Literature DB >> 24427110

2-(5-Meth-oxy-2-methyl-1H-indol-3-yl)-N'-[(1E,2E)-3-phenyl-prop-2-en-1-yl-idene]acetohydrazide.

Mehmet Akkurt1, Joel T Mague2, Shaaban K Mohamed3, Mustafa R Albayati4, Mahmoud A A El-Remaily5.   

Abstract

The title compound, C21H21N3O2, adopts a J-shaped conformation which appears to be at least partially directed by a weak intra-molecular C-H⋯N hydrogen bond. In the crystal, mol-ecules are linked by N-H⋯O hydrogen bonds into R 2 (2)(8) and R 2 (2)(14) cyclic dimers, which form a chain running parallel to the b axis.

Entities:  

Year:  2013        PMID: 24427110      PMCID: PMC3884474          DOI: 10.1107/S1600536813023805

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


Related literature

For general background to side-effect toxicity of non-steroidal anti-inflammatory drugs (NSAIDs), see: Agrawal et al. (2010 ▶); Champion et al. (1997 ▶); Allan & Fletcher (1990 ▶). For reduction of GI toxicity attributed to NSAIDs, see: Halen et al. (2009 ▶); Schoen & Vender (1989 ▶); Mitchell & Warner (1999 ▶). For hydrogen-bond motifs, see: Etter et al. (1990 ▶).

Experimental

Crystal data

C21H21N3O2 M = 347.41 Triclinic, a = 8.2786 (9) Å b = 10.1194 (11) Å c = 11.7739 (13) Å α = 93.001 (2)° β = 108.993 (2)° γ = 105.578 (2)° V = 887.76 (17) Å3 Z = 2 Mo Kα radiation μ = 0.09 mm−1 T = 150 K 0.26 × 0.13 × 0.08 mm

Data collection

Bruker SMART APEX CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2013 ▶) T min = 0.78, T max = 0.99 16303 measured reflections 4574 independent reflections 3675 reflections with I > 2σ(I) R int = 0.041

