Literature DB >> 24109417

Bruceolline J: 2-hy-droxy-3,3-dimethyl-2,3-di-hydro-cyclo-penta-[b]indol-1(4H)-one.

Justin M Lopchuk1, Gordon W Gribble, Sean P Millikan, Jerry P Jasinski.   

Abstract

The 12-membered cyclo-penta-[b]indole ring system in the title compound, C13H13NO2, deviates only slightly from planarity (r.m.s. deviation = 0.051 Å). In the crystal, N-H⋯O and O-H⋯O hydrogen bonds link the mol-ecules into sheets parallel to (100). The five-membered cyclopentanone ring is in slightly distorted envelope conformation with the C atom bearing the hydroxy substituent as the flap.

Entities:  

Year:  2013        PMID: 24109417      PMCID: PMC3793830          DOI: 10.1107/S1600536813020527

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


Related literature

For a review of compounds isolated from Brucea sp. plants, see: Liu et al. (2009 ▶). For the first isolation of bruceolline J, see: Chen et al. (2011 ▶). For the DDQ-mediated selective oxidation of indole side chains, see: Oikawa & Yonemitsu (1977 ▶). For examples of the reduction of α-keto esters with sodium borohydride, see Dalla et al. (1999 ▶). For the enanti­oselective reduction of related sterically hindered ketones with β-chloro­diisopinocampheylborane, see: Brown et al. (1986 ▶). For the isolation of related bruceollines, see: Ouyang et al. (1994a ▶,b ▶, 1995 ▶). For the crystal structure of bruceolline D, see: Lopchuk et al. (2013 ▶). For the total synthesis and crystal structure of bruceolline E, see: Jordan et al. (2011 ▶, 2012) ▶. For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C13H13NO2 M = 215.24 Monoclinic, a = 8.2951 (3) Å b = 12.3070 (4) Å c = 10.7340 (4) Å β = 97.207 (3)° V = 1087.15 (7) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 173 K 0.44 × 0.38 × 0.34 mm

Data collection

Agilent Xcalibur (Eos, Gemini) diffractometer Absorption correction: multi-scan (CrysAlis PRO and CrysAlis RED; Agilent, 2012 ▶) T min = 0.782, T max = 1.000 13545 measured reflections 3753 independent reflections 2888 reflections with I > 2σ(I) R int = 0.035

