Literature DB >> 22199716

5-Meth-oxy-3-[(5-meth-oxy-1H-indol-3-yl)(phen-yl)meth-yl]-1H-indole.

P Narayanan, K Sethusankar, K Ramachandiran, P T Perumal.   

Abstract

In the title compound, C(25)H(22)N(2)O(2), the indole rings are individually almost planar [with maximum deviations of 0.0116 (19) and 0.0113 (18) Å] and are almost orthogonal to each other, making a dihedral angle of 84.49 (6)°. The benzene ring is inclined at 72.83 (9) and 80.85 (9)° with respect to the indole rings. In the crystal, mol-ecules are linked by N-H⋯O inter-actions into chains running parallel to the c axis. The crystal structure is further stabilized by C-H⋯π inter-actions.

Entities:  

Year:  2011        PMID: 22199716      PMCID: PMC3238863          DOI: 10.1107/S1600536811045491

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


Related literature

For the biological activity and uses of indole derivatives, see: Bell et al. (1994 ▶); Ge et al. (1996 ▶). For related structures, see: Zhang et al. (2006 ▶, 2007 ▶).

Experimental

Crystal data

C25H22N2O2 M = 382.45 Monoclinic, a = 9.1545 (4) Å b = 10.5954 (6) Å c = 21.1668 (13) Å β = 93.679 (2)° V = 2048.86 (19) Å3 Z = 4 Mo Kα radiation μ = 0.08 mm−1 T = 293 K 0.25 × 0.20 × 0.15 mm

Data collection

Bruker APEXII KappaCCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2008 ▶) T min = 0.981, T max = 0.988 16790 measured reflections 3087 independent reflections 2317 reflections with I > 2σ(I) R int = 0.034 θmax = 23.7°