Refinement

R[F 2 > 2σ(F 2)] = 0.045 wR(F 2) = 0.126 S = 1.08 4574 reflections 245 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.36 e Å−3 Δρmin = −0.25 e Å−3 Data collection: APEX2 (Bruker, 2013 ▶); cell refinement: SAINT (Bruker, 2013 ▶); 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 for Windows (Farrugia, 2012 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: WinGX (Farrugia, 2012 ▶) and PLATON. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536813023805/qm2100sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813023805/qm2100Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813023805/qm2100Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C21H21N3O2Z = 2
Mr = 347.41F(000) = 368
Triclinic, P1Dx = 1.300 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 8.2786 (9) ÅCell parameters from 8428 reflections
b = 10.1194 (11) Åθ = 2.6–29.1°
c = 11.7739 (13) ŵ = 0.09 mm1
α = 93.001 (2)°T = 150 K
β = 108.993 (2)°Tablet, clear colourless
γ = 105.578 (2)°0.26 × 0.13 × 0.08 mm
V = 887.76 (17) Å3
Bruker SMART APEX CCD diffractometer4574 independent reflections
Radiation source: fine-focus sealed tube3675 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.041
Detector resolution: 8.3660 pixels mm-1θmax = 29.1°, θmin = 1.9°
φ and ω scansh = −11→10
Absorption correction: multi-scan (SADABS; Bruker, 2013)k = −13→13
Tmin = 0.78, Tmax = 0.99l = −16→15
16303 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)] = 0.045H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.126 W = 1/[Σ2(FO2) + (0.0677P)2 + 0.0983P] WHERE P = (FO2 + 2FC2)/3
S = 1.08(Δ/σ)max = 0.001
4574 reflectionsΔρmax = 0.36 e Å3
245 parametersΔρmin = −0.25 e Å3
0 restraints
Experimental. The diffraction data were obtained from 3 sets of 400 frames, each of width 0.5° in ω, colllected at φ = 0.00, 90.00 and 180.00° and 2 sets of 800 frames, each of width 0.45° in φ, collected at ω = -30.00 and 210.00°. The scan time was 15 sec/frame.
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 on F2 for ALL reflections except those flagged by the user for potential systematic errors. Weighted R-factors wR and all goodnesses of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The observed criterion of F2 > σ(F2) is used only for calculating -R-factor-obs 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
O10.28193 (13)0.03509 (10)0.57833 (8)0.0383 (3)
O21.01220 (10)0.33474 (8)1.05582 (8)0.0235 (3)
N10.76159 (13)−0.14643 (9)0.92901 (9)0.0233 (3)
N20.76767 (12)0.39782 (9)0.96609 (9)0.0198 (3)
N30.58483 (12)0.37175 (9)0.92778 (9)0.0213 (3)
C10.1780 (2)−0.04316 (16)0.46126 (12)0.0406 (4)
C20.40353 (16)−0.01850 (12)0.65687 (11)0.0261 (3)
C30.44402 (17)−0.13776 (12)0.62313 (11)0.0289 (3)
C40.56565 (16)−0.18727 (11)0.70752 (11)0.0264 (3)
C50.64546 (14)−0.11740 (10)0.82602 (11)0.0210 (3)
C60.61147 (14)0.00623 (10)0.85962 (10)0.0190 (3)
C70.48756 (14)0.05444 (11)0.77385 (10)0.0216 (3)
C80.92662 (16)−0.04883 (12)1.14821 (11)0.0266 (3)
C90.80675 (14)−0.04222 (11)1.02468 (11)0.0212 (3)
C100.71796 (14)0.05319 (10)0.98586 (10)0.0190 (3)
C110.73269 (15)0.18427 (10)1.06001 (10)0.0203 (3)
C120.84755 (14)0.31009 (10)1.02798 (10)0.0184 (3)
C130.52187 (15)0.45707 (11)0.86269 (10)0.0217 (3)
C140.33089 (15)0.43345 (11)0.81838 (11)0.0235 (3)
C150.24928 (15)0.51098 (12)0.74611 (11)0.0245 (3)
C160.05663 (15)0.49356 (11)0.70035 (10)0.0223 (3)
C17−0.06817 (16)0.38488 (12)0.72362 (11)0.0257 (3)
C18−0.24894 (16)0.37336 (13)0.68079 (11)0.0289 (3)
C19−0.30851 (17)0.47052 (15)0.61408 (12)0.0342 (4)
C20−0.18776 (18)0.57806 (15)0.58911 (12)0.0350 (4)
C21−0.00671 (17)0.58889 (13)0.63135 (11)0.0291 (3)