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.134 S = 1.04 3753 reflections 148 parameters H-atom parameters constrained Δρmax = 0.40 e Å−3 Δρmin = −0.25 e Å−3 Data collection: CrysAlis PRO (Agilent, 2012 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SUPERFLIP (Palatinus & Chapuis, 2007 ▶); program(s) used to refine structure: SHELXL2012 (Sheldrick, 2008 ▶); molecular graphics: XP in SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: XP in SHELXTL. Crystal structure: contains datablock(s) I. DOI: 10.1107/S1600536813020527/bt6922sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813020527/bt6922Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813020527/bt6922Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H13NO2F(000) = 456
Mr = 215.24Dx = 1.315 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.7107 Å
a = 8.2951 (3) ÅCell parameters from 3528 reflections
b = 12.3070 (4) Åθ = 3.3–32.9°
c = 10.7340 (4) ŵ = 0.09 mm1
β = 97.207 (3)°T = 173 K
V = 1087.15 (7) Å3Irregular, colourless
Z = 40.44 × 0.38 × 0.34 mm
Agilent Xcalibur (Eos, Gemini) diffractometer3753 independent reflections
Radiation source: Enhance (Mo) X-ray Source2888 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.035
Detector resolution: 16.0416 pixels mm-1θmax = 33.0°, θmin = 3.4°
ω scansh = −12→12
Absorption correction: multi-scan (CrysAlis PRO and CrysAlis RED; Agilent, 2012)k = −17→18
Tmin = 0.782, Tmax = 1.000l = −16→15
13545 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.048H-atom parameters constrained
wR(F2) = 0.134w = 1/[σ2(Fo2) + (0.0662P)2 + 0.2062P] where P = (Fo2 + 2Fc2)/3
S = 1.04(Δ/σ)max < 0.001
3753 reflectionsΔρmax = 0.40 e Å3
148 parametersΔρmin = −0.25 e Å3
0 restraints
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.
xyzUiso*/Ueq
O10.83909 (11)0.55666 (6)0.93513 (8)0.03008 (19)
O21.13253 (11)0.51818 (7)0.82424 (8)0.0297 (2)
H21.15520.49330.89720.045*
N10.76891 (11)0.21451 (7)0.76238 (9)0.0246 (2)
H10.79450.16020.71520.030*
C10.83979 (13)0.31258 (8)0.77083 (10)0.0221 (2)
C20.98429 (13)0.35821 (9)0.71904 (10)0.0233 (2)
C30.98044 (14)0.47719 (8)0.77069 (10)0.0242 (2)
H30.93980.52540.69860.029*
C40.85291 (13)0.47926 (8)0.86414 (9)0.0230 (2)
C50.76844 (13)0.37877 (9)0.85201 (10)0.0233 (2)
C60.64335 (13)0.31588 (9)0.90039 (10)0.0239 (2)
C70.53565 (14)0.33227 (11)0.98851 (11)0.0301 (2)
H70.52980.40061.02900.036*
C80.43771 (15)0.24690 (12)1.01561 (13)0.0365 (3)
H80.36500.25671.07640.044*
C90.44313 (15)0.14681 (12)0.95594 (14)0.0383 (3)
H90.37390.08990.97680.046*
C100.54722 (15)0.12837 (10)0.86689 (13)0.0333 (3)
H100.54980.06040.82520.040*
C110.64742 (13)0.21344 (9)0.84131 (10)0.0249 (2)
C121.13707 (14)0.29740 (10)0.77445 (12)0.0309 (2)
H12A1.23320.33430.75030.046*
H12B1.13320.22280.74240.046*
H12C1.14290.29610.86620.046*
C130.96704 (18)0.35481 (12)0.57537 (11)0.0364 (3)
H13A0.86640.39170.54110.055*
H13B0.96360.27900.54710.055*
H13C1.06010.39160.54600.055*
U11U22U33U12U13U23
O10.0424 (5)0.0199 (4)0.0285 (4)0.0036 (3)0.0066 (3)−0.0047 (3)
O20.0386 (5)0.0241 (4)0.0273 (4)−0.0099 (3)0.0075 (3)0.0006 (3)
N10.0267 (4)0.0190 (4)0.0284 (4)0.0002 (3)0.0046 (3)−0.0042 (3)
C10.0248 (5)0.0199 (4)0.0216 (4)0.0009 (4)0.0033 (3)−0.0015 (4)
C20.0279 (5)0.0229 (5)0.0197 (4)−0.0015 (4)0.0056 (4)−0.0019 (4)
C30.0332 (6)0.0189 (4)0.0210 (5)−0.0019 (4)0.0051 (4)0.0009 (4)
C40.0303 (5)0.0184 (4)0.0201 (4)0.0036 (4)0.0023 (4)0.0001 (3)
C50.0266 (5)0.0210 (5)0.0228 (5)0.0021 (4)0.0056 (4)−0.0008 (4)
C60.0233 (5)0.0238 (5)0.0245 (5)0.0022 (4)0.0027 (4)0.0020 (4)
C70.0265 (5)0.0358 (6)0.0289 (5)0.0046 (4)0.0064 (4)0.0019 (5)
C80.0271 (6)0.0474 (7)0.0364 (6)0.0022 (5)0.0090 (5)0.0099 (6)
C90.0282 (6)0.0386 (7)0.0485 (8)−0.0043 (5)0.0068 (5)0.0136 (6)
C100.0293 (6)0.0262 (6)0.0436 (7)−0.0029 (4)0.0022 (5)0.0052 (5)
C110.0232 (5)0.0227 (5)0.0283 (5)0.0013 (4)0.0017 (4)0.0023 (4)
C120.0276 (6)0.0250 (5)0.0405 (6)0.0014 (4)0.0062 (4)−0.0033 (5)
C130.0477 (7)0.0408 (7)0.0217 (5)−0.0070 (6)0.0080 (5)−0.0050 (5)
O1—C41.2341 (13)C6—C111.4136 (15)
O2—H20.8400C7—H70.9500
O2—C31.4122 (14)C7—C81.3812 (19)
N1—H10.8800C8—H80.9500
N1—C11.3406 (13)C8—C91.392 (2)
N1—C111.3956 (14)C9—H90.9500
C1—C21.4928 (15)C9—C101.3849 (19)
C1—C51.3793 (14)C10—H100.9500
C2—C31.5675 (15)C10—C111.3854 (16)
C2—C121.5267 (16)C12—H12A0.9800
C2—C131.5313 (15)C12—H12B0.9800
C3—H31.0000C12—H12C0.9800
C3—C41.5467 (15)C13—H13A0.9800
C4—C51.4194 (15)C13—H13B0.9800
C5—C61.4425 (15)C13—H13C0.9800
C6—C71.3948 (15)
C3—O2—H2109.5C6—C7—H7120.8
C1—N1—H1125.9C8—C7—C6118.46 (12)
C1—N1—C11108.15 (9)C8—C7—H7120.8
C11—N1—H1125.9C7—C8—H8119.2
N1—C1—C2132.79 (9)C7—C8—C9121.50 (12)
N1—C1—C5110.80 (10)C9—C8—H8119.2
C5—C1—C2116.19 (9)C8—C9—H9119.3
C1—C2—C399.60 (8)C10—C9—C8121.45 (11)
C1—C2—C12109.66 (9)C10—C9—H9119.3
C1—C2—C13112.76 (9)C9—C10—H10121.5
C12—C2—C3111.89 (9)C9—C10—C11117.03 (12)
C12—C2—C13110.31 (10)C11—C10—H10121.5
C13—C2—C3112.23 (9)N1—C11—C6108.88 (9)
O2—C3—C2114.89 (9)C10—C11—N1128.63 (11)
O2—C3—H3107.5C10—C11—C6122.44 (11)
O2—C3—C4112.27 (8)C2—C12—H12A109.5
C2—C3—H3107.5C2—C12—H12B109.5
C4—C3—C2106.90 (8)C2—C12—H12C109.5
C4—C3—H3107.5H12A—C12—H12B109.5
O1—C4—C3122.49 (10)H12A—C12—H12C109.5
O1—C4—C5130.25 (10)H12B—C12—H12C109.5
C5—C4—C3107.22 (8)C2—C13—H13A109.5
C1—C5—C4109.06 (9)C2—C13—H13B109.5
C1—C5—C6107.19 (10)C2—C13—H13C109.5
C4—C5—C6143.48 (10)H13A—C13—H13B109.5
C7—C6—C5135.84 (11)H13A—C13—H13C109.5
C7—C6—C11119.12 (10)H13B—C13—H13C109.5
C11—C6—C5104.97 (9)
O1—C4—C5—C1−172.60 (11)C4—C5—C6—C11−173.69 (15)
O1—C4—C5—C60.2 (2)C5—C1—C2—C3−7.02 (12)
O2—C3—C4—O141.66 (14)C5—C1—C2—C12110.49 (11)
O2—C3—C4—C5−136.56 (9)C5—C1—C2—C13−126.17 (11)
N1—C1—C2—C3178.95 (11)C5—C6—C7—C8−175.79 (12)
N1—C1—C2—C12−63.53 (15)C5—C6—C11—N10.33 (12)
N1—C1—C2—C1359.81 (16)C5—C6—C11—C10177.91 (11)
N1—C1—C5—C4176.56 (9)C6—C7—C8—C9−0.91 (19)
N1—C1—C5—C61.03 (13)C7—C6—C11—N1−177.07 (10)
C1—N1—C11—C60.28 (12)C7—C6—C11—C100.51 (17)
C1—N1—C11—C10−177.10 (12)C7—C8—C9—C100.1 (2)
C1—C2—C3—O2134.83 (9)C8—C9—C10—C110.97 (19)
C1—C2—C3—C49.56 (10)C9—C10—C11—N1175.78 (11)
C1—C5—C6—C7175.93 (13)C9—C10—C11—C6−1.28 (18)
C1—C5—C6—C11−0.81 (12)C11—N1—C1—C2173.45 (11)
C2—C1—C5—C41.24 (13)C11—N1—C1—C5−0.82 (12)
C2—C1—C5—C6−174.29 (9)C11—C6—C7—C80.61 (17)
C2—C3—C4—O1168.51 (10)C12—C2—C3—O219.00 (12)
C2—C3—C4—C5−9.72 (11)C12—C2—C3—C4−106.28 (10)
C3—C4—C5—C15.44 (12)C13—C2—C3—O2−105.63 (11)
C3—C4—C5—C6178.25 (14)C13—C2—C3—C4129.09 (10)
C4—C5—C6—C73.0 (3)
D—H···AD—HH···AD···AD—H···A
O2—H2···O1i0.841.902.7245 (12)168
N1—H1···O2ii0.881.912.7500 (12)158
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O2—H2⋯O1i 0.841.902.7245 (12)168
N1—H1⋯O2ii 0.881.912.7500 (12)158

