Literature DB >> 21202846

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

Makuteswaran Sridharan, Karnam J Rajendra Prasad, Aimable Ngendahimana, Matthias Zeller.   

Abstract

The title compound, C(14)H(15)NO, was synthesized from 2-hydroxy-methyl-enecyclo-hepta-none via a Japp-Klingemann acid-catalyzed cyclization. The seven-membered ring exhibits a slightly distorted envelope conformation. N-H⋯O hydrogen bonds form a centrosymmetric dimer; C-H⋯O hydrogen bonds and π-π stacking inter-actions (the centers of the atoms involved in the stacking interaction are separated by 3.504 Å) give rise to another type of centrosymmetric dimer. In combination, these inter-actions create a stair-like chain of mol-ecules that inter-acts only loosely with neighboring chains via van der Waals inter-actions and weak C-H⋯π contacts.

Entities:  

Year:  2008        PMID: 21202846      PMCID: PMC2961774          DOI: 10.1107/S1600536808016498

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


Related literature

For related literature on the synthesis, structure, anti­cancer and anti­depressant activities, and toxicity of functionalized cyclo­hept[b]indoles, see: Cornec et al. (1998 ▶); Joseph et al. (1999 ▶); Kinnick et al. (2006 ▶); Humphrey & Kuethe (2006 ▶, and references therein); Benoit et al. (2000 ▶); Kavitha & Rajendra Prasad (1999 ▶, and references therein). Brameld et al. (2008 ▶) describe small-mol­ecule conformational preferences derived from crystal structure data. Bernstein et al. (1995 ▶) present the use of the versatile graph-set analysis for the description of hydrogen bonds.

Experimental

Crystal data

C14H15NO M = 213.27 Monoclinic, a = 11.461 (3) Å b = 6.5062 (19) Å c = 14.459 (4) Å β = 92.310 (4)° V = 1077.3 (6) Å3 Z = 4 Mo Kα radiation μ = 0.08 mm−1 T = 100 (2) K 0.48 × 0.10 × 0.08 mm

Data collection

Bruker SMART APEX CCD diffractometer Absorption correction: multi-scan (SADABS as implemented in APEX2; Bruker, 2008 ▶) T min = 0.731, T max = 0.993 9984 measured reflections 2652 independent reflections 1581 reflections with I > 2σ(I) R int = 0.081

