Crystal structure of ethyl 6-chloro­methyl-2-oxo-4-(2,3,4-tri­meth­oxy­phen­yl)-1,2,3,4-tetra­hydro­pyrimidine-5-carboxyl­ate

M Suresh; M Syed Ali Padusha; J Josephine Novina; G Vasuki; Vijayan Viswanathan; Devadasan Velmurugan

doi:10.1107/S2056989015011688

. 2015 Jun 20;71(Pt 7):821–823. doi: 10.1107/S2056989015011688

Crystal structure of ethyl 6-chloromethyl-2-oxo-4-(2,3,4-trimethoxyphenyl)-1,2,3,4-tetrahydropyrimidine-5-carboxylate

M Suresh ^a, M Syed Ali Padusha ^a, J Josephine Novina ^b, G Vasuki ^c,^*, Vijayan Viswanathan ^d, Devadasan Velmurugan ^d

PMCID: PMC4518964 PMID: 26279876

The dihydropyrimidine ring in the title ester adopts a flattened envelope conformation. An intramolecular C—H⋯O hydrogen bond generates an S(6) ring. Molecules are linked via pairs of N—H⋯O hydrogen bonds, forming inversion dimers.

Keywords: crystal structure, conformation, dihydropyrimidine, ring motif, C—H⋯π interactions

Abstract

In the title compound, C₁₇H₂₁ClN₂O₆, the dihydropyrimidine ring adopts a flattened envelope conformation, with the sp ³-hybridized C atom forming the flap. The dihedral angle between the least-squares planes of the benzene and dihydropyrimidine rings is 88.09 (6)°. An intramolecular C—H⋯O hydrogen bond generates an S(6) ring. In the crystal, molecules are linked via pairs of N—H⋯O hydrogen bonds, forming inversion dimers with an R ₂ ²(8) ring motif, and the dimers are linked via further pairs of N—H⋯O hydrogen bonds, forming R ₂ ²(14) rings and chains of molecules along [111]. Pairs of inversion-related chains are linked via weak C—H⋯π interactions.

Chemical context

Pyrimidine derivatives have been investigated extensively due to their great biological significance and as the main constituent of nucleic acids. Pyrimidines and their derivatives are considered to be important for drugs and agricultural chemicals. They are also found to exhibit remarkable pharmacological activities such as anti-cancer, anti-tumor, anti-inflammatory and antifungal etc and are used widely as agrochemicals, pharmaceuticals, dyes, organic additives in electroplating of steel and in the polymerization process (Sharma et al., 2014 ▸; Vaisalini et al., 2012 ▸). Dihydropyrimidinones, the product of the Biginelli reaction, are also widely used in the pharmaceutical industry as calcium channel blockers and alpha-1 antagonists (Beena & Akelesh, 2012 ▸). Moreover, some bioactive alkaloids such as batzelladine B, containing the dihydropyrimidine unit, which has been isolated from marine sources, show anti-HIV activity (Asghari et al., 2011 ▸). Our interest in the preparation of pharmacologically active compounds led us to synthesize the title compound (I) and we report its crystal structure herein.

Structural commentary

The molecular structure of (I) is shown in Fig. 1 ▸. The dihydropyrimidine ring adopts a flattened envelope conformation. Atoms N1/N2/C11/C12/C14 are essentially planar with a maximum deviation of 0.0305 (17) Å for C11 while atom C13 is displaced by 0.1311 (17) Å from this plane, forming the flap. The puckering parameters are q2 = 0.0935, q3 = −0.0317, Q = 0.0987 Å, Θ = 108.7 and Φ = 22.9°. The benzene ring is almost perpendicular to the least-squares plane of the six-membered tetrahydropyrimidine ring, making a dihedral angle of 88.09 (6)°. graphic file with name e-71-00821-scheme1.jpg

The molecular structure of the title compound, with displacement ellipsoids drawn at the 50% probability level. The dashed line indicates the intramolecular C10—H10A⋯O1 hydrogen bond.

