Literature DB >> 23424505

Dimethyl 2-[(acridin-9-yl)methyl-idene]malonate.

Sinara M V de Almeida1, Ivan R Pitta, Maria do Carmo A de Lima, Francisco J B Mendonça Junior, Carlos A de Simone.   

Abstract

In the title compound, C(19)H(15)NO(4), the acridine system is essentially planar (r.m.s. deviation = 0.015 Å). The crystal packing exhibits π-π inter-actions between pairs of centrosymmetric mol-ecules, one of them between the central heterocyclic rings and others between the outer benzene rings of the acridine systems, with centroid-centroid distances of 3.692 (1) and 3.754 (1) Å, respectively. These pairs are further linked by additional π-π inter-actions along the a-axis direction through one of the two outer benzene ring of neighboring mol-ecules, with a centroid-centroid distance of 3.642 (2) Å.

Entities:  

Year:  2013        PMID: 23424505      PMCID: PMC3569759          DOI: 10.1107/S1600536813000500

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


Related literature

For background to acridines, see: Kumar et al. (2012 ▶). For the biological activity of acridine derivatives, see: Pigatto et al. (2011 ▶); Das et al. (2011 ▶); Kumar et al. (2012 ▶). For the synthesis of acridines, see: Tomar et al. (2010 ▶). For related structures, see: Buckleton & Waters (1984 ▶).

Experimental

Crystal data

C19H15NO4 M = 321.32 Triclinic, a = 8.3022 (2) Å b = 9.0208 (3) Å c = 12.0334 (4) Å α = 96.468 (2)° β = 93.652 (2)° γ = 117.422 (2)° V = 787.98 (4) Å3 Z = 2 Mo Kα radiation μ = 0.10 mm−1 T = 295 K 0.32 × 0.28 × 0.22 mm

Data collection

Nonius KappaCCD diffractometer 10674 measured reflections 3626 independent reflections 2805 reflections with I > 2σ(I) R int = 0.050

