Literature DB >> 22412611

(Z)-3-(1H-Indol-3-yl)-2-(3,4,5-tri-methoxy-phen-yl)acrylonitrile.

Narsimha Reddy Penthala, Sean Parkin, Peter A Crooks.   

Abstract

In the title compound, C(20)H(18)N(2)O(3), the C=C bond of the acrylonitrile group that links the indole and the 3,4,5-trimeth-oxy-phenyl rings has Z geometry, with dihedral angles between the plane of the acrylonitrile unit and the planes of the benzene and indole ring systems of 21.96 (5) and 38.94 (7)°, respectively. The acrylonitrile group is planar (r.m.s. deviation from planarity = 0.037 Å). Mol-ecules are linked into head-to-tail chains that propagate along the b-axis direction by bifurcated N-H⋯O inter-molecular hydrogen bonds, which form an R(1) (2)(5) motif between the indole NH group and the two meth-oxy O atoms furthest from the nitrile group.

Entities:  

Year:  2012        PMID: 22412611      PMCID: PMC3295500          DOI: 10.1107/S1600536812005855

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


Related literature

For biological activity of similar acrylonitriles, see: Naruto et al. (1983 ▶); Ohsumi et al. (1998 ▶); Saczewski et al. (2004 ▶). For the mol­ecular structures of (E)-3-(benzo[b]thio­phen-2-yl)-2-(3,4,5-trimeth­oxy­phen­yl)acrylonitrile and (Z)-3-(benzo[b]thio­phen-2-yl)-2-(3,4-dimeth­oxy­phen­yl)acrylonitrile, see: Sonar et al. (2007 ▶). For the structure of (Z)-4-[3-(2,5-dioxo­imi­dazol­idin-4-ylidenemeth­yl)-1H-indol-1-ylmeth­yl]benzo­nitrile, see: Penthala et al. (2008 ▶).

Experimental

Crystal data

C20H18N2O3 M = 334.36 Monoclinic, a = 11.3384 (4) Å b = 21.1383 (8) Å c = 6.9570 (3) Å β = 93.610 (2)° V = 1664.11 (11) Å3 Z = 4 Cu Kα radiation μ = 0.74 mm−1 T = 90 K 0.24 × 0.07 × 0.02 mm

Data collection

Bruker X8 Proteum diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2006 ▶) T min = 0.843, T max = 0.929 20812 measured reflections 2979 independent reflections 2679 reflections with I > 2σ(I) R int = 0.053