In comparison, this dihedral angle in the structure of ethyl 6-ethoxycarbonylmethyl-4-(2-hydroxyphenyl)-2-oxo-1,2,3,4-tetrahydropyrimidine-5-carboxylate, (II), is 87.7 (2)° (Kettmann et al., 2008 ▸), in ethyl-6-(chloromethyl)-4-(4-chlorophenyl)-2-oxo-1,2,3,4-tetrahydropyrimidine-5-carboxylate, (III), it is 87.08 (9)° (Bharanidharan et al., 2014 ▸), and in the crystal structure of ethyl 6-methyl-2-oxo-4-(3,4,5-trimethoxyphenyl)-1,2,3,4-tetrahydropyrimidine-5-carboxylate, (IV), it is 75.25 (6)° (Novina et al., 2015 ▸). The ethyl acetate group attached to the pyrimidine ring shows an extended conformation [torsion angle C12—C15—O2—C16 = −175.83 (15)°]. The methoxy group at C4 is essentially coplanar with the benzene ring [C5—C4—O5—C7 = −1.3 (3)°], whereas the two methoxy substituent groups at C2 and C3 deviate significantly from the benzene plane [C3—C2—O3—C9 = 71.6 (2) and C2—C3—O4—C8 = 71.6 (2)°]. The molecular structure is partially stabilized by the C10—H10A⋯O1 intramolecular interaction (Table 1 ▸), which generates an S(6) ring motif.

Table 1. Hydrogen-bond geometry (, ).

Cg is the centroid of the N1/C11C13/N2/C14 pyrimidine ring.

DHA	DH	HA	D A	DHA
N1H1NO6ⁱ	0.86	1.95	2.812(2)	178
N2H2NO4ⁱⁱ	0.86	2.37	3.160(2)	153
C17H17C Cg ⁱⁱⁱ	0.96	2.83	3.676(4)	147
C10H10AO1	0.97	2.14	2.864(3)	131

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Symmetry codes: (i) Inline graphic ; (ii) ; (iii) .

Supramolecular features

In the crystal, both N—H groups participate in intermolecular hydrogen-bonding associations (Table 1 ▸) giving centrosymmetric cyclic motifs [graph sets Inline graphic (8) and (14)], resulting in ribbons parallel to [111] (Fig. 2 ▸). The packing (Fig. 3 ▸) also features weak C—H⋯π interactions between the methyl H atoms of the ethyl groups and the pyrimidine rings of inversion-related molecules.

Partial crystal packing diagram for the title compound, showing the (8) and (14) ring motifs. Hydrogen bonds are shown as dashed lines.

Inline graphic — Partial crystal packing diagram for the title compound, showing the (8) and (14) ring motifs. Hydrogen bonds are shown as dashed lines.

Part of the crystal packing of the title compound, showing C—H⋯π interactions and N—H⋯O hydrogen bonds as dashed lines.

Synthesis and crystallization

To an ethanolic solution of ethyl 4-chloroaceto acetate (2 ml, 0.012 mol), 2,3,4-trimethoxy benzaldehyde (2.4 g, 0.012 mol), and urea (2.25 g, 0.037 mol) were added followed by CeCl₃·7H₂O (931 mg). The reaction mixture was taken in a round-bottom flask and refluxed for 2 h. Then the reaction mixture was cooled and poured into crushed ice taken in a beaker with constant stirring. The solid separated out was filtered, washed with ice-cold water and then recrystallized from hot ethanol to afford the product [yield: 92%; m.p. 425–427 K] as X-ray quality crystals.

Refinement

Crystal data, data collection and structure refinement details are summarized in Table 2 ▸. H atoms were placed in geometrically idealized positions and refined as riding on their parent atoms with C—H distances fixed in the range 0.93–0.98 Å and N—H = 0.86 Å with U _iso(H) = 1.5U _eq(CH₃) and 1.2U _eq(CH₂,CH, NH).

Table 2. Experimental details.

Crystal data
Chemical formula	C₁₇H₂₁ClN₂O₆
M _r	384.81
Crystal system, space group	Triclinic, P
Temperature (K)	293
a, b, c ()	9.479(5), 10.080(5), 10.320(5)
, , ()	108.552(5), 102.886(5), 94.406(5)
V (³)	899.5(8)
Z	2
Radiation type	Mo K
(mm¹)	0.25
Crystal size (mm)	0.20 0.15 0.10

Data collection
Diffractometer	Bruker Kappa APEXII CCD
Absorption correction	Multi-scan (SADABS; Bruker, 2008 ▸)
T _min, T _max	0.952, 0.976
No. of measured, independent and observed [I > 2(I)] reflections	12878, 3737, 3025
R _int	0.025
(sin /)_max (¹)	0.631

