Literature DB >> 22719645

2-Chloro-7,8,9,10-tetra-hydro-cyclo-hepta-[b]indol-6(5H)-one.

R Archana, E Yamuna, K J Rajendra Prasad, A Thiruvalluvar, R J Butcher, Sushil K Gupta, Sema Oztürk Yildirim.   

Abstract

In the title mol-ecule, C(13)H(12)ClNO, the dihedral angle between the benzene and pyrrole rings is 1.38 (9)°. The cyclo-heptene ring adopts a distorted twist chair and sofa conformation. Inter-molecular N-H⋯O hydrogen bonds form an R(2) (2)(10) loop in the crystal packing. Further, weak C-H⋯O and C-H⋯π (involving the benzene ring) inter-actions are found in the crystal structure.

Entities:  

Year:  2012        PMID: 22719645      PMCID: PMC3379447          DOI: 10.1107/S1600536812022945

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


Related literature

For the biological activity of indole derivatives, see: Gribble (2000 ▶); Knölker & Reddy (2002 ▶); Kawasaki & Higuchi (2005 ▶); Bennasar et al. (1993 ▶); Hong et al. (2006 ▶); Lacoume et al. (1972 ▶); Joseph et al. (1998 ▶, 2000 ▶). For related crystallographic studies of cyclo­hept[b]indoles, see: Archana et al. (2010 ▶, 2011 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C13H12ClNO M = 233.69 Monoclinic, a = 11.6354 (4) Å b = 6.3798 (2) Å c = 14.4513 (5) Å β = 92.767 (3)° V = 1071.49 (6) Å3 Z = 4 Mo Kα radiation μ = 0.33 mm−1 T = 150 K 0.40 × 0.30 × 0.30 mm