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.135 S = 1.00 2652 reflections 146 parameters H-atom parameters constrained Δρmax = 0.19 e Å−3 Δρmin = −0.28 e Å−3 Data collection: APEX2 (Bruker, 2008 ▶); cell refinement: APEX2; data reduction: APEX2; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL and Mercury (Macrae et al., 2006 ▶); software used to prepare material for publication: SHELXTL and Mercury. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536808016498/fl2202sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808016498/fl2202Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H15NOF(000) = 456
Mr = 213.27Dx = 1.315 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
a = 11.461 (3) ÅCell parameters from 1265 reflections
b = 6.5062 (19) Åθ = 2.3–24.5°
c = 14.459 (4) ŵ = 0.08 mm1
β = 92.310 (4)°T = 100 K
V = 1077.3 (6) Å3Plate, colourless
Z = 40.48 × 0.10 × 0.08 mm
Bruker SMART APEX CCD diffractometer2652 independent reflections
Radiation source: fine-focus sealed tube1581 reflections with I > 2σ(I)
graphiteRint = 0.081
ω scansθmax = 28.3°, θmin = 2.2°
Absorption correction: multi-scan (SADABS as implemented in APEX2; Bruker, 2008)h = −15→15
Tmin = 0.731, Tmax = 0.993k = −8→8
9984 measured reflectionsl = −19→19
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.056Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.135H-atom parameters constrained
S = 1.00w = 1/[σ2(Fo2) + (0.0596P)2] where P = (Fo2 + 2Fc2)/3
2652 reflections(Δ/σ)max < 0.001
146 parametersΔρmax = 0.19 e Å3
0 restraintsΔρmin = −0.28 e Å3
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) 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. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s 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 > σ(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
C10.13517 (16)0.2801 (3)1.08139 (13)0.0251 (4)
C20.21105 (17)0.3796 (3)1.15581 (13)0.0284 (5)
H2A0.25320.26881.19010.034*
H2B0.15890.44631.19980.034*
C30.30146 (17)0.5391 (3)1.12828 (14)0.0283 (5)
H3A0.34910.57861.18410.034*
H3B0.35440.47501.08410.034*
C40.24910 (17)0.7329 (3)1.08433 (13)0.0280 (5)
H4A0.17350.76181.11250.034*
H4B0.30180.85001.09880.034*
C50.22933 (17)0.7184 (3)0.97993 (13)0.0272 (5)
H5A0.18740.84380.95860.033*
H5B0.30660.71940.95160.033*
C60.16294 (15)0.5361 (3)0.94335 (13)0.0241 (4)
C70.12670 (16)0.3572 (3)0.98660 (13)0.0243 (4)
C80.06994 (16)0.3237 (3)0.83704 (13)0.0244 (4)
C90.02351 (16)0.2566 (3)0.75210 (13)0.0274 (5)
H9−0.01260.12570.74550.033*
C100.03204 (16)0.3877 (3)0.67779 (14)0.0287 (5)
H10−0.00030.34630.61920.034*
C110.08746 (17)0.5823 (3)0.68576 (13)0.0275 (5)
C120.13502 (16)0.6455 (3)0.77013 (14)0.0271 (5)
H120.17340.77460.77590.032*
C130.12601 (16)0.5160 (3)0.84787 (13)0.0245 (4)
C140.09470 (18)0.7160 (3)0.60049 (14)0.0339 (5)
H14A0.12110.85390.61870.051*
H14B0.01750.72500.56910.051*
H14C0.15020.65550.55840.051*
N10.07063 (13)0.2311 (2)0.92167 (10)0.0253 (4)
H10.04020.11010.93320.030*
O10.07986 (11)0.1233 (2)1.10088 (9)0.0300 (4)
U11U22U33U12U13U23
C10.0207 (10)0.0302 (10)0.0251 (11)0.0036 (8)0.0076 (8)0.0000 (8)
C20.0258 (10)0.0348 (11)0.0248 (11)0.0005 (9)0.0034 (9)0.0010 (9)
C30.0240 (10)0.0350 (11)0.0258 (11)0.0028 (9)0.0002 (8)−0.0005 (9)
C40.0233 (10)0.0321 (11)0.0286 (11)0.0013 (9)0.0017 (9)−0.0010 (9)
C50.0260 (10)0.0312 (11)0.0246 (11)−0.0014 (9)0.0036 (9)0.0008 (9)
C60.0183 (9)0.0305 (10)0.0237 (10)0.0030 (8)0.0032 (8)−0.0015 (8)
C70.0196 (10)0.0294 (10)0.0241 (11)0.0012 (8)0.0037 (8)−0.0021 (8)
C80.0182 (10)0.0309 (10)0.0245 (11)0.0007 (8)0.0050 (8)0.0007 (9)
C90.0228 (10)0.0337 (11)0.0260 (11)−0.0034 (9)0.0049 (8)−0.0016 (9)
C100.0206 (10)0.0429 (12)0.0230 (11)−0.0005 (9)0.0051 (8)−0.0025 (9)
C110.0210 (10)0.0380 (12)0.0239 (11)−0.0015 (9)0.0048 (8)0.0009 (9)
C120.0204 (10)0.0327 (11)0.0284 (11)0.0000 (9)0.0060 (8)0.0019 (9)
C130.0170 (9)0.0321 (11)0.0246 (11)0.0008 (8)0.0044 (8)−0.0013 (9)
C140.0297 (12)0.0439 (13)0.0284 (12)−0.0028 (10)0.0067 (9)0.0052 (10)
N10.0226 (9)0.0292 (9)0.0243 (9)−0.0015 (7)0.0035 (7)0.0008 (7)
O10.0311 (8)0.0309 (8)0.0283 (8)−0.0012 (6)0.0070 (6)0.0028 (6)
C1—O11.239 (2)C7—N11.385 (2)
C1—C71.459 (3)C8—N11.364 (2)
C1—C21.502 (3)C8—C91.389 (3)
C2—C31.531 (3)C8—C131.412 (3)
C2—H2A0.9900C9—C101.378 (3)
C2—H2B0.9900C9—H90.9500
C3—C41.524 (3)C10—C111.420 (3)
C3—H3A0.9900C10—H100.9500
C3—H3B0.9900C11—C121.379 (3)
C4—C51.520 (3)C11—C141.514 (3)
C4—H4A0.9900C12—C131.412 (3)
C4—H4B0.9900C12—H120.9500
C5—C61.494 (3)C14—H14A0.9800
C5—H5A0.9900C14—H14B0.9800
C5—H5B0.9900C14—H14C0.9800
C6—C71.393 (3)N1—H10.8800
C6—C131.434 (3)
O1—C1—C7118.77 (18)N1—C7—C6109.23 (17)
O1—C1—C2118.56 (17)N1—C7—C1116.39 (17)
C7—C1—C2122.64 (18)C6—C7—C1134.38 (18)
C1—C2—C3118.96 (16)N1—C8—C9130.00 (18)
C1—C2—H2A107.6N1—C8—C13107.80 (17)
C3—C2—H2A107.6C9—C8—C13122.19 (18)
C1—C2—H2B107.6C10—C9—C8117.27 (19)
C3—C2—H2B107.6C10—C9—H9121.4
H2A—C2—H2B107.0C8—C9—H9121.4
C4—C3—C2114.21 (16)C9—C10—C11122.29 (19)
C4—C3—H3A108.7C9—C10—H10118.9
C2—C3—H3A108.7C11—C10—H10118.9
C4—C3—H3B108.7C12—C11—C10119.84 (18)
C2—C3—H3B108.7C12—C11—C14121.11 (18)
H3A—C3—H3B107.6C10—C11—C14119.04 (18)
C5—C4—C3113.79 (16)C11—C12—C13119.17 (18)
C5—C4—H4A108.8C11—C12—H12120.4
C3—C4—H4A108.8C13—C12—H12120.4
C5—C4—H4B108.8C12—C13—C8119.21 (18)
C3—C4—H4B108.8C12—C13—C6133.15 (18)
H4A—C4—H4B107.7C8—C13—C6107.63 (16)
C6—C5—C4116.99 (16)C11—C14—H14A109.5
C6—C5—H5A108.1C11—C14—H14B109.5
C4—C5—H5A108.1H14A—C14—H14B109.5
C6—C5—H5B108.1C11—C14—H14C109.5
C4—C5—H5B108.1H14A—C14—H14C109.5
H5A—C5—H5B107.3H14B—C14—H14C109.5
C7—C6—C13105.92 (16)C8—N1—C7109.40 (16)
C7—C6—C5131.40 (17)C8—N1—H1125.3
C13—C6—C5122.66 (17)C7—N1—H1125.3
O1—C1—C2—C3165.37 (17)C9—C10—C11—C120.0 (3)
C7—C1—C2—C3−12.8 (3)C9—C10—C11—C14179.14 (17)
C1—C2—C3—C464.2 (2)C10—C11—C12—C13−1.0 (3)
C2—C3—C4—C5−88.3 (2)C14—C11—C12—C13179.88 (17)
C3—C4—C5—C651.7 (2)C11—C12—C13—C80.9 (3)
C4—C5—C6—C7−9.5 (3)C11—C12—C13—C6−178.67 (19)
C4—C5—C6—C13172.25 (17)N1—C8—C13—C12−178.80 (16)
C13—C6—C7—N10.32 (19)C9—C8—C13—C120.3 (3)
C5—C6—C7—N1−178.10 (18)N1—C8—C13—C60.8 (2)
C13—C6—C7—C1−179.5 (2)C9—C8—C13—C6179.93 (16)
C5—C6—C7—C12.0 (3)C7—C6—C13—C12178.9 (2)
O1—C1—C7—N1−9.3 (3)C5—C6—C13—C12−2.5 (3)
C2—C1—C7—N1168.83 (16)C7—C6—C13—C8−0.71 (19)
O1—C1—C7—C6170.51 (19)C5—C6—C13—C8177.89 (16)
C2—C1—C7—C6−11.3 (3)C9—C8—N1—C7−179.65 (18)
N1—C8—C9—C10177.61 (18)C13—C8—N1—C7−0.7 (2)
C13—C8—C9—C10−1.3 (3)C6—C7—N1—C80.2 (2)
C8—C9—C10—C111.1 (3)C1—C7—N1—C8−179.91 (15)
D—H···AD—HH···AD···AD—H···A
N1—H1···O1i0.882.092.890 (2)150.
C4—H4a···O1ii0.992.593.211 (3)121
C2—H2B···Cg1iii0.992.883.740 (2)146
C5—H5b···C10iv0.992.903.794 (2)151
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O1i0.882.092.890 (2)150
C4—H4a⋯O1ii0.992.593.211 (3)121
C2—H2BCg1iii0.992.883.740 (2)146
C5—H5b⋯C10iv0.992.903.794 (2)151