Refinement
R[F ² > 2(F ²)], wR(F ²), S	0.041, 0.121, 1.04
No. of reflections	3737
No. of parameters	239
H-atom treatment	H-atom parameters constrained
_max, _min (e ³)	0.25, 0.28

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Computer programs: APEX2, SAINT and XPREP (Bruker, 2008 ▸), SIR92 (Altomare et al., 1993 ▸), SHELXL97 (Sheldrick, 2008 ▸), ORTEP-3 for Windows (Farrugia, 2012 ▸) and PLATON (Spek, 2009 ▸).

Supplementary Material

Crystal structure: contains datablock(s) I. DOI: 10.1107/S2056989015011688/lh5770sup1.cif

e-71-00821-sup1.cif^{(28.5KB, cif)}

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015011688/lh5770Isup2.hkl

e-71-00821-Isup2.hkl^{(183.2KB, hkl)}

Click here for additional data file.^{(7.3KB, cml)}

Supporting information file. DOI: 10.1107/S2056989015011688/lh5770Isup3.cml

CCDC reference: 1407186

Additional supporting information: crystallographic information; 3D view; checkCIF report

Acknowledgments

The authors thank the TBI X-ray facility, CAS in Crystallography and Biophysics, University of Madras, India, for the data collection.

supplementary crystallographic information

Crystal data

C₁₇H₂₁ClN₂O₆	Z = 2
M_r = 384.81	F(000) = 404
Triclinic, P1	D_x = 1.421 Mg m⁻³
Hall symbol: -P 1	Mo Kα radiation, λ = 0.71073 Å
a = 9.479 (5) Å	Cell parameters from 3737 reflections
b = 10.080 (5) Å	θ = 1.0–26.6°
c = 10.320 (5) Å	µ = 0.25 mm⁻¹
α = 108.552 (5)°	T = 293 K
β = 102.886 (5)°	Block, colourless
γ = 94.406 (5)°	0.20 × 0.15 × 0.10 mm
V = 899.5 (8) Å³

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Data collection

Bruker Kappa APEXII CCD diffractometer	3737 independent reflections
Radiation source: fine-focus sealed tube	3025 reflections with I > 2σ(I)
Graphite monochromator	R_int = 0.025
ω and φ scan	θ_max = 26.6°, θ_min = 2.2°
Absorption correction: multi-scan (SADABS; Bruker, 2008)	h = −11→11
T_min = 0.952, T_max = 0.976	k = −12→12
12878 measured reflections	l = −12→13

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Refinement

Refinement on F²	Primary atom site location: structure-invariant direct methods
Least-squares matrix: full	Secondary atom site location: difference Fourier map
R[F² > 2σ(F²)] = 0.041	Hydrogen site location: inferred from neighbouring sites
wR(F²) = 0.121	H-atom parameters constrained
S = 1.04	w = 1/[σ²(F_o²) + (0.0599P)² + 0.3029P] where P = (F_o² + 2F_c²)/3
3737 reflections	(Δ/σ)_max < 0.001
239 parameters	Δρ_max = 0.25 e Å⁻³
0 restraints	Δρ_min = −0.28 e Å⁻³

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Special details

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.

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Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å²)