Data collection

Agilent Xcalibur Ruby Gemini diffractometer Absorption correction: multi-scan CrysAlis PRO (Agilent, 2011 ▶) T min = 0.879, T max = 0.907 4977 measured reflections 2274 independent reflections 1836 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.039 wR(F 2) = 0.096 S = 1.04 2274 reflections 149 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.27 e Å−3 Δρmin = −0.26 e Å−3 Data collection: CrysAlis PRO (Agilent, 2011 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: PLATON. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812022945/tk5099sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812022945/tk5099Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812022945/tk5099Isup3.cdx Supplementary material file. DOI: 10.1107/S1600536812022945/tk5099Isup4.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H12ClNOF(000) = 488
Mr = 233.69Dx = 1.449 Mg m3
Monoclinic, P21/nMelting point: 389 K
Hall symbol: -P 2ynMo Kα radiation, λ = 0.71073 Å
a = 11.6354 (4) ÅCell parameters from 2495 reflections
b = 6.3798 (2) Åθ = 3.2–28.4°
c = 14.4513 (5) ŵ = 0.33 mm1
β = 92.767 (3)°T = 150 K
V = 1071.49 (6) Å3Block, colourless
Z = 40.40 × 0.30 × 0.30 mm
Agilent Xcalibur Ruby Gemini diffractometer2274 independent reflections
Radiation source: Enhance (Mo) X-ray Source1836 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.026
Detector resolution: 10.5081 pixels mm-1θmax = 28.4°, θmin = 3.5°
ω scansh = −14→15
Absorption correction: multi-scan CrysAlis PRO (Agilent, 2011)k = −8→7
Tmin = 0.879, Tmax = 0.907l = −12→19
4977 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.039Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.096H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.0373P)2 + 0.4689P] where P = (Fo2 + 2Fc2)/3
2274 reflections(Δ/σ)max = 0.001
149 parametersΔρmax = 0.27 e Å3
0 restraintsΔρmin = −0.26 e Å3
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
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(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*/Ueq
Cl20.59361 (4)−0.24239 (8)0.08648 (3)0.0357 (2)
O60.57812 (10)0.3697 (2)0.60006 (8)0.0280 (4)
N50.56976 (12)0.2648 (3)0.42004 (10)0.0225 (5)
C10.63668 (14)−0.1524 (3)0.26774 (12)0.0244 (5)
C20.58717 (14)−0.0838 (3)0.18511 (12)0.0262 (5)
C30.53084 (14)0.1108 (3)0.17503 (12)0.0275 (6)
C40.52189 (15)0.2416 (3)0.24985 (12)0.0256 (5)
C4A0.56937 (14)0.1720 (3)0.33521 (12)0.0223 (5)
C5A0.62720 (14)0.1378 (3)0.48468 (11)0.0211 (5)
C60.63461 (14)0.2152 (3)0.58029 (12)0.0229 (5)
C70.71201 (15)0.1148 (3)0.65476 (12)0.0273 (5)
C80.80230 (15)−0.0440 (3)0.62766 (12)0.0258 (5)
C90.75353 (15)−0.2421 (3)0.58213 (12)0.0254 (5)
C100.73457 (16)−0.2246 (3)0.47726 (12)0.0254 (5)
C10A0.66477 (13)−0.0419 (3)0.44109 (12)0.0214 (5)
C10B0.62718 (14)−0.0218 (3)0.34549 (12)0.0220 (5)
H10.67583−0.282930.272280.0293*
H30.498820.151970.116090.0330*
H40.484920.373980.243880.0307*
H50.5389 (17)0.380 (3)0.4311 (14)0.031 (6)*
H7A0.661920.044810.698800.0328*
H7B0.752700.229110.689160.0328*
H8A0.854310.024200.584550.0309*
H8B0.84908−0.084110.683930.0309*
H9A0.67922−0.275580.609290.0305*
H9B0.80688−0.359800.596470.0305*
H10A0.81089−0.218210.449920.0305*
H10B0.69653−0.354770.454480.0305*
U11U22U33U12U13U23
Cl20.0376 (3)0.0460 (3)0.0233 (2)0.0078 (2)0.0001 (2)−0.0094 (2)
O60.0322 (7)0.0244 (7)0.0275 (7)0.0012 (5)0.0032 (5)−0.0036 (6)
N50.0242 (8)0.0205 (8)0.0229 (8)0.0027 (7)0.0009 (6)−0.0004 (7)
C10.0213 (8)0.0259 (9)0.0261 (9)0.0005 (8)0.0008 (7)−0.0003 (8)
C20.0241 (9)0.0336 (10)0.0209 (9)−0.0007 (8)0.0026 (7)−0.0058 (8)
C30.0219 (9)0.0382 (11)0.0222 (9)0.0016 (8)0.0002 (7)0.0042 (8)
C40.0231 (8)0.0269 (10)0.0267 (9)0.0039 (8)0.0013 (7)0.0035 (8)
C4A0.0182 (8)0.0245 (9)0.0242 (9)−0.0027 (7)0.0016 (7)−0.0005 (8)
C5A0.0187 (8)0.0209 (9)0.0235 (8)−0.0033 (7)0.0003 (6)0.0007 (7)
C60.0224 (8)0.0220 (9)0.0245 (9)−0.0069 (7)0.0031 (7)−0.0008 (7)
C70.0322 (9)0.0287 (10)0.0208 (9)−0.0034 (8)−0.0011 (7)0.0004 (8)
C80.0255 (9)0.0280 (10)0.0234 (9)−0.0028 (8)−0.0037 (7)0.0025 (8)