Refinement

R[F 2 > 2σ(F 2)] = 0.052 wR(F 2) = 0.148 S = 1.05 3626 reflections 218 parameters H-atom parameters constrained Δρmax = 0.26 e Å−3 Δρmin = −0.24 e Å−3 Data collection: COLLECT (Nonius, 1997 ▶); cell refinement: SCALEPACK (Otwinowski & Minor, 1997 ▶); data reduction: DENZO (Otwinowski & Minor, 1997 ▶) and SCALEPACK; 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 ▶); software used to prepare material for publication: WinGX (Farrugia, 2012 ▶). Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536813000500/lr2094sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813000500/lr2094Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813000500/lr2094Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H15NO4Z = 2
Mr = 321.32F(000) = 336
Triclinic, P1Dx = 1.354 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 8.3022 (2) ÅCell parameters from 6418 reflections
b = 9.0208 (3) Åθ = 2.5–27.5°
c = 12.0334 (4) ŵ = 0.10 mm1
α = 96.468 (2)°T = 295 K
β = 93.652 (2)°Prism, yellow
γ = 117.422 (2)°0.32 × 0.28 × 0.22 mm
V = 787.98 (4) Å3
Nonius KappaCCD diffractometer2805 reflections with I > 2σ(I)
Radiation source: Enraf Nonius FR590Rint = 0.050
Horizonally mounted graphite crystal monochromatorθmax = 27.5°, θmin = 2.6°
Detector resolution: 9 pixels mm-1h = −10→10
CCD rotation images,thick slices scansk = −11→10
10674 measured reflectionsl = −15→15
3626 independent reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.052H-atom parameters constrained
wR(F2) = 0.148w = 1/[σ2(Fo2) + (0.0817P)2 + 0.1056P] where P = (Fo2 + 2Fc2)/3
S = 1.05(Δ/σ)max < 0.001
3626 reflectionsΔρmax = 0.26 e Å3
218 parametersΔρmin = −0.24 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: 0.168 (19)
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
C20.18856 (17)−0.04107 (16)0.05238 (10)0.0416 (3)
C80.27051 (18)0.29435 (17)0.10755 (11)0.0439 (3)
C10.12960 (17)0.00751 (16)0.15015 (10)0.0409 (3)
C160.25132 (19)−0.00447 (18)0.38809 (12)0.0475 (3)
N10.32779 (16)0.24918 (14)0.01345 (9)0.0477 (3)
C140.02296 (18)−0.12607 (17)0.21649 (11)0.0455 (3)
H14−0.0906−0.21110.18150.055*
O4−0.19557 (15)−0.38893 (13)0.31911 (9)0.0630 (3)
C130.16978 (17)0.17719 (16)0.17992 (10)0.0412 (3)
C120.11370 (19)0.24024 (18)0.27615 (11)0.0484 (3)
H120.04640.16650.32360.058*
C110.1572 (2)0.4058 (2)0.29913 (12)0.0544 (4)
H110.12020.44430.36250.065*
C60.3548 (2)0.0411 (2)−0.11100 (12)0.0549 (4)
H60.41940.1228−0.15460.066*
C90.3139 (2)0.46746 (18)0.13512 (13)0.0538 (4)
H90.38080.54430.08920.065*
O20.22592 (15)0.05138 (14)0.48843 (9)0.0593 (3)
O10.39648 (15)0.04600 (18)0.35414 (10)0.0745 (4)
O30.02856 (18)−0.31220 (15)0.46082 (10)0.0716 (4)
C70.28933 (18)0.08723 (17)−0.01311 (11)0.0445 (3)
C18−0.0314 (2)−0.28576 (17)0.37642 (11)0.0488 (3)
C50.3247 (2)−0.1193 (2)−0.14145 (14)0.0618 (4)
H50.3696−0.1466−0.20510.074*
C30.1592 (2)−0.20857 (18)0.01646 (12)0.0508 (3)
H30.0939−0.29350.05770.061*
C150.07425 (18)−0.13590 (17)0.32134 (11)0.0452 (3)
C100.2585 (2)0.52130 (19)0.22792 (13)0.0578 (4)
H100.28710.63450.24490.069*
C40.2252 (2)−0.2462 (2)−0.07701 (14)0.0588 (4)
H40.2048−0.3563−0.09890.071*
C19−0.3052 (3)−0.5404 (2)0.36533 (18)0.0765 (5)
H19A−0.4202−0.60620.31790.115*
H19B−0.3267−0.50950.43980.115*
H19C−0.2415−0.60590.36900.115*
C170.3884 (3)0.1685 (3)0.56385 (16)0.0767 (5)
H17A0.35450.20060.63380.115*
H17B0.45570.26720.53020.115*
H17C0.46340.11560.57790.115*
U11U22U33U12U13U23
C20.0385 (6)0.0446 (7)0.0367 (6)0.0149 (5)0.0014 (5)0.0111 (5)
C80.0422 (7)0.0438 (7)0.0379 (6)0.0126 (5)0.0030 (5)0.0124 (5)
C10.0387 (6)0.0446 (7)0.0350 (6)0.0143 (5)0.0027 (5)0.0143 (5)
C160.0493 (7)0.0517 (7)0.0466 (7)0.0249 (6)0.0081 (6)0.0219 (6)
N10.0484 (6)0.0451 (6)0.0397 (6)0.0120 (5)0.0080 (5)0.0136 (5)
C140.0465 (7)0.0429 (7)0.0428 (7)0.0157 (5)0.0075 (5)0.0136 (5)
O40.0636 (7)0.0495 (6)0.0614 (7)0.0110 (5)0.0127 (5)0.0236 (5)
C130.0395 (6)0.0448 (7)0.0348 (6)0.0153 (5)0.0023 (5)0.0117 (5)
C120.0506 (7)0.0535 (8)0.0411 (7)0.0230 (6)0.0081 (6)0.0134 (6)
C110.0619 (9)0.0575 (9)0.0440 (7)0.0291 (7)0.0051 (6)0.0058 (6)
C60.0510 (8)0.0602 (9)0.0419 (7)0.0153 (6)0.0115 (6)0.0105 (6)
C90.0574 (8)0.0425 (7)0.0497 (8)0.0127 (6)0.0043 (6)0.0139 (6)
O20.0593 (6)0.0619 (7)0.0536 (6)0.0279 (5)0.0027 (5)0.0030 (5)
O10.0492 (6)0.1023 (10)0.0627 (7)0.0255 (6)0.0115 (5)0.0222 (6)
O30.0931 (9)0.0618 (7)0.0579 (7)0.0302 (6)0.0085 (6)0.0315 (5)
C70.0399 (6)0.0491 (7)0.0366 (6)0.0137 (5)0.0038 (5)0.0109 (5)
C180.0622 (8)0.0441 (7)0.0440 (7)0.0252 (6)0.0168 (6)0.0155 (6)
C50.0587 (9)0.0693 (10)0.0482 (8)0.0241 (8)0.0113 (7)−0.0008 (7)
C30.0500 (8)0.0477 (7)0.0493 (8)0.0180 (6)0.0048 (6)0.0107 (6)
C150.0502 (7)0.0455 (7)0.0425 (7)0.0220 (6)0.0119 (6)0.0165 (5)
C100.0661 (9)0.0442 (8)0.0545 (8)0.0204 (7)0.0005 (7)0.0048 (6)
C40.0603 (9)0.0542 (8)0.0561 (9)0.0246 (7)0.0041 (7)0.0001 (7)
C190.0826 (12)0.0459 (9)0.0854 (13)0.0120 (8)0.0267 (10)0.0254 (8)
C170.0776 (12)0.0741 (11)0.0667 (11)0.0323 (9)−0.0107 (9)−0.0063 (9)
C2—C11.4037 (18)C6—C51.351 (2)
C2—C31.425 (2)C6—C71.427 (2)
C2—C71.4345 (17)C6—H60.9300
C8—N11.3482 (18)C9—C101.358 (2)
C8—C91.424 (2)C9—H90.9300
C8—C131.4356 (17)O2—C171.441 (2)
C1—C131.4049 (19)O3—C181.1981 (17)
C1—C141.4823 (16)C18—C151.4899 (18)
C16—O11.1940 (17)C5—C41.415 (2)
C16—O21.3226 (18)C5—H50.9300
C16—C151.497 (2)C3—C41.358 (2)
N1—C71.3381 (18)C3—H30.9300
C14—C151.3315 (18)C10—H100.9300
C14—H140.9300C4—H40.9300
O4—C181.3293 (19)C19—H19A0.9600
O4—C191.4474 (18)C19—H19B0.9600
C13—C121.4301 (19)C19—H19C0.9600
C12—C111.355 (2)C17—H17A0.9600
C12—H120.9300C17—H17B0.9600
C11—C101.419 (2)C17—H17C0.9600
C11—H110.9300
C1—C2—C3123.94 (12)N1—C7—C6117.91 (12)
C1—C2—C7117.80 (12)N1—C7—C2123.52 (12)
C3—C2—C7118.24 (12)C6—C7—C2118.55 (13)
N1—C8—C9117.44 (12)O3—C18—O4124.20 (13)
N1—C8—C13123.21 (12)O3—C18—C15123.33 (14)
C9—C8—C13119.35 (12)O4—C18—C15112.42 (12)
C2—C1—C13119.54 (11)C6—C5—C4120.40 (14)
C2—C1—C14117.57 (12)C6—C5—H5119.8
C13—C1—C14122.87 (12)C4—C5—H5119.8
O1—C16—O2124.32 (15)C4—C3—C2121.06 (14)
O1—C16—C15124.28 (14)C4—C3—H3119.5
O2—C16—C15111.38 (11)C2—C3—H3119.5
C7—N1—C8118.15 (11)C14—C15—C18122.41 (13)
C15—C14—C1126.22 (12)C14—C15—C16122.17 (11)
C15—C14—H14116.9C18—C15—C16115.18 (11)
C1—C14—H14116.9C9—C10—C11120.38 (14)
C18—O4—C19115.93 (13)C9—C10—H10119.8
C1—C13—C12124.38 (12)C11—C10—H10119.8
C1—C13—C8117.77 (12)C3—C4—C5120.61 (15)
C12—C13—C8117.83 (12)C3—C4—H4119.7
C11—C12—C13120.94 (13)C5—C4—H4119.7
C11—C12—H12119.5O4—C19—H19A109.5
C13—C12—H12119.5O4—C19—H19B109.5
C12—C11—C10120.94 (14)H19A—C19—H19B109.5
C12—C11—H11119.5O4—C19—H19C109.5
C10—C11—H11119.5H19A—C19—H19C109.5
C5—C6—C7121.14 (14)H19B—C19—H19C109.5
C5—C6—H6119.4O2—C17—H17A109.5
C7—C6—H6119.4O2—C17—H17B109.5
C10—C9—C8120.55 (13)H17A—C17—H17B109.5
C10—C9—H9119.7O2—C17—H17C109.5
C8—C9—H9119.7H17A—C17—H17C109.5
C16—O2—C17116.36 (13)H17B—C17—H17C109.5
  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.  Synthesis of new chalcone derivatives containing acridinyl moiety with potential antimalarial activity.