	x	y	z	U_iso*/U_eq
C7	0.3380 (3)	−0.2172 (2)	−0.3248 (3)	0.0695 (6)
H7A	0.3999	−0.1501	−0.3444	0.104*
H7B	0.3213	−0.3077	−0.3989	0.104*
H7C	0.3848	−0.2260	−0.2360	0.104*
C4	0.2052 (2)	−0.03983 (17)	−0.22112 (17)	0.0417 (4)
C5	0.33170 (19)	0.04788 (18)	−0.12747 (18)	0.0428 (4)
H5	0.4230	0.0206	−0.1293	0.051*
C6	0.32077 (18)	0.17612 (18)	−0.03140 (17)	0.0404 (4)
H6	0.4058	0.2338	0.0317	0.049*
C1	0.18792 (17)	0.22104 (16)	−0.02627 (16)	0.0353 (3)
C2	0.06034 (17)	0.13322 (17)	−0.12190 (17)	0.0375 (4)
C3	0.06932 (19)	0.00217 (17)	−0.21729 (17)	0.0409 (4)
C8	−0.1441 (3)	−0.0596 (3)	−0.4122 (2)	0.0685 (6)
H8A	−0.1575	0.0377	−0.3781	0.103*
H8B	−0.2377	−0.1197	−0.4467	0.103*
H8C	−0.0969	−0.0740	−0.4877	0.103*
C9	−0.1707 (3)	0.1099 (3)	−0.0726 (3)	0.0690 (6)
H9A	−0.1769	0.0092	−0.1149	0.104*
H9B	−0.2658	0.1358	−0.0970	0.104*
H9C	−0.1365	0.1373	0.0285	0.104*
C13	0.17802 (17)	0.35901 (16)	0.08517 (16)	0.0360 (3)
H13	0.0787	0.3807	0.0601	0.043*
C12	0.28624 (17)	0.48334 (16)	0.09400 (16)	0.0357 (3)
C11	0.39561 (18)	0.54845 (16)	0.21121 (17)	0.0376 (4)
C14	0.31732 (19)	0.40206 (18)	0.33668 (17)	0.0417 (4)
C10	0.5076 (2)	0.67371 (18)	0.23650 (19)	0.0451 (4)
H10A	0.5094	0.6851	0.1470	0.054*
H10B	0.6041	0.6582	0.2793	0.054*
C15	0.26590 (19)	0.52688 (17)	−0.03168 (17)	0.0391 (4)
C16	0.1095 (2)	0.4838 (2)	−0.2602 (2)	0.0548 (5)
H16A	0.1940	0.4739	−0.2989	0.066*
H16B	0.0869	0.5787	−0.2469	0.066*
C17	−0.0182 (3)	0.3764 (3)	−0.3576 (2)	0.0816 (8)
H17A	0.0067	0.2832	−0.3725	0.122*
H17B	−0.0438	0.3916	−0.4466	0.122*
H17C	−0.1001	0.3852	−0.3166	0.122*
N2	0.20306 (15)	0.34077 (15)	0.22426 (14)	0.0414 (3)
H2N	0.1367	0.2844	0.2341	0.050*
N1	0.41333 (16)	0.50454 (16)	0.32654 (15)	0.0478 (4)
H1N	0.4894	0.5439	0.3964	0.057*
O5	0.20239 (16)	−0.16966 (14)	−0.31766 (15)	0.0586 (4)
O4	−0.05528 (14)	−0.09329 (13)	−0.29991 (14)	0.0536 (4)
O3	−0.07186 (13)	0.17960 (13)	−0.12314 (14)	0.0471 (3)
O1	0.34931 (16)	0.60863 (16)	−0.05290 (15)	0.0615 (4)
O2	0.13972 (14)	0.45913 (14)	−0.12663 (13)	0.0495 (3)
O6	0.33671 (15)	0.37184 (15)	0.44510 (13)	0.0595 (4)
Cl	0.46401 (7)	0.83004 (5)	0.35072 (6)	0.06618 (19)

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Atomic displacement parameters (Å²)

