Literature DB >> 21583157

5-[(3,4-Dimethoxy-benzyl)-aminomethyl-ene]-2,2-dimethyl-1,3-dioxane-4,6-dione.

Rui Li, Jian-You Shi, Zhen-Yu Ding, Yu-Quan Wei, Jian Ding.   

Abstract

The title compound, C(15)H(17)NO(6), is approximately planar, with dihedral angles of 3.11 (4) and 2.12 (4)° between the connecting n class="Chemical">amino-methyl-ene unit and the planar part of the dioxane ring, and between the dimethoxy-benzyl ring and the amino-methyl-ene group, respectively. The dioxane ring exhibits a half-boat conformation, in which the C atom between the dioxane O atoms is 0.5471 (8) Å out of the plane. The mol-ecule has an intra-molecular N-H⋯O hydrogen bond which may stabilize the planar conformation. In the crystal, weak inter-molecular C-H⋯O hydrogen-bonding contacts, result in the formation of sheets parallel to the ab plane.

Entities:  

Year:  2009        PMID: 21583157      PMCID: PMC2969602          DOI: 10.1107/S1600536809017413

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


Related literature

For the synthesis of related compounds, see: Cassis et al. (1985 ▶). For the synthesis of related anti­tumor precursors, see Ruchelman et al. (2003 ▶). For the structure of 5-(amino­n class="Chemical">methyl­ene)-2,2-dimethyl-1,3-dioxane-4,6-dione, see: da Silva et al. (2006 ▶). For Meldrum’s acid, see: Meldrum (1908 ▶).

Experimental

Crystal data

C15H17NO6 M = 307.30 Monoclinic, a = 6.270 (4) Å b = 12.486 (4) Å c = 19.529 (5) Å β = 106.31 (3)° V = 1467.3 (11) Å3 Z = 4 Mo Kα radiation μ = 0.11 mm−1 T = 292 K 0.44 × 0.38 × 0.18 mm

Data collection

Enraf–Nonius n class="Gene">CAD-4 diffractometer Absorption correction: none 2852 measured reflections 2657 independent reflections 1675 reflections with I > 2σ(I) R int = 0.008 3 standard reflections every 150 reflections intensity decay: 1.8%