Authors:  V Tomar; G Bhattacharjee; S Rajakumar; Kumkum Srivastava; S K Puri
Journal:  Eur J Med Chem       Date:  2009-11-20       Impact factor: 6.514

3.  Metabolism evaluation of the anticancer candidate AC04 by biomimetic oxidative model and rat liver microsomes.

Authors:  Maiara Cássia Pigatto; Maria do Carmo Alves de Lima; Suely Lins Galdino; Ivan da Rocha Pitta; Ricardo Vessecchi; Marilda das Dores Assis; Joicy Santamalvina dos Santos; Teresa Dalla Costa; Norberto Peporine Lopes
Journal:  Eur J Med Chem       Date:  2011-06-28       Impact factor: 6.514

4.  Quinacrine and 9-amino acridine inhibit B-Z and B-H(l) form DNA conformational transitions.

Authors:  Suman Das; Suprabhat Kundu; Gopinatha Suresh Kumar
Journal:  DNA Cell Biol       Date:  2011-03-13       Impact factor: 3.311

Review 5.  Acridine: a versatile heterocyclic nucleus.

Authors:  Ramesh Kumar; Mandeep Kaur; Meena Kumari
Journal:  Acta Pol Pharm       Date:  2012 Jan-Feb       Impact factor: 0.330

  5 in total

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