	U¹¹	U²²	U³³	U¹²	U¹³	U²³
C7	0.0724 (15)	0.0561 (13)	0.0664 (14)	0.0167 (11)	0.0202 (11)	−0.0003 (10)
C4	0.0495 (10)	0.0351 (8)	0.0351 (8)	0.0004 (7)	0.0089 (7)	0.0082 (7)
C5	0.0384 (9)	0.0438 (9)	0.0440 (9)	0.0025 (7)	0.0120 (7)	0.0123 (7)
C6	0.0355 (8)	0.0396 (8)	0.0382 (8)	−0.0058 (7)	0.0033 (6)	0.0097 (7)
C1	0.0371 (8)	0.0317 (7)	0.0324 (7)	−0.0034 (6)	0.0034 (6)	0.0106 (6)
C2	0.0355 (8)	0.0346 (8)	0.0371 (8)	−0.0010 (6)	0.0016 (6)	0.0119 (6)
C3	0.0411 (9)	0.0340 (8)	0.0369 (8)	−0.0066 (7)	−0.0003 (7)	0.0082 (7)
C8	0.0629 (13)	0.0710 (14)	0.0475 (11)	−0.0165 (11)	−0.0123 (9)	0.0127 (10)
C9	0.0669 (14)	0.0783 (15)	0.0892 (17)	0.0250 (12)	0.0395 (13)	0.0495 (14)
C13	0.0343 (8)	0.0352 (8)	0.0316 (7)	−0.0030 (6)	0.0020 (6)	0.0087 (6)
C12	0.0380 (8)	0.0294 (7)	0.0348 (8)	0.0013 (6)	0.0059 (6)	0.0078 (6)
C11	0.0393 (9)	0.0320 (8)	0.0371 (8)	−0.0010 (6)	0.0078 (7)	0.0089 (6)
C14	0.0439 (9)	0.0385 (8)	0.0351 (8)	−0.0059 (7)	0.0025 (7)	0.0107 (7)
C10	0.0469 (10)	0.0373 (9)	0.0426 (9)	−0.0075 (7)	0.0076 (7)	0.0082 (7)
C15	0.0424 (9)	0.0337 (8)	0.0384 (8)	0.0052 (7)	0.0088 (7)	0.0100 (7)
C16	0.0629 (12)	0.0611 (12)	0.0402 (9)	0.0124 (10)	0.0058 (8)	0.0220 (9)
C17	0.0997 (19)	0.0735 (16)	0.0466 (12)	0.0001 (14)	−0.0117 (12)	0.0114 (11)
N2	0.0422 (8)	0.0407 (7)	0.0328 (7)	−0.0115 (6)	0.0035 (6)	0.0096 (6)
N1	0.0463 (8)	0.0482 (8)	0.0369 (7)	−0.0168 (7)	−0.0066 (6)	0.0160 (6)
O5	0.0615 (9)	0.0436 (7)	0.0531 (8)	0.0061 (6)	0.0102 (6)	−0.0030 (6)
O4	0.0483 (7)	0.0383 (6)	0.0535 (7)	−0.0110 (5)	−0.0075 (6)	0.0066 (6)
O3	0.0359 (6)	0.0398 (6)	0.0581 (8)	−0.0001 (5)	0.0015 (5)	0.0154 (6)
O1	0.0604 (9)	0.0675 (9)	0.0557 (8)	−0.0128 (7)	0.0036 (6)	0.0334 (7)
O2	0.0519 (7)	0.0511 (7)	0.0386 (6)	−0.0040 (6)	−0.0016 (5)	0.0180 (5)
O6	0.0628 (9)	0.0630 (9)	0.0412 (7)	−0.0235 (7)	−0.0084 (6)	0.0250 (6)
Cl	0.0771 (4)	0.0375 (3)	0.0716 (4)	0.0020 (2)	0.0145 (3)	0.0072 (2)

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Geometric parameters (Å, º)

C7—O5	1.415 (3)	C13—N2	1.474 (2)
C7—H7A	0.9600	C13—C12	1.523 (2)
C7—H7B	0.9600	C13—H13	0.9800
C7—H7C	0.9600	C12—C11	1.341 (2)
C4—O5	1.364 (2)	C12—C15	1.475 (2)
C4—C5	1.389 (2)	C11—N1	1.378 (2)
C4—C3	1.391 (3)	C11—C10	1.500 (2)
C5—C6	1.384 (3)	C14—O6	1.230 (2)
C5—H5	0.9300	C14—N2	1.335 (2)
C6—C1	1.377 (3)	C14—N1	1.369 (2)
C6—H6	0.9300	C10—Cl	1.783 (2)
C1—C2	1.403 (2)	C10—H10A	0.9700
C1—C13	1.522 (2)	C10—H10B	0.9700
C2—O3	1.370 (2)	C15—O1	1.202 (2)
C2—C3	1.396 (2)	C15—O2	1.335 (2)
C3—O4	1.3791 (19)	C16—O2	1.448 (2)
C8—O4	1.424 (3)	C16—C17	1.487 (3)
C8—H8A	0.9600	C16—H16A	0.9700
C8—H8B	0.9600	C16—H16B	0.9700
C8—H8C	0.9600	C17—H17A	0.9600
C9—O3	1.412 (2)	C17—H17B	0.9600
C9—H9A	0.9600	C17—H17C	0.9600
C9—H9B	0.9600	N2—H2N	0.8600
C9—H9C	0.9600	N1—H1N	0.8600