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.160 S = 1.03 2657 reflections 207 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.21 e Å−3 Δρmin = −0.26 e Å−3 Data collection: DIFRAC (Gabe & White, 1993 ▶); cell refinement: DIFRAC; data reduction: NRCVAX (Gabe et al., 1989 ▶); 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 class="Chemical">N (Spek, 2009 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809017413/si2171sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809017413/si2171Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C15H17NO6F(000) = 648
Mr = 307.30Dx = 1.391 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
a = 6.270 (4) ÅCell parameters from 29 reflections
b = 12.486 (4) Åθ = 4.4–7.7°
c = 19.529 (5) ŵ = 0.11 mm1
β = 106.31 (3)°T = 292 K
V = 1467.3 (11) Å3Block, yellow
Z = 40.44 × 0.38 × 0.18 mm
Enraf–Nonius CAD-4 diffractometerRint = 0.008
Radiation source: fine-focus sealed tubeθmax = 25.4°, θmin = 2.0°
graphiteh = −7→7
ω/2θ scansk = −15→0
2852 measured reflectionsl = −23→8
2657 independent reflections3 standard reflections every 150 reflections
1675 reflections with I > 2σ(I) intensity decay: 1.8%
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: mixed
wR(F2) = 0.160H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0954P)2] where P = (Fo2 + 2Fc2)/3
2657 reflections(Δ/σ)max < 0.001
207 parametersΔρmax = 0.21 e Å3
0 restraintsΔρmin = −0.26 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
O10.0589 (3)0.78796 (12)0.14968 (8)0.0456 (5)
O2−0.0296 (3)0.60397 (13)0.13307 (9)0.0489 (5)
O30.3798 (3)0.84242 (14)0.22145 (9)0.0522 (5)
O40.2084 (3)0.47579 (14)0.18214 (10)0.0623 (6)
O51.4467 (3)0.80170 (14)0.40934 (10)0.0544 (5)
O61.5852 (3)0.60587 (14)0.42558 (9)0.0503 (5)
N10.7059 (3)0.69339 (19)0.27469 (10)0.0403 (5)
H1N0.677 (4)0.761 (2)0.2721 (13)0.046 (8)*
C1−0.2969 (4)0.7333 (2)0.08019 (14)0.0523 (7)
H1A−0.37970.67670.05130.078*
H1B−0.32420.79940.05400.078*
H1C−0.34270.74040.12290.078*
C20.0406 (5)0.7062 (3)0.03595 (15)0.0674 (9)
H2A0.19660.69030.05170.101*
H2B0.01870.77490.01310.101*
H2C−0.03430.65230.00270.101*
C3−0.0529 (4)0.70753 (19)0.09947 (12)0.0411 (6)
C40.2670 (4)0.7662 (2)0.19222 (12)0.0389 (6)
C50.3347 (4)0.65633 (19)0.20110 (11)0.0374 (6)
C60.1782 (4)0.5710 (2)0.17241 (13)0.0422 (6)
C70.5461 (4)0.6272 (2)0.24184 (12)0.0398 (6)
H70.57780.55440.24640.048*
C80.9280 (4)0.66471 (19)0.31291 (11)0.0374 (6)
C91.0729 (4)0.74811 (19)0.34299 (11)0.0388 (6)
H91.02190.81840.33840.047*
C101.2914 (4)0.72663 (18)0.37956 (11)0.0392 (6)
C111.3659 (4)0.61937 (18)0.38805 (11)0.0370 (6)
C121.2204 (4)0.5382 (2)0.35779 (12)0.0442 (6)
H121.26960.46760.36260.053*
C131.0014 (4)0.5605 (2)0.32015 (12)0.0445 (6)
H130.90500.50510.30000.053*
C141.3812 (5)0.9112 (2)0.39922 (15)0.0588 (8)
H14A1.33070.92660.34910.088*
H14B1.50560.95620.42120.088*
H14C1.26310.92450.42050.088*
C151.6708 (4)0.4995 (2)0.43247 (14)0.0535 (7)
H15A1.59730.45770.46030.080*
H15B1.82750.50120.45570.080*
H15C1.64510.46810.38600.080*
U11U22U33U12U13U23
O10.0390 (10)0.0379 (10)0.0492 (10)0.0012 (8)−0.0054 (8)−0.0002 (7)
O20.0380 (10)0.0398 (10)0.0585 (11)−0.0059 (8)−0.0036 (8)0.0011 (8)
O30.0468 (11)0.0371 (10)0.0602 (11)−0.0067 (8)−0.0054 (9)−0.0021 (8)
O40.0517 (12)0.0318 (11)0.0890 (14)−0.0007 (8)−0.0040 (10)0.0002 (9)
O50.0456 (11)0.0377 (10)0.0634 (11)−0.0014 (8)−0.0120 (8)−0.0020 (8)
O60.0388 (10)0.0459 (11)0.0550 (10)0.0053 (8)−0.0052 (8)−0.0005 (8)
N10.0345 (12)0.0390 (13)0.0417 (11)0.0005 (9)0.0012 (9)0.0041 (9)
C10.0384 (15)0.0603 (18)0.0493 (15)−0.0006 (13)−0.0025 (12)0.0020 (13)
C20.0541 (18)0.097 (2)0.0504 (15)−0.0023 (17)0.0130 (13)−0.0022 (16)
C30.0356 (13)0.0432 (14)0.0392 (12)−0.0032 (11)0.0017 (10)0.0001 (11)
C40.0371 (13)0.0408 (14)0.0357 (12)−0.0019 (11)0.0050 (10)0.0021 (10)