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.097 S = 1.07 2979 reflections 233 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.26 e Å−3 Δρmin = −0.20 e Å−3 Data collection: APEX2 (Bruker, 2006 ▶); cell refinement: SAINT (Bruker, 2006 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: XP in SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97 and local procedures. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812005855/nk2125sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812005855/nk2125Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812005855/nk2125Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H18N2O3F(000) = 704
Mr = 334.36Dx = 1.335 Mg m3
Monoclinic, P21/cCu Kα radiation, λ = 1.54178 Å
Hall symbol: -P 2ybcCell parameters from 9970 reflections
a = 11.3384 (4) Åθ = 3.9–68.1°
b = 21.1383 (8) ŵ = 0.74 mm1
c = 6.9570 (3) ÅT = 90 K
β = 93.610 (2)°Lath, yellow
V = 1664.11 (11) Å30.24 × 0.07 × 0.02 mm
Z = 4
Bruker X8 Proteum diffractometer2979 independent reflections
Radiation source: fine-focus rotating anode2679 reflections with I > 2σ(I)
Graded multilayer optics monochromatorRint = 0.053
Detector resolution: 5.6 pixels mm-1θmax = 68.1°, θmin = 3.9°
φ and ω scansh = −13→13
Absorption correction: multi-scan (SADABS in APEX2; Bruker, 2006)k = −25→25
Tmin = 0.843, Tmax = 0.929l = −7→8
20812 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)] = 0.037H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.097w = 1/[σ2(Fo2) + (0.0417P)2 + 0.7731P] where P = (Fo2 + 2Fc2)/3
S = 1.07(Δ/σ)max < 0.001
2979 reflectionsΔρmax = 0.26 e Å3
233 parametersΔρmin = −0.20 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0016 (3)
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-value wR and goodness of fit S are based on F2. Conventional R-values 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-values based on F2 are statistically about twice as large as those based on F, and R-values based on ALL data will be even larger.
xyzUiso*/Ueq
N10.29609 (11)0.42543 (6)0.78546 (16)0.0203 (3)
H1N0.2929 (15)0.4617 (8)0.732 (2)0.024*
N20.68309 (12)0.37056 (6)0.89979 (17)0.0251 (3)
O10.91232 (9)0.14011 (4)1.03760 (14)0.0220 (2)
O20.79293 (9)0.03501 (4)0.91759 (13)0.0202 (2)
O30.56732 (8)0.03817 (4)0.81372 (14)0.0203 (2)
C10.38533 (13)0.38300 (6)0.77536 (19)0.0195 (3)
H10.45200.38830.70090.023*
C20.36515 (12)0.33101 (6)0.88911 (18)0.0177 (3)
C30.25524 (12)0.34334 (6)0.97547 (18)0.0172 (3)
C40.18967 (13)0.31113 (6)1.1088 (2)0.0206 (3)
H40.21510.27121.15850.025*
C50.08734 (14)0.33867 (7)1.1662 (2)0.0253 (3)
H50.04260.31741.25740.030*
C60.04772 (14)0.39732 (7)1.0932 (2)0.0266 (3)
H6−0.02410.41451.13350.032*
C70.11116 (13)0.43046 (7)0.9640 (2)0.0225 (3)
H70.08500.47040.91530.027*
C80.21522 (13)0.40300 (6)0.90769 (19)0.0188 (3)
C90.43611 (12)0.27458 (6)0.91389 (18)0.0175 (3)
H90.39470.23670.93890.021*
C100.55447 (13)0.26926 (6)0.90571 (18)0.0170 (3)
C110.61787 (12)0.20801 (6)0.91199 (18)0.0166 (3)