H10.827 (2)−0.2041 (17)0.9322 (15)0.044 (4)*
H1A0.25730−0.051900.416900.0610*
H1B0.093700.004100.416400.0610*
H1C0.11120−0.135700.469600.0610*
H20.838 (2)0.4754 (16)0.9519 (13)0.032 (4)*
H30.38760−0.184800.541800.0350*
H40.59380−0.267400.684700.0320*
H70.461400.136000.795500.0260*
H8A0.982400.044901.195000.0400*
H8B1.02000−0.087801.141400.0400*
H8C0.85640−0.107901.189600.0400*
H11A0.786400.179501.147500.0240*
H11B0.611600.193401.044600.0240*
H130.599400.533800.844300.0260*
H140.258800.358100.842100.0280*
H150.323200.584700.722000.0290*
H17−0.028200.318000.769500.0310*
H18−0.332100.298800.697200.0350*
H19−0.432400.463300.585500.0410*
H20−0.228700.644500.543000.0420*
H210.075300.662400.612900.0350*
U11U22U33U12U13U23
O10.0382 (5)0.0443 (5)0.0258 (5)0.0207 (4)−0.0034 (4)0.0015 (4)
O20.0174 (4)0.0182 (4)0.0346 (5)0.0081 (3)0.0066 (3)0.0048 (3)
N10.0215 (5)0.0171 (4)0.0333 (5)0.0093 (4)0.0093 (4)0.0057 (4)
N20.0159 (4)0.0161 (4)0.0280 (5)0.0064 (3)0.0072 (4)0.0047 (4)
N30.0161 (4)0.0197 (4)0.0277 (5)0.0069 (3)0.0064 (4)0.0016 (4)
C10.0359 (8)0.0526 (8)0.0244 (7)0.0121 (6)0.0006 (6)0.0028 (6)
C20.0228 (6)0.0271 (5)0.0261 (6)0.0082 (4)0.0052 (5)0.0048 (5)
C30.0302 (6)0.0265 (6)0.0257 (6)0.0048 (5)0.0083 (5)−0.0029 (5)
C40.0277 (6)0.0190 (5)0.0338 (7)0.0063 (4)0.0138 (5)0.0002 (4)
C50.0181 (5)0.0161 (5)0.0297 (6)0.0054 (4)0.0095 (4)0.0040 (4)
C60.0162 (5)0.0162 (4)0.0252 (6)0.0045 (4)0.0084 (4)0.0034 (4)
C70.0201 (5)0.0191 (5)0.0264 (6)0.0074 (4)0.0078 (5)0.0041 (4)
C80.0227 (6)0.0250 (5)0.0329 (6)0.0098 (4)0.0076 (5)0.0126 (5)
C90.0174 (5)0.0180 (5)0.0285 (6)0.0057 (4)0.0075 (4)0.0071 (4)
C100.0165 (5)0.0163 (4)0.0244 (5)0.0054 (4)0.0068 (4)0.0048 (4)
C110.0210 (5)0.0183 (5)0.0227 (5)0.0075 (4)0.0076 (4)0.0044 (4)
C120.0190 (5)0.0159 (4)0.0206 (5)0.0075 (4)0.0059 (4)0.0004 (4)
C130.0205 (5)0.0191 (5)0.0265 (6)0.0085 (4)0.0076 (5)0.0024 (4)
C140.0199 (5)0.0220 (5)0.0278 (6)0.0080 (4)0.0065 (5)0.0021 (4)
C150.0204 (5)0.0242 (5)0.0301 (6)0.0088 (4)0.0084 (5)0.0059 (4)
C160.0212 (5)0.0248 (5)0.0223 (5)0.0115 (4)0.0059 (4)0.0019 (4)
C170.0239 (6)0.0260 (5)0.0281 (6)0.0116 (4)0.0071 (5)0.0043 (5)
C180.0230 (6)0.0335 (6)0.0282 (6)0.0074 (5)0.0082 (5)0.0003 (5)
C190.0224 (6)0.0487 (8)0.0317 (7)0.0172 (5)0.0049 (5)0.0051 (6)
C200.0320 (7)0.0429 (7)0.0341 (7)0.0226 (6)0.0066 (6)0.0131 (6)
C210.0272 (6)0.0319 (6)0.0307 (6)0.0136 (5)0.0089 (5)0.0095 (5)
O1—C11.4195 (17)C16—C171.3991 (17)
O1—C21.3793 (16)C17—C181.384 (2)
O2—C121.2432 (15)C18—C191.3842 (19)
N1—C51.3824 (16)C19—C201.382 (2)
N1—C91.3822 (15)C20—C211.388 (2)
N2—N31.3758 (15)C1—H1A0.9800
N2—C121.3512 (15)C1—H1B0.9800
N3—C131.2866 (15)C1—H1C0.9800
N1—H10.891 (18)C3—H30.9500
N2—H20.903 (16)C4—H40.9500
C2—C71.3856 (16)C7—H70.9500
C2—C31.4073 (18)C8—H8A0.9800
C3—C41.3871 (18)C8—H8B0.9800
C4—C51.3888 (17)C8—H8C0.9800
C5—C61.4179 (15)C11—H11A0.9900
C6—C101.4354 (16)C11—H11B0.9900
C6—C71.3986 (16)C13—H130.9500
C8—C91.4869 (17)C14—H140.9500
C9—C101.3748 (16)C15—H150.9500
C10—C111.5030 (15)C17—H170.9500
C11—C121.5169 (15)C18—H180.9500
C13—C141.4409 (19)C19—H190.9500
C14—C151.3328 (17)C20—H200.9500
C15—C161.4645 (19)C21—H210.9500
C16—C211.3936 (17)
C1—O1—C2117.79 (11)C16—C21—C20121.01 (13)
C5—N1—C9109.03 (9)O1—C1—H1A109.00
N3—N2—C12121.25 (9)O1—C1—H1B109.00
N2—N3—C13116.02 (10)O1—C1—H1C109.00
C9—N1—H1121.1 (11)H1A—C1—H1B109.00
C5—N1—H1127.1 (11)H1A—C1—H1C109.00
N3—N2—H2120.7 (11)H1B—C1—H1C109.00
C12—N2—H2118.1 (11)C2—C3—H3120.00
O1—C2—C3123.67 (11)C4—C3—H3120.00
O1—C2—C7115.35 (11)C3—C4—H4121.00
C3—C2—C7120.98 (12)C5—C4—H4121.00
C2—C3—C4120.58 (11)C2—C7—H7121.00
C3—C4—C5118.66 (11)C6—C7—H7120.00