C50.0334 (13)0.0383 (13)0.0366 (12)−0.0023 (10)0.0034 (10)0.0010 (10)
C60.0338 (14)0.0417 (15)0.0471 (14)−0.0016 (11)0.0045 (11)−0.0025 (11)
C70.0364 (14)0.0424 (14)0.0382 (12)−0.0001 (11)0.0063 (11)0.0013 (10)
C80.0329 (13)0.0404 (14)0.0346 (12)0.0006 (11)0.0024 (9)0.0052 (10)
C90.0410 (14)0.0334 (13)0.0377 (12)0.0042 (11)0.0038 (10)0.0017 (10)
C100.0413 (14)0.0378 (14)0.0329 (11)−0.0028 (11)0.0011 (10)−0.0024 (10)
C110.0335 (13)0.0419 (14)0.0320 (11)0.0059 (11)0.0031 (10)0.0034 (10)
C120.0432 (15)0.0351 (14)0.0492 (14)0.0050 (11)0.0045 (11)0.0021 (11)
C130.0425 (15)0.0371 (14)0.0468 (14)−0.0042 (11)0.0011 (11)0.0043 (11)
C140.0604 (18)0.0389 (15)0.0644 (17)−0.0048 (13)−0.0030 (14)−0.0025 (13)
C150.0455 (16)0.0508 (16)0.0572 (15)0.0149 (13)0.0030 (12)0.0028 (13)
O1—C41.363 (3)C2—H2C0.9600
O1—C31.441 (3)C4—C51.432 (3)
O2—C61.376 (3)C5—C71.389 (3)
O2—C31.439 (3)C5—C61.450 (3)
O3—C41.227 (3)C7—H70.9300
O4—C61.211 (3)C8—C131.374 (4)
O5—C101.359 (3)C8—C91.398 (3)
O5—C141.425 (3)C9—C101.382 (3)
O6—C111.375 (3)C9—H90.9300
O6—C151.424 (3)C10—C111.413 (3)
N1—C71.318 (3)C11—C121.380 (3)
N1—C81.428 (3)C12—C131.392 (4)
N1—H1N0.86 (3)C12—H120.9300
C1—C31.504 (4)C13—H130.9300
C1—H1A0.9600C14—H14A0.9600
C1—H1B0.9600C14—H14B0.9600
C1—H1C0.9600C14—H14C0.9600
C2—C31.513 (4)C15—H15A0.9600
C2—H2A0.9600C15—H15B0.9600
C2—H2B0.9600C15—H15C0.9600
C4—O1—C3118.37 (18)N1—C7—C5126.0 (2)
C6—O2—C3118.82 (19)N1—C7—H7117.0
C10—O5—C14117.26 (19)C5—C7—H7117.0
C11—O6—C15117.28 (19)C13—C8—C9120.2 (2)
C7—N1—C8126.4 (2)C13—C8—N1122.7 (2)
C7—N1—H1N117.7 (17)C9—C8—N1117.1 (2)
C8—N1—H1N115.9 (17)C10—C9—C8120.4 (2)
C3—C1—H1A109.5C10—C9—H9119.8
C3—C1—H1B109.5C8—C9—H9119.8
H1A—C1—H1B109.5O5—C10—C9125.1 (2)
C3—C1—H1C109.5O5—C10—C11115.5 (2)
H1A—C1—H1C109.5C9—C10—C11119.5 (2)
H1B—C1—H1C109.5O6—C11—C12125.4 (2)
C3—C2—H2A109.5O6—C11—C10115.3 (2)
C3—C2—H2B109.5C12—C11—C10119.3 (2)
H2A—C2—H2B109.5C11—C12—C13121.0 (2)
C3—C2—H2C109.5C11—C12—H12119.5
H2A—C2—H2C109.5C13—C12—H12119.5
H2B—C2—H2C109.5C8—C13—C12119.7 (2)
O2—C3—O1110.38 (17)C8—C13—H13120.1
O2—C3—C1105.8 (2)C12—C13—H13120.1
O1—C3—C1106.7 (2)O5—C14—H14A109.5
O2—C3—C2110.5 (2)O5—C14—H14B109.5
O1—C3—C2109.8 (2)H14A—C14—H14B109.5
C1—C3—C2113.5 (2)O5—C14—H14C109.5
O3—C4—O1117.1 (2)H14A—C14—H14C109.5
O3—C4—C5125.1 (2)H14B—C14—H14C109.5
O1—C4—C5117.8 (2)O6—C15—H15A109.5
C7—C5—C4121.5 (2)O6—C15—H15B109.5
C7—C5—C6117.6 (2)H15A—C15—H15B109.5
C4—C5—C6120.7 (2)O6—C15—H15C109.5
O4—C6—O2117.6 (2)H15A—C15—H15C109.5
O4—C6—C5127.0 (2)H15B—C15—H15C109.5
O2—C6—C5115.4 (2)
C6—O2—C3—O1−48.6 (3)C6—C5—C7—N1−176.7 (2)
C6—O2—C3—C1−163.7 (2)C7—N1—C8—C13−0.4 (4)
C6—O2—C3—C273.1 (3)C7—N1—C8—C9179.0 (2)
C4—O1—C3—O245.3 (3)C13—C8—C9—C100.7 (4)
C4—O1—C3—C1159.8 (2)N1—C8—C9—C10−178.8 (2)
C4—O1—C3—C2−76.8 (3)C14—O5—C10—C9−2.9 (4)
C3—O1—C4—O3162.7 (2)C14—O5—C10—C11177.2 (2)
C3—O1—C4—C5−19.1 (3)C8—C9—C10—O5178.4 (2)
O3—C4—C5—C7−3.9 (4)C8—C9—C10—C11−1.7 (3)
O1—C4—C5—C7178.1 (2)C15—O6—C11—C121.5 (3)
O3—C4—C5—C6171.1 (2)C15—O6—C11—C10−177.0 (2)
O1—C4—C5—C6−6.9 (3)O5—C10—C11—O60.3 (3)
C3—O2—C6—O4−158.5 (2)C9—C10—C11—O6−179.6 (2)
C3—O2—C6—C524.7 (3)O5—C10—C11—C12−178.3 (2)
C7—C5—C6—O42.9 (4)C9—C10—C11—C121.9 (4)
C4—C5—C6—O4−172.3 (3)O6—C11—C12—C13−179.4 (2)
C7—C5—C6—O2179.3 (2)C10—C11—C12—C13−1.0 (4)
C4—C5—C6—O24.2 (3)C9—C8—C13—C120.2 (4)
C8—N1—C7—C5−175.7 (2)N1—C8—C13—C12179.6 (2)
C4—C5—C7—N1−1.6 (4)C11—C12—C13—C80.0 (4)
D—H···AD—HH···AD···AD—H···A
N1—H1N···O30.86 (3)2.11 (3)2.744 (3)130 (2)
C9—H9···O4i0.932.403.309 (4)164
C15—H15C···O3ii0.962.593.528 (4)166
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N⋯O30.86 (3)2.11 (3)2.744 (3)130 (2)
C9—H9⋯O4i0.932.403.309 (4)164
C15—H15C⋯O3ii0.962.593.528 (4)166

Symmetry codes: (i) ; (ii) .

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