C120.73704 (12)0.20546 (6)0.97301 (18)0.0173 (3)
H120.77810.24311.01030.021*
C130.79597 (12)0.14770 (6)0.97940 (18)0.0173 (3)
C140.73641 (12)0.09257 (6)0.92416 (18)0.0166 (3)
C150.61699 (12)0.09519 (6)0.86363 (18)0.0166 (3)
C160.55781 (12)0.15264 (6)0.85555 (18)0.0163 (3)
H160.47680.15440.81180.020*
C170.62542 (13)0.32580 (6)0.89881 (18)0.0185 (3)
C180.96763 (14)0.19066 (7)1.1428 (2)0.0263 (3)
H18A0.97210.22771.05900.039*
H18B1.04760.17801.18920.039*
H18C0.92140.20121.25290.039*
C190.84428 (13)0.01136 (7)1.0993 (2)0.0242 (3)
H19A0.92560.02691.11960.036*
H19B0.8445−0.03501.09710.036*
H19C0.79760.02621.20420.036*
C200.44638 (13)0.03775 (7)0.7438 (2)0.0227 (3)
H20A0.39720.05380.84400.034*
H20B0.4225−0.00560.71000.034*
H20C0.43630.06480.62950.034*
U11U22U33U12U13U23
N10.0269 (7)0.0156 (6)0.0183 (6)0.0011 (5)−0.0004 (5)0.0033 (5)
N20.0311 (7)0.0229 (7)0.0218 (6)−0.0038 (5)0.0048 (5)−0.0011 (5)
O10.0174 (5)0.0210 (5)0.0270 (5)−0.0010 (4)−0.0031 (4)−0.0036 (4)
O20.0221 (5)0.0176 (5)0.0202 (5)0.0035 (4)−0.0040 (4)−0.0021 (4)
O30.0198 (5)0.0160 (5)0.0245 (5)−0.0015 (4)−0.0042 (4)−0.0019 (4)
C10.0237 (8)0.0196 (7)0.0153 (6)0.0002 (6)0.0008 (6)0.0000 (5)
C20.0222 (7)0.0176 (7)0.0131 (6)−0.0018 (5)−0.0017 (5)−0.0013 (5)
C30.0196 (7)0.0160 (7)0.0153 (6)−0.0018 (5)−0.0030 (5)−0.0031 (5)
C40.0240 (8)0.0172 (7)0.0205 (7)−0.0027 (6)−0.0007 (6)−0.0008 (5)
C50.0271 (8)0.0232 (7)0.0262 (8)−0.0059 (6)0.0074 (6)−0.0054 (6)
C60.0227 (8)0.0252 (8)0.0320 (8)−0.0002 (6)0.0034 (6)−0.0095 (6)
C70.0230 (8)0.0181 (7)0.0257 (7)0.0025 (6)−0.0046 (6)−0.0054 (5)
C80.0223 (7)0.0169 (7)0.0167 (6)−0.0014 (5)−0.0030 (6)−0.0027 (5)
C90.0241 (8)0.0166 (7)0.0118 (6)−0.0017 (5)0.0006 (5)−0.0002 (5)
C100.0238 (8)0.0174 (7)0.0098 (6)−0.0011 (5)0.0007 (5)0.0003 (5)
C110.0225 (7)0.0182 (7)0.0095 (6)0.0004 (5)0.0035 (5)0.0014 (5)
C120.0214 (7)0.0173 (7)0.0133 (6)−0.0028 (5)0.0014 (5)−0.0006 (5)
C130.0184 (7)0.0220 (7)0.0116 (6)−0.0010 (5)0.0005 (5)0.0007 (5)
C140.0206 (7)0.0166 (7)0.0125 (6)0.0020 (5)0.0005 (5)−0.0003 (5)
C150.0218 (7)0.0169 (7)0.0110 (6)−0.0023 (5)0.0007 (5)−0.0004 (5)
C160.0178 (7)0.0195 (7)0.0115 (6)0.0011 (5)−0.0001 (5)0.0010 (5)
C170.0230 (7)0.0202 (7)0.0124 (6)0.0035 (6)0.0024 (5)−0.0006 (5)
C180.0250 (8)0.0240 (8)0.0288 (8)−0.0042 (6)−0.0060 (6)−0.0033 (6)
C190.0243 (8)0.0216 (7)0.0257 (7)0.0022 (6)−0.0062 (6)0.0033 (6)
C200.0201 (8)0.0210 (7)0.0261 (7)−0.0018 (6)−0.0050 (6)−0.0013 (6)
N1—C11.3572 (19)C7—H70.9500
N1—C81.3737 (19)C9—C101.351 (2)
N1—H1N0.851 (18)C9—H90.9500
N2—C171.1499 (19)C10—C171.4433 (19)
O1—C131.3649 (17)C10—C111.4801 (18)
O1—C181.4188 (17)C11—C121.392 (2)
O2—C141.3773 (16)C11—C161.3980 (19)
O2—C191.4472 (17)C12—C131.3910 (19)
O3—C151.3661 (16)C12—H120.9500
O3—C201.4257 (17)C13—C141.3890 (19)
C1—C21.3818 (19)C14—C151.394 (2)
C1—H10.9500C15—C161.3868 (19)
C2—C31.4409 (19)C16—H160.9500
C2—C91.4430 (19)C18—H18A0.9800
C3—C41.4011 (19)C18—H18B0.9800
C3—C81.4113 (19)C18—H18C0.9800
C4—C51.380 (2)C19—H19A0.9800
C4—H40.9500C19—H19B0.9800
