196 (6)0.0019 (6)−0.0052 (6)−0.0030 (5)
C140.0309 (8)0.0194 (6)0.0175 (6)−0.0055 (6)−0.0018 (6)0.0006 (5)
C150.0228 (7)0.0197 (6)0.0162 (5)−0.0005 (5)0.0008 (5)−0.0012 (5)
C160.0188 (7)0.0118 (5)0.0206 (6)0.0014 (5)−0.0005 (5)−0.0013 (4)
C170.0194 (7)0.0110 (5)0.0224 (6)0.0034 (5)0.0025 (6)0.0002 (4)
C180.0228 (8)0.0171 (6)0.0238 (6)0.0003 (5)0.0003 (5)0.0034 (5)
C190.0302 (8)0.0218 (6)0.0235 (6)0.0036 (6)−0.0033 (6)0.0021 (5)
C200.0369 (9)0.0192 (6)0.0226 (6)0.0066 (6)0.0074 (6)0.0049 (5)
C210.0261 (8)0.0187 (6)0.0347 (7)0.0010 (6)0.0113 (6)0.0046 (5)
C220.0226 (8)0.0153 (5)0.0303 (7)0.0009 (5)0.0020 (6)0.0007 (5)
C1—N81.5071 (16)C10—C151.4068 (19)
C1—C21.5419 (15)C10—C111.4127 (19)
C1—C71.5648 (18)C11—C121.3893 (18)
C1—H11.0000C11—H110.9500
C2—C31.5390 (16)C12—C131.401 (2)
C2—C91.5801 (16)C12—H120.9500
C2—H21.0000C13—C141.401 (2)
C3—O31.2180 (15)C13—H130.9500
C3—C41.5279 (18)C14—C151.3923 (17)
C4—C51.5368 (15)C14—H140.9500
C4—H4A0.9900C15—H150.9500
C4—H4B0.9900C16—C171.5329 (16)
C5—N81.5082 (14)C16—H16A0.9900
C5—C61.5742 (18)C16—H16B0.9900
C5—H51.0000C17—C221.4091 (19)
C6—C71.5762 (18)C17—C181.4140 (19)
C6—H6A0.9900C18—C191.4116 (18)
C6—H6B0.9900C18—H180.9500
C7—H7A0.9900C19—C201.406 (2)
C7—H7B0.9900C19—H190.9500
N8—C161.4861 (14)C20—C211.403 (2)
O9—C91.4430 (16)C20—H200.9500
O9—H90.8400C21—C221.4151 (19)
C9—C101.5121 (16)C21—H210.9500
C9—H9C1.0000C22—H220.9500
N8—C1—C2107.58 (10)O9—C9—H9C107.8
N8—C1—C7105.46 (9)C10—C9—H9C107.8
C2—C1—C7111.25 (10)C2—C9—H9C107.8
N8—C1—H1110.8C15—C10—C11120.07 (11)
C2—C1—H1110.8C15—C10—C9121.20 (12)
C7—C1—H1110.8C11—C10—C9118.73 (12)
C3—C2—C1108.74 (9)C12—C11—C10120.33 (13)
C3—C2—C9112.33 (10)C12—C11—H11119.8
C1—C2—C9111.67 (9)C10—C11—H11119.8
C3—C2—H2108.0C11—C12—C13119.32 (13)
C1—C2—H2108.0C11—C12—H12120.3
C9—C2—H2108.0C13—C12—H12120.3
O3—C3—C4121.66 (11)C12—C13—C14120.62 (11)
O3—C3—C2121.38 (12)C12—C13—H13119.7
C4—C3—C2116.94 (10)C14—C13—H13119.7
C3—C4—C5109.85 (10)C15—C14—C13120.37 (13)
C3—C4—H4A109.7C15—C14—H14119.8
C5—C4—H4A109.7C13—C14—H14119.8
C3—C4—H4B109.7C14—C15—C10119.27 (13)
C5—C4—H4B109.7C14—C15—H15120.4
H4A—C4—H4B108.2C10—C15—H15120.4
N8—C5—C4108.25 (9)N8—C16—C17111.62 (9)
N8—C5—C6105.38 (10)N8—C16—H16A109.3
C4—C5—C6109.80 (10)C17—C16—H16A109.3
N8—C5—H5111.1N8—C16—H16B109.3
C4—C5—H5111.1C17—C16—H16B109.3
C6—C5—H5111.1H16A—C16—H16B108.0
C5—C6—C7103.74 (10)C22—C17—C18118.94 (12)
C5—C6—H6A111.0C22—C17—C16120.10 (12)
C7—C6—H6A111.0C18—C17—C16120.96 (12)
C5—C6—H6B111.0C19—C18—C17120.96 (13)
C7—C6—H6B111.0C19—C18—H18119.5
H6A—C6—H6B109.0C17—C18—H18119.5
C1—C7—C6104.36 (10)C20—C19—C18119.68 (13)
C1—C7—H7A110.9C20—C19—H19120.2
C6—C7—H7A110.9C18—C19—H19120.2
C1—C7—H7B110.9C21—C20—C19119.74 (12)
C6—C7—H7B110.9C21—C20—H20120.1
H7A—C7—H7B108.9C19—C20—H20120.1
C16—N8—C1112.14 (10)C20—C21—C22120.66 (13)
C16—N8—C5109.34 (9)C20—C21—H21119.7
C1—N8—C5101.69 (9)C22—C21—H21119.7
C9—O9—H9109.5C17—C22—C21120.02 (13)
O9—C9—C10109.26 (11)C17—C22—H22120.0
O9—C9—C2112.65 (9)C21—C22—H22120.0
C10—C9—C2111.47 (10)
D—H···AD—HH···AD···AD—H···A
O9—H9···N80.841.992.7280 (13)146
C6—H6B···O3i0.992.613.3414 (15)131
C7—H7A···O3i0.992.523.2954 (15)135
C16—H16A···O3i0.992.603.5846 (16)173
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O9—H9⋯N80.841.992.7280 (13)146
C6—H6B⋯O3i0.992.613.3414 (15)131
C7—H7A⋯O3i0.992.523.2954 (15)135
C16—H16A⋯O3i0.992.603.5846 (16)173

Symmetry code: (i) .

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1.  (1RS,2SR,5SR)-9-Benzyl-2-[(1RS)-1-hy-droxy-benz-yl]-9-aza-bicyclo-[3.3.1]nonan-3-one from synchrotron data.

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