Refinement

R[F 2 > 2σ(F 2)] = 0.041 wR(F 2) = 0.119 S = 1.03 3087 reflections 264 parameters H-atom parameters constrained Δρmax = 0.12 e Å−3 Δρmin = −0.18 e Å−3 Data collection: APEX2 (Bruker, 2008 ▶); cell refinement: SAINT (Bruker, 2008 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶); software used to prepare material for publication: SHELXL97 and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811045491/pv2461sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811045491/pv2461Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811045491/pv2461Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C25H22N2O2F(000) = 808
Mr = 382.45Dx = 1.240 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 3087 reflections
a = 9.1545 (4) Åθ = 2.2–23.7°
b = 10.5954 (6) ŵ = 0.08 mm1
c = 21.1668 (13) ÅT = 293 K
β = 93.679 (2)°Block, brown
V = 2048.86 (19) Å30.25 × 0.20 × 0.15 mm
Z = 4
Bruker APEXII KappaCCD diffractometer3087 independent reflections
Radiation source: fine-focus sealed tube2317 reflections with I > 2σ(I)
graphiteRint = 0.034
ω and φ scansθmax = 23.7°, θmin = 2.2°
Absorption correction: multi-scan (SADABS; Bruker, 2008)h = −7→10
Tmin = 0.981, Tmax = 0.988k = −11→11
16790 measured reflectionsl = −22→23
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.041Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.119H-atom parameters constrained
S = 1.03w = 1/[σ2(Fo2) + (0.0627P)2 + 0.4003P] where P = (Fo2 + 2Fc2)/3
3087 reflections(Δ/σ)max < 0.001
264 parametersΔρmax = 0.12 e Å3
0 restraintsΔρmin = −0.18 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
C10.4797 (2)0.37371 (19)0.41816 (10)0.0532 (5)
H10.52360.44470.43700.064*
C20.3360 (2)0.3804 (2)0.39415 (11)0.0661 (6)
H20.28370.45520.39730.079*
C30.2704 (2)0.2767 (3)0.36573 (12)0.0748 (7)
H30.17390.28120.34930.090*
C40.3477 (2)0.1667 (3)0.36166 (12)0.0776 (8)
H40.30330.09620.34260.093*
C50.4916 (2)0.1600 (2)0.38590 (10)0.0580 (6)
H50.54330.08500.38270.070*
C60.55940 (18)0.26319 (17)0.41470 (8)0.0405 (5)
C70.71658 (18)0.25468 (16)0.44225 (8)0.0374 (4)
H70.75590.17520.42680.045*
C80.72666 (19)0.24617 (17)0.51335 (8)0.0394 (4)
C90.6212 (2)0.26862 (18)0.55446 (9)0.0493 (5)
H90.52700.29670.54290.059*
C100.85246 (19)0.20426 (17)0.55141 (8)0.0402 (4)
C110.8153 (2)0.20311 (18)0.61463 (9)0.0489 (5)
C120.9142 (3)0.1637 (2)0.66314 (10)0.0639 (6)
H120.88850.16260.70490.077*
C131.0503 (3)0.1267 (2)0.64757 (11)0.0681 (6)
H131.11830.10070.67950.082*
C141.0901 (2)0.1267 (2)0.58488 (11)0.0566 (6)
C150.9929 (2)0.16574 (17)0.53660 (9)0.0460 (5)
H151.01970.16660.49500.055*
C161.2814 (2)0.0968 (2)0.51545 (13)0.0767 (7)
H16A1.22140.04600.48660.115*
H16B1.38090.06820.51600.115*
H16C1.27630.18340.50200.115*
C170.80985 (17)0.35843 (17)0.41750 (8)0.0378 (4)
C180.8511 (2)0.46889 (19)0.44561 (9)0.0502 (5)
H180.82820.49330.48600.060*
C190.94249 (19)0.47413 (18)0.35062 (9)0.0445 (5)
C200.86769 (17)0.35972 (16)0.35638 (8)0.0365 (4)
C210.86324 (18)0.27284 (18)0.30657 (8)0.0422 (5)
H210.81420.19640.30950.051*
C220.9332 (2)0.30362 (19)0.25334 (9)0.0468 (5)
C231.0038 (2)0.4195 (2)0.24795 (10)0.0566 (6)
H231.04730.43870.21060.068*
C241.0106 (2)0.5050 (2)0.29604 (10)0.0571 (6)
H241.05920.58150.29240.069*
C250.8751 (4)0.1091 (3)0.20263 (14)0.1214 (14)
H25A0.92350.05740.23480.182*
H25B0.88040.06920.16210.182*
H25C0.77440.11990.21160.182*