C5—C61.403 (2)C19—H19C0.9800
C5—H50.9500C20—H20A0.9800
C6—C71.377 (2)C20—H20B0.9800
C6—H60.9500C20—H20C0.9800
C7—C81.393 (2)
C1—N1—C8109.44 (12)C12—C11—C10120.23 (12)
C1—N1—H1N125.7 (11)C16—C11—C10119.80 (13)
C8—N1—H1N124.7 (11)C13—C12—C11119.93 (12)
C13—O1—C18116.87 (11)C13—C12—H12120.0
C14—O2—C19116.02 (10)C11—C12—H12120.0
C15—O3—C20117.67 (11)O1—C13—C14115.30 (12)
N1—C1—C2110.19 (12)O1—C13—C12124.47 (12)
N1—C1—H1124.9C14—C13—C12120.23 (13)
C2—C1—H1124.9O2—C14—C13122.10 (12)
C1—C2—C3105.88 (12)O2—C14—C15118.06 (12)
C1—C2—C9127.93 (13)C13—C14—C15119.76 (12)
C3—C2—C9126.16 (12)O3—C15—C16124.87 (13)
C4—C3—C8118.85 (13)O3—C15—C14114.77 (11)
C4—C3—C2134.18 (13)C16—C15—C14120.36 (12)
C8—C3—C2106.90 (12)C15—C16—C11119.73 (13)
C5—C4—C3118.52 (13)C15—C16—H16120.1
C5—C4—H4120.7C11—C16—H16120.1
C3—C4—H4120.7N2—C17—C10177.68 (14)
C4—C5—C6121.61 (13)O1—C18—H18A109.5
C4—C5—H5119.2O1—C18—H18B109.5
C6—C5—H5119.2H18A—C18—H18B109.5
C7—C6—C5121.15 (14)O1—C18—H18C109.5
C7—C6—H6119.4H18A—C18—H18C109.5
C5—C6—H6119.4H18B—C18—H18C109.5
C6—C7—C8117.25 (13)O2—C19—H19A109.5
C6—C7—H7121.4O2—C19—H19B109.5
C8—C7—H7121.4H19A—C19—H19B109.5
N1—C8—C7129.82 (13)O2—C19—H19C109.5
N1—C8—C3107.59 (12)H19A—C19—H19C109.5
C7—C8—C3122.59 (13)H19B—C19—H19C109.5
C10—C9—C2127.70 (13)O3—C20—H20A109.5
C10—C9—H9116.1O3—C20—H20B109.5
C2—C9—H9116.1H20A—C20—H20B109.5
C9—C10—C17119.30 (12)O3—C20—H20C109.5
C9—C10—C11123.60 (12)H20A—C20—H20C109.5
C17—C10—C11117.04 (12)H20B—C20—H20C109.5
C12—C11—C16119.97 (12)
C8—N1—C1—C20.67 (16)C9—C10—C11—C1623.89 (19)
N1—C1—C2—C3−0.36 (15)C17—C10—C11—C16−158.85 (12)
N1—C1—C2—C9177.84 (13)C16—C11—C12—C13−0.58 (18)
C1—C2—C3—C4−176.92 (15)C10—C11—C12—C13179.70 (11)
C9—C2—C3—C44.8 (2)C18—O1—C13—C14−163.42 (12)
C1—C2—C3—C8−0.07 (15)C18—O1—C13—C1216.64 (18)
C9—C2—C3—C8−178.31 (13)C11—C12—C13—O1−179.74 (11)
C8—C3—C4—C51.0 (2)C11—C12—C13—C140.32 (19)
C2—C3—C4—C5177.59 (14)C19—O2—C14—C1362.90 (16)
C3—C4—C5—C60.6 (2)C19—O2—C14—C15−120.39 (13)
C4—C5—C6—C7−1.5 (2)O1—C13—C14—O2−3.80 (18)
C5—C6—C7—C80.7 (2)C12—C13—C14—O2176.14 (11)
C1—N1—C8—C7179.00 (14)O1—C13—C14—C15179.55 (11)
C1—N1—C8—C3−0.69 (15)C12—C13—C14—C15−0.51 (19)
C6—C7—C8—N1−178.69 (14)C20—O3—C15—C161.54 (18)
C6—C7—C8—C31.0 (2)C20—O3—C15—C14−177.79 (11)
C4—C3—C8—N1177.88 (12)O2—C14—C15—O33.54 (17)
C2—C3—C8—N10.46 (15)C13—C14—C15—O3−179.67 (11)
C4—C3—C8—C7−1.8 (2)O2—C14—C15—C16−175.82 (11)
C2—C3—C8—C7−179.26 (13)C13—C14—C15—C160.97 (19)
C1—C2—C9—C1031.1 (2)O3—C15—C16—C11179.48 (11)
C3—C2—C9—C10−151.04 (14)C14—C15—C16—C11−1.22 (18)
C2—C9—C10—C179.7 (2)C12—C11—C16—C151.03 (18)
C2—C9—C10—C11−173.07 (12)C10—C11—C16—C15−179.25 (11)
C9—C10—C11—C12−156.39 (13)C9—C10—C17—N2103 (4)
C17—C10—C11—C1220.87 (17)C11—C10—C17—N2−74 (4)
D—H···AD—HH···AD···AD—H···A
N1—H1N···O2i0.851 (18)2.075 (18)2.8635 (15)153.8 (16)
N1—H1N···O3i0.851 (18)2.301 (17)2.9476 (15)133.0 (15)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N⋯O2i0.851 (18)2.075 (18)2.8635 (15)153.8 (16)
N1—H1N⋯O3i0.851 (18)2.301 (17)2.9476 (15)133.0 (15)