Symmetry codes: (i) ; (ii) .

  6 in total

1.  Indole alkaloids and quassinoids from the stems of Brucea mollis.

Authors:  Hui Chen; Jian Bai; Zhen-Feng Fang; Shi-Shan Yu; Shuang-Gang Ma; Song Xu; Yong Li; Jing Qu; Jin-Hong Ren; Li Li; Yi-Kang Si; Xiao-Guang Chen
Journal:  J Nat Prod       Date:  2011-11-09       Impact factor: 4.050

2.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

Review 3.  Chemical constituents of plants from the genus Brucea.

Authors:  Jian-Hua Liu; Hui-Zi Jin; Wei-Dong Zhang; Shi-Kai Yan; Yun-Heng Shen
Journal:  Chem Biodivers       Date:  2009-01       Impact factor: 2.408

4.  Canthin-6-one alkaloids from Brucea mollis var. tonkinensis.

Authors:  Y Ouyang; K Koike; T Ohmoto
Journal:  Phytochemistry       Date:  1994-08       Impact factor: 4.072

5.  3,3-Dimethyl-1,2,3,4-tetra-hydro-cyclo-penta-[b]indole-1,2-dione (bruceolline E).

Authors:  Jason A Jordon; Jeanese C Badenock; Gordon W Gribble; Jerry P Jasinski; James A Golen
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-01-11

6.  Bruceolline D: 3,3-dimethyl-1H,4H-cyclo-penta-[b]indol-2(3H)-one.

Authors:  Justin M Lopchuk; Gordon W Gribble; Jerry P Jasinski
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2013-06-08
  6 in total

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