N10.6733 (2)0.24406 (16)0.61507 (8)0.0585 (5)
H1A0.62480.25290.64830.070*
N20.93115 (18)0.53917 (16)0.40619 (8)0.0568 (5)
H2A0.96830.61220.41480.068*
O11.23040 (17)0.08657 (16)0.57707 (8)0.0778 (5)
O20.94253 (17)0.22539 (15)0.20173 (7)0.0693 (5)
U11U22U33U12U13U23
C10.0506 (12)0.0478 (13)0.0616 (14)0.0015 (10)0.0059 (10)−0.0035 (10)
C20.0535 (13)0.0641 (16)0.0804 (17)0.0134 (11)0.0026 (11)−0.0016 (13)
C30.0444 (12)0.092 (2)0.0867 (18)0.0084 (13)−0.0066 (11)−0.0137 (15)
C40.0510 (13)0.0825 (19)0.097 (2)−0.0035 (13)−0.0095 (12)−0.0342 (15)
C50.0470 (11)0.0568 (14)0.0701 (15)0.0024 (10)0.0022 (10)−0.0191 (11)
C60.0387 (10)0.0447 (12)0.0390 (11)−0.0023 (8)0.0090 (8)−0.0032 (8)
C70.0385 (9)0.0368 (10)0.0376 (11)−0.0013 (8)0.0088 (8)−0.0050 (8)
C80.0442 (10)0.0363 (11)0.0390 (11)−0.0053 (8)0.0115 (8)−0.0025 (8)
C90.0522 (11)0.0499 (12)0.0472 (13)−0.0019 (9)0.0134 (10)−0.0004 (9)
C100.0504 (11)0.0320 (10)0.0387 (11)−0.0068 (8)0.0072 (8)−0.0012 (8)
C110.0643 (13)0.0415 (12)0.0419 (12)−0.0069 (10)0.0118 (10)0.0000 (9)
C120.0972 (18)0.0559 (14)0.0384 (12)−0.0070 (13)0.0021 (12)0.0074 (10)
C130.0833 (17)0.0560 (15)0.0626 (16)0.0029 (12)−0.0130 (13)0.0122 (12)
C140.0611 (13)0.0438 (13)0.0641 (15)−0.0001 (10)−0.0033 (11)0.0032 (10)
C150.0514 (11)0.0403 (11)0.0464 (12)−0.0042 (9)0.0046 (9)−0.0017 (9)
C160.0547 (13)0.0661 (17)0.111 (2)0.0008 (11)0.0160 (14)0.0084 (15)
C170.0364 (9)0.0403 (11)0.0372 (11)−0.0024 (8)0.0056 (8)−0.0028 (8)
C180.0574 (12)0.0516 (13)0.0427 (11)−0.0084 (10)0.0122 (9)−0.0075 (10)
C190.0474 (10)0.0405 (11)0.0463 (12)−0.0032 (9)0.0079 (9)0.0011 (9)
C200.0341 (9)0.0378 (11)0.0379 (11)−0.0009 (8)0.0047 (7)0.0008 (8)
C210.0402 (10)0.0454 (12)0.0418 (11)−0.0063 (8)0.0089 (8)−0.0014 (9)
C220.0490 (11)0.0546 (13)0.0379 (11)−0.0024 (9)0.0112 (9)−0.0024 (10)
C230.0662 (13)0.0579 (14)0.0483 (13)−0.0051 (11)0.0236 (10)0.0102 (11)
C240.0662 (13)0.0416 (13)0.0659 (15)−0.0092 (10)0.0223 (11)0.0068 (11)
C250.167 (3)0.118 (3)0.086 (2)−0.081 (2)0.067 (2)−0.0612 (19)
N10.0740 (12)0.0639 (12)0.0403 (11)−0.0035 (9)0.0243 (9)−0.0015 (8)
N20.0704 (11)0.0422 (10)0.0591 (11)−0.0166 (8)0.0140 (9)−0.0078 (9)
O10.0604 (10)0.0750 (12)0.0961 (14)0.0174 (8)−0.0089 (9)0.0057 (9)
O20.0840 (11)0.0779 (11)0.0491 (9)−0.0194 (9)0.0296 (8)−0.0157 (8)
C1—C21.382 (3)C14—C151.374 (3)
C1—C61.384 (3)C15—H150.9300
C1—H10.9300C16—O11.417 (3)
C2—C31.372 (3)C16—H16A0.9600
C2—H20.9300C16—H16B0.9600
C3—C41.369 (3)C16—H16C0.9600
C3—H30.9300C17—C181.356 (3)
C4—C51.385 (3)C17—C201.429 (2)
C4—H40.9300C18—N21.366 (2)
C5—C61.379 (3)C18—H180.9300
C5—H50.9300C19—N21.373 (2)
C6—C71.520 (2)C19—C241.386 (3)
C7—C81.505 (2)C19—C201.401 (2)
C7—C171.506 (2)C20—C211.398 (2)
C7—H70.9800C21—C221.371 (3)
C8—C91.362 (3)C21—H210.9300
C8—C101.433 (3)C22—O21.378 (2)
C9—N11.365 (3)C22—C231.395 (3)
C9—H90.9300C23—C241.361 (3)
C10—C111.402 (3)C23—H230.9300
C10—C151.404 (3)C24—H240.9300
C11—N11.371 (3)C25—O21.379 (3)
C11—C121.389 (3)C25—H25A0.9600
C12—C131.367 (3)C25—H25B0.9600
C12—H120.9300C25—H25C0.9600
C13—C141.398 (3)N1—H1A0.8600
C13—H130.9300N2—H2A0.8600
C14—O11.373 (2)
C2—C1—C6121.1 (2)C14—C15—H15120.7
C2—C1—H1119.4C10—C15—H15120.7
C6—C1—H1119.4O1—C16—H16A109.5
C3—C2—C1120.0 (2)O1—C16—H16B109.5
C3—C2—H2120.0H16A—C16—H16B109.5
C1—C2—H2120.0O1—C16—H16C109.5
C4—C3—C2119.8 (2)H16A—C16—H16C109.5
C4—C3—H3120.1H16B—C16—H16C109.5