Symmetry code: (i) .

  5 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.  (Z)-4-[3-(2,5-Dioxoimidazolidin-4-ylidenemeth-yl)-1H-indol-1-ylmeth-yl]benzonitrile.

Authors:  Narsimha Reddy Penthala; Thirupathi Reddy Yerram Reddy; Sean Parkin; Peter A Crooks
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-10-18

3.  Novel combretastatin analogues effective against murine solid tumors: design and structure-activity relationships.

Authors:  K Ohsumi; R Nakagawa; Y Fukuda; T Hatanaka; Y Morinaga; Y Nihei; K Ohishi; Y Suga; Y Akiyama; T Tsuji
Journal:  J Med Chem       Date:  1998-07-30       Impact factor: 7.446

4.  Synthesis, X-ray crystal structures, stabilities, and in vitro cytotoxic activities of new heteroarylacrylonitriles.

Authors:  Franciszek Saczewski; Przemyslaw Reszka; Maria Gdaniec; Renate Grünert; Patrick J Bednarski
Journal:  J Med Chem       Date:  2004-06-17       Impact factor: 7.446

5.  (Z)-3-(Benzo[b]thiophen-2-yl)-2-(3,4,5-trimethoxyphenyl)acrylonitrile and (E)-3-(benzo[b]thiophen-2-yl)-2-(3,4-dimethoxyphenyl)acrylonitrile. [corrected].

Authors:  Vijayakumar N Sonar; Sean Parkin; Peter A Crooks
Journal:  Acta Crystallogr C       Date:  2007-11-24       Impact factor: 1.172

  5 in total
  1 in total

1.  Synthesis, anticancer activity and molecular docking studies on a series of heterocyclic trans-cyanocombretastatin analogues as antitubulin agents.

Authors:  Narsimha Reddy Penthala; Hongliang Zong; Amit Ketkar; Nikhil Reddy Madadi; Venumadav Janganati; Robert L Eoff; Monica L Guzman; Peter A Crooks
Journal:  Eur J Med Chem       Date:  2014-12-29       Impact factor: 6.514

  1 in total

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