C4—C5—C6121.15 (11)C9—C8—H8A109.00
N1—C5—C6107.51 (10)C9—C8—H8B109.00
N1—C5—C4131.34 (10)C9—C8—H8C109.00
C5—C6—C10106.84 (10)H8A—C8—H8B109.00
C7—C6—C10133.62 (10)H8A—C8—H8C109.00
C5—C6—C7119.50 (10)H8B—C8—H8C109.00
C2—C7—C6119.01 (11)C10—C11—H11A109.00
N1—C9—C8120.64 (10)C10—C11—H11B109.00
N1—C9—C10109.46 (10)C12—C11—H11A109.00
C8—C9—C10129.81 (11)C12—C11—H11B109.00
C6—C10—C11126.11 (10)H11A—C11—H11B108.00
C9—C10—C11126.77 (10)N3—C13—H13121.00
C6—C10—C9107.10 (10)C14—C13—H13121.00
C10—C11—C12110.76 (10)C13—C14—H14118.00
N2—C12—C11118.76 (11)C15—C14—H14118.00
O2—C12—N2118.88 (10)C14—C15—H15117.00
O2—C12—C11122.36 (10)C16—C15—H15117.00
N3—C13—C14118.40 (11)C16—C17—H17119.00
C13—C14—C15123.95 (11)C18—C17—H17120.00
C14—C15—C16126.31 (11)C17—C18—H18120.00
C15—C16—C17122.69 (11)C19—C18—H18120.00
C15—C16—C21119.29 (11)C18—C19—H19120.00
C17—C16—C21118.02 (12)C20—C19—H19120.00
C16—C17—C18121.03 (11)C19—C20—H20120.00
C17—C18—C19119.96 (12)C21—C20—H20120.00
C18—C19—C20119.99 (14)C16—C21—H21119.00
C19—C20—C21119.99 (13)C20—C21—H21120.00
C1—O1—C2—C37.23 (19)C5—C6—C10—C11176.91 (11)
C1—O1—C2—C7−173.47 (12)C7—C6—C10—C9176.05 (13)
C9—N1—C5—C4178.38 (13)C7—C6—C10—C11−5.5 (2)
C9—N1—C5—C6−2.32 (13)N1—C9—C10—C60.16 (14)
C5—N1—C9—C8178.24 (11)N1—C9—C10—C11−178.30 (11)
C5—N1—C9—C101.36 (14)C8—C9—C10—C6−176.35 (12)
C12—N2—N3—C13−175.51 (10)C8—C9—C10—C115.2 (2)
N3—N2—C12—O2176.74 (10)C6—C10—C11—C12−74.62 (15)
N3—N2—C12—C11−2.72 (16)C9—C10—C11—C12103.55 (13)
N2—N3—C13—C14179.00 (10)C10—C11—C12—O2−70.23 (14)
O1—C2—C3—C4−178.89 (12)C10—C11—C12—N2109.21 (12)
C7—C2—C3—C41.8 (2)N3—C13—C14—C15−177.08 (12)
O1—C2—C7—C6179.33 (11)C13—C14—C15—C16−178.72 (11)
C3—C2—C7—C6−1.35 (19)C14—C15—C16—C17−3.5 (2)
C2—C3—C4—C50.5 (2)C14—C15—C16—C21176.09 (12)
C3—C4—C5—N1175.97 (13)C15—C16—C17—C18178.73 (11)
C3—C4—C5—C6−3.25 (19)C21—C16—C17—C18−0.85 (18)
N1—C5—C6—C7−175.64 (11)C15—C16—C21—C20−178.26 (12)
N1—C5—C6—C102.37 (13)C17—C16—C21—C201.33 (18)
C4—C5—C6—C73.75 (18)C16—C17—C18—C19−0.17 (19)
C4—C5—C6—C10−178.25 (11)C17—C18—C19—C200.7 (2)
C5—C6—C7—C2−1.38 (17)C18—C19—C20—C21−0.3 (2)
C10—C6—C7—C2−178.75 (13)C19—C20—C21—C16−0.8 (2)
C5—C6—C10—C9−1.55 (13)
D—H···AD—HH···AD···AD—H···A
N1—H1···O2i0.891 (18)2.093 (18)2.9841 (14)178.1 (9)
N2—H2···O2ii0.903 (16)2.012 (16)2.9055 (13)170.0 (14)
C7—H7···N30.952.543.3609 (15)145
C11—H11B···N30.992.342.7996 (15)107
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1⋯O2i 0.891 (18)2.093 (18)2.9841 (14)178.1 (9)
N2—H2⋯O2ii 0.903 (16)2.012 (16)2.9055 (13)170.0 (14)
C7—H7⋯N30.952.543.3609 (15)145

Symmetry codes: (i) ; (ii) .

  6 in total

Review 1.  Mechanisms of nonsteroidal anti-inflammatory drug-induced gastric damage.

Authors:  R T Schoen; R J Vender
Journal:  Am J Med       Date:  1989-04       Impact factor: 4.965

2.  A short history of SHELX.

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

Review 3.  Prodrug designing of NSAIDs.

Authors:  Parmeshwari K Halen; Prashant R Murumkar; Rajani Giridhar; Mange Ram Yadav
Journal:  Mini Rev Med Chem       Date:  2009-01       Impact factor: 3.862

4.  Graph-set analysis of hydrogen-bond patterns in organic crystals.

Authors:  M C Etter; J C MacDonald; J Bernstein
Journal:  Acta Crystallogr B       Date:  1990-04-01

Review 5.  Cyclo-oxygenase-2: pharmacology, physiology, biochemistry and relevance to NSAID therapy.

Authors:  J A Mitchell; T D Warner
Journal:  Br J Pharmacol       Date:  1999-11       Impact factor: 8.739

6.  Structure validation in chemical crystallography.

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

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