C2—C3—H3120.1C18—C17—C20106.26 (15)
C3—C4—C5120.2 (2)C18—C17—C7128.73 (16)
C3—C4—H4119.9C20—C17—C7124.96 (15)
C5—C4—H4119.9C17—C18—N2110.36 (17)
C6—C5—C4120.9 (2)C17—C18—H18124.8
C6—C5—H5119.5N2—C18—H18124.8
C4—C5—H5119.5N2—C19—C24131.17 (18)
C5—C6—C1118.03 (17)N2—C19—C20107.18 (15)
C5—C6—C7120.69 (17)C24—C19—C20121.65 (18)
C1—C6—C7121.27 (17)C21—C20—C19119.64 (16)
C8—C7—C17113.07 (14)C21—C20—C17132.98 (16)
C8—C7—C6112.52 (14)C19—C20—C17107.37 (15)
C17—C7—C6111.53 (15)C22—C21—C20118.07 (17)
C8—C7—H7106.4C22—C21—H21121.0
C17—C7—H7106.4C20—C21—H21121.0
C6—C7—H7106.4C21—C22—O2124.35 (18)
C9—C8—C10105.80 (17)C21—C22—C23121.32 (18)
C9—C8—C7128.92 (17)O2—C22—C23114.32 (17)
C10—C8—C7125.19 (15)C24—C23—C22121.57 (18)
C8—C9—N1110.34 (18)C24—C23—H23119.2
C8—C9—H9124.8C22—C23—H23119.2
N1—C9—H9124.8C23—C24—C19117.70 (19)
C11—C10—C15119.51 (18)C23—C24—H24121.2
C11—C10—C8107.68 (16)C19—C24—H24121.2
C15—C10—C8132.80 (17)O2—C25—H25A109.5
N1—C11—C12131.56 (19)O2—C25—H25B109.5
N1—C11—C10106.98 (17)H25A—C25—H25B109.5
C12—C11—C10121.46 (19)O2—C25—H25C109.5
C13—C12—C11118.0 (2)H25A—C25—H25C109.5
C13—C12—H12121.0H25B—C25—H25C109.5
C11—C12—H12121.0C9—N1—C11109.19 (16)
C12—C13—C14121.7 (2)C9—N1—H1A125.4
C12—C13—H13119.2C11—N1—H1A125.4
C14—C13—H13119.2C18—N2—C19108.83 (16)
O1—C14—C15124.7 (2)C18—N2—H2A125.6
O1—C14—C13114.60 (19)C19—N2—H2A125.6
C15—C14—C13120.7 (2)C14—O1—C16116.91 (17)
C14—C15—C10118.66 (19)C22—O2—C25118.42 (16)
C6—C1—C2—C3−0.7 (3)C8—C10—C15—C14−178.15 (19)
C1—C2—C3—C40.4 (4)C8—C7—C17—C18−28.6 (3)
C2—C3—C4—C5−0.2 (4)C6—C7—C17—C1899.3 (2)
C3—C4—C5—C60.3 (4)C8—C7—C17—C20154.25 (16)
C4—C5—C6—C1−0.5 (3)C6—C7—C17—C20−77.8 (2)
C4—C5—C6—C7178.92 (19)C20—C17—C18—N2−0.1 (2)
C2—C1—C6—C50.7 (3)C7—C17—C18—N2−177.62 (17)
C2—C1—C6—C7−178.74 (18)N2—C19—C20—C21−179.02 (16)
C5—C6—C7—C8−104.3 (2)C24—C19—C20—C211.2 (3)
C1—C6—C7—C875.1 (2)N2—C19—C20—C170.3 (2)
C5—C6—C7—C17127.43 (19)C24—C19—C20—C17−179.42 (17)
C1—C6—C7—C17−53.1 (2)C18—C17—C20—C21179.09 (19)
C17—C7—C8—C9113.9 (2)C7—C17—C20—C21−3.3 (3)
C6—C7—C8—C9−13.6 (3)C18—C17—C20—C19−0.2 (2)
C17—C7—C8—C10−70.0 (2)C7—C17—C20—C19177.49 (16)
C6—C7—C8—C10162.53 (17)C19—C20—C21—C220.0 (3)
C10—C8—C9—N10.3 (2)C17—C20—C21—C22−179.20 (18)
C7—C8—C9—N1176.99 (16)C20—C21—C22—O2177.46 (17)
C9—C8—C10—C110.2 (2)C20—C21—C22—C23−1.7 (3)
C7—C8—C10—C11−176.63 (16)C21—C22—C23—C242.3 (3)
C9—C8—C10—C15179.1 (2)O2—C22—C23—C24−176.93 (19)
C7—C8—C10—C152.2 (3)C22—C23—C24—C19−1.1 (3)
C15—C10—C11—N1−179.67 (17)N2—C19—C24—C23179.6 (2)
C8—C10—C11—N1−0.7 (2)C20—C19—C24—C23−0.7 (3)
C15—C10—C11—C12−0.5 (3)C8—C9—N1—C11−0.7 (2)
C8—C10—C11—C12178.51 (18)C12—C11—N1—C9−178.2 (2)
N1—C11—C12—C13179.5 (2)C10—C11—N1—C90.9 (2)
C10—C11—C12—C130.5 (3)C17—C18—N2—C190.3 (2)
C11—C12—C13—C14−0.6 (3)C24—C19—N2—C18179.3 (2)
C12—C13—C14—O1−179.8 (2)C20—C19—N2—C18−0.4 (2)
C12—C13—C14—C150.7 (3)C15—C14—O1—C165.7 (3)
O1—C14—C15—C10179.89 (18)C13—C14—O1—C16−173.79 (19)
C13—C14—C15—C10−0.7 (3)C21—C22—O2—C251.3 (3)
C11—C10—C15—C140.6 (3)C23—C22—O2—C25−179.6 (2)
Cg2, Cg3, Cg4 and Cg5 are the centroids of the N2/C17–C20, C1–C6, C10–C15 and C19–C24 rings, respectively
D—H···AD—HH···AD···AD—H···A
N1—H1A···O2i0.862.092.904 (2)158
C25—H25B···Cg2ii0.962.953.515 (3)119
C16—H16C···Cg3iii0.962.903.508 (3)122
N2—H2A···Cg4iv0.862.493.3149 (19)160
C3—H3···Cg5v0.932.603.470 (2)157
Table 1