C90.0259 (9)0.0229 (9)0.0269 (9)0.0003 (7)−0.0039 (8)0.0035 (8)
C100.0272 (9)0.0222 (9)0.0265 (9)0.0021 (7)−0.0023 (7)−0.0013 (8)
C10A0.0175 (8)0.0236 (9)0.0230 (9)−0.0036 (7)0.0005 (6)−0.0005 (7)
C10B0.0177 (8)0.0244 (9)0.0238 (8)−0.0024 (7)0.0009 (7)0.0002 (8)
Cl2—C21.7525 (19)C8—C91.522 (3)
O6—C61.226 (2)C9—C101.525 (2)
N5—C4A1.361 (2)C10—C10A1.500 (3)
N5—C5A1.384 (2)C10A—C10B1.435 (2)
N5—H50.837 (19)C1—H10.9500
C1—C10B1.407 (3)C3—H30.9500
C1—C21.372 (2)C4—H40.9500
C2—C31.408 (3)C7—H7A0.9900
C3—C41.374 (3)C7—H7B0.9900
C4—C4A1.399 (2)C8—H8A0.9900
C4A—C10B1.412 (3)C8—H8B0.9900
C5A—C61.466 (2)C9—H9A0.9900
C5A—C10A1.389 (3)C9—H9B0.9900
C6—C71.512 (2)C10—H10A0.9900
C7—C81.524 (3)C10—H10B0.9900
C4A—N5—C5A109.50 (16)C1—C10B—C10A133.14 (17)
C4A—N5—H5124.8 (14)C2—C1—H1121.00
C5A—N5—H5125.7 (14)C10B—C1—H1121.00
C2—C1—C10B117.39 (17)C2—C3—H3120.00
Cl2—C2—C3117.57 (13)C4—C3—H3120.00
Cl2—C2—C1119.41 (14)C3—C4—H4121.00
C1—C2—C3123.02 (17)C4A—C4—H4121.00
C2—C3—C4120.45 (16)C6—C7—H7A107.00
C3—C4—C4A117.35 (17)C6—C7—H7B107.00
N5—C4A—C4129.78 (18)C8—C7—H7A107.00
N5—C4A—C10B107.77 (15)C8—C7—H7B107.00
C4—C4A—C10B122.44 (17)H7A—C7—H7B107.00
N5—C5A—C6116.33 (16)C7—C8—H8A109.00
C6—C5A—C10A134.44 (16)C7—C8—H8B109.00
N5—C5A—C10A109.23 (15)C9—C8—H8A109.00
O6—C6—C7118.84 (16)C9—C8—H8B109.00
C5A—C6—C7122.28 (16)H8A—C8—H8B108.00
O6—C6—C5A118.86 (16)C8—C9—H9A109.00
C6—C7—C8119.54 (15)C8—C9—H9B109.00
C7—C8—C9114.57 (15)C10—C9—H9A109.00
C8—C9—C10113.70 (15)C10—C9—H9B109.00
C9—C10—C10A116.94 (15)H9A—C9—H9B108.00
C5A—C10A—C10B105.96 (15)C9—C10—H10A108.00
C10—C10A—C10B122.67 (16)C9—C10—H10B108.00
C5A—C10A—C10131.32 (16)C10A—C10—H10A108.00
C4A—C10B—C10A107.53 (16)C10A—C10—H10B108.00
C1—C10B—C4A119.33 (16)H10A—C10—H10B107.00
C5A—N5—C4A—C4−180.00 (18)N5—C5A—C6—C7−168.77 (16)
C5A—N5—C4A—C10B0.65 (19)C10A—C5A—C6—O6−169.76 (18)
C4A—N5—C5A—C6−179.61 (15)C10A—C5A—C6—C712.0 (3)
C4A—N5—C5A—C10A−0.2 (2)N5—C5A—C10A—C10177.14 (17)
C10B—C1—C2—Cl2−178.65 (13)N5—C5A—C10A—C10B−0.37 (19)
C10B—C1—C2—C31.6 (3)C6—C5A—C10A—C10−3.6 (3)
C2—C1—C10B—C4A−0.8 (2)C6—C5A—C10A—C10B178.93 (18)
C2—C1—C10B—C10A178.53 (18)O6—C6—C7—C8−166.26 (16)
Cl2—C2—C3—C4179.40 (14)C5A—C6—C7—C812.0 (3)
C1—C2—C3—C4−0.8 (3)C6—C7—C8—C9−63.1 (2)
C2—C3—C4—C4A−0.8 (3)C7—C8—C9—C1088.01 (18)
C3—C4—C4A—N5−177.70 (17)C8—C9—C10—C10A−52.9 (2)
C3—C4—C4A—C10B1.6 (3)C9—C10—C10A—C5A11.6 (3)
N5—C4A—C10B—C1178.59 (15)C9—C10—C10A—C10B−171.28 (16)
N5—C4A—C10B—C10A−0.87 (19)C5A—C10A—C10B—C1−178.59 (18)
C4—C4A—C10B—C1−0.8 (3)C5A—C10A—C10B—C4A0.75 (19)
C4—C4A—C10B—C10A179.72 (16)C10—C10A—C10B—C13.6 (3)
N5—C5A—C6—O69.5 (2)C10—C10A—C10B—C4A−177.02 (15)
D—H···AD—HH···AD···AD—H···A
N5—H5···O6i0.837 (19)2.13 (2)2.904 (2)153.2 (19)
C9—H9A···O6ii0.992.553.228 (2)125
C7—H7A···Cg2iii0.992.953.7969 (19)144
Table 1

Hydrogen-bond geometry (Å, °)

Cg2 is the centroid of the C1–C4,C4A,C10B ring.

D—H⋯AD—HH⋯ADAD—H⋯A
N5—H5⋯O6i0.837 (19)2.13 (2)2.904 (2)153.2 (19)
C9—H9A⋯O6ii0.992.553.228 (2)125
C7—H7ACg2iii0.992.953.7969 (19)144

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

  7 in total

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Review 2.  Simple indole alkaloids and those with a nonrearranged monoterpenoid unit.

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3.  A short history of SHELX.

Authors:  George M Sheldrick
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Authors:  B Joseph; D Alagille; J Y Mérour; S Léonce
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5.  2,5-Dimethyl-7,8,9,10-tetra-hydro-cyclo-hepta-[b]indol-6(5H)-one.

Authors:  R Archana; E Yamuna; K J Rajendra Prasad; A Thiruvalluvar; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-10-23

6.  5-Methyl-7,8,9,10-tetra-hydro-cyclo-hepta-[b]indol-6(5H)-one.

Authors:  R Archana; E Yamuna; K J Rajendra Prasad; A Thiruvalluvar; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-05-07

7.  Structure validation in chemical crystallography.

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