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) . Cg1 is the centroid of the C8–C13 ring.

  4 in total

Review 1.  Practical methodologies for the synthesis of indoles.

Authors:  Guy R Humphrey; Jeffrey T Kuethe
Journal:  Chem Rev       Date:  2006-07       Impact factor: 60.622

Review 2.  Small molecule conformational preferences derived from crystal structure data. A medicinal chemistry focused analysis.

Authors:  Ken A Brameld; Bernd Kuhn; Deborah C Reuter; Martin Stahl
Journal:  J Chem Inf Model       Date:  2008-01-10       Impact factor: 4.956

3.  A short history of SHELX.

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

4.  DNA but not topoisomerases is a target for a cytotoxic benzo[5,6]cyclohepta[b]indol-6-one derivative.

Authors:  J Benoit; S Routier; J Y Mérour; P Colson; C Houssier; C Bailly
Journal:  Anticancer Res       Date:  2000 Sep-Oct       Impact factor: 2.480

  4 in total
  3 in total

1.  7,8,9,10-Tetra-hydro-cyclo-hepta-[b]indol-6(5H)-one.

Authors:  M Sridharan; K J Rajendra Prasad; A Thomas Gunaseelan; A Thiruvalluvar; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-08-06

2.  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

3.  4-Methyl-7,8,9,10-tetra-hydro-cyclo-hepta-[b]indol-6(5H)-one.

Authors:  M Sridharan; K J Rajendra Prasad; A Thomas Gunaseelan; A Thiruvalluvar; R J Butcher
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-03-06
  3 in total

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