Hydrogen-bond geometry (Å, °)

Cg2, Cg3, Cg4 and Cg5 are the centroids of the N2/C17–C20, C1–C6, C10–C15 and C19–C24 rings, respectively

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1A⋯O2i0.862.092.904 (2)158
C25—H25BCg2ii0.962.953.515 (3)119
C16—H16CCg3iii0.962.903.508 (3)122
N2—H2ACg4iv0.862.493.3149 (19)160
C3—H3⋯Cg5v0.932.603.470 (2)157

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

  4 in total

1.  A short history of SHELX.

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

2.  Vibrindole A, a metabolite of the marine bacterium, Vibrio parahaemolyticus, isolated from the toxic mucus of the boxfish Ostracion cubicus.

Authors:  R Bell; S Carmeli; N Sar
Journal:  J Nat Prod       Date:  1994-11       Impact factor: 4.050

3.  3,3'-Diindolylmethane induces apoptosis in human cancer cells.

Authors:  X Ge; S Yannai; G Rennert; N Gruener; F A Fares
Journal:  Biochem Biophys Res Commun       Date:  1996-11-01       Impact factor: 3.575

4.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  4 in total
  1 in total

1.  5-Meth-oxy-1-[(5-meth-oxy-1H-indol-2-yl)meth-yl]-1H-indole.

Authors:  Mohamed I Attia; Nasser R El-Brollosy; Hazem A Ghabbour; Suhana Arshad; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-03-07
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