O5—C7—H7A	109.5	C12—C13—H13	108.2
O5—C7—H7B	109.5	C11—C12—C15	122.12 (15)
H7A—C7—H7B	109.5	C11—C12—C13	120.78 (14)
O5—C7—H7C	109.5	C15—C12—C13	117.09 (13)
H7A—C7—H7C	109.5	C12—C11—N1	120.98 (14)
H7B—C7—H7C	109.5	C12—C11—C10	126.74 (15)
O5—C4—C5	124.55 (17)	N1—C11—C10	112.26 (14)
O5—C4—C3	115.73 (15)	O6—C14—N2	123.26 (15)
C5—C4—C3	119.71 (16)	O6—C14—N1	120.67 (14)
C6—C5—C4	119.45 (17)	N2—C14—N1	116.06 (15)
C6—C5—H5	120.3	C11—C10—Cl	109.90 (13)
C4—C5—H5	120.3	C11—C10—H10A	109.7
C1—C6—C5	122.07 (15)	Cl—C10—H10A	109.7
C1—C6—H6	119.0	C11—C10—H10B	109.7
C5—C6—H6	119.0	Cl—C10—H10B	109.7
C6—C1—C2	118.47 (15)	H10A—C10—H10B	108.2
C6—C1—C13	121.07 (13)	O1—C15—O2	122.11 (16)
C2—C1—C13	120.39 (15)	O1—C15—C12	127.08 (15)
O3—C2—C3	120.68 (14)	O2—C15—C12	110.79 (14)
O3—C2—C1	119.18 (15)	O2—C16—C17	107.07 (17)
C3—C2—C1	120.11 (16)	O2—C16—H16A	110.3
O4—C3—C4	118.51 (15)	C17—C16—H16A	110.3
O4—C3—C2	121.07 (16)	O2—C16—H16B	110.3
C4—C3—C2	120.16 (14)	C17—C16—H16B	110.3
O4—C8—H8A	109.5	H16A—C16—H16B	108.6
O4—C8—H8B	109.5	C16—C17—H17A	109.5
H8A—C8—H8B	109.5	C16—C17—H17B	109.5
O4—C8—H8C	109.5	H17A—C17—H17B	109.5
H8A—C8—H8C	109.5	C16—C17—H17C	109.5
H8B—C8—H8C	109.5	H17A—C17—H17C	109.5
O3—C9—H9A	109.5	H17B—C17—H17C	109.5
O3—C9—H9B	109.5	C14—N2—C13	127.23 (14)
H9A—C9—H9B	109.5	C14—N2—H2N	116.4
O3—C9—H9C	109.5	C13—N2—H2N	116.4
H9A—C9—H9C	109.5	C14—N1—C11	124.02 (14)
H9B—C9—H9C	109.5	C14—N1—H1N	118.0
N2—C13—C1	109.46 (13)	C11—N1—H1N	118.0
N2—C13—C12	109.91 (12)	C4—O5—C7	117.72 (15)
C1—C13—C12	112.61 (13)	C3—O4—C8	117.15 (15)
N2—C13—H13	108.2	C2—O3—C9	116.65 (15)
C1—C13—H13	108.2	C15—O2—C16	117.05 (14)

O5—C4—C5—C6	−178.30 (16)	C13—C12—C11—N1	0.2 (3)
C3—C4—C5—C6	0.0 (3)	C15—C12—C11—C10	2.3 (3)
C4—C5—C6—C1	−0.7 (3)	C13—C12—C11—C10	−178.40 (16)
C5—C6—C1—C2	0.0 (2)	C12—C11—C10—Cl	103.68 (19)
C5—C6—C1—C13	176.89 (15)	N1—C11—C10—Cl	−75.01 (18)
C6—C1—C2—O3	−176.62 (14)	C11—C12—C15—O1	9.9 (3)
C13—C1—C2—O3	6.5 (2)	C13—C12—C15—O1	−169.41 (18)
C6—C1—C2—C3	1.4 (2)	C11—C12—C15—O2	−171.87 (16)
C13—C1—C2—C3	−175.49 (14)	C13—C12—C15—O2	8.8 (2)
O5—C4—C3—O4	5.7 (2)	O6—C14—N2—C13	−173.33 (17)
C5—C4—C3—O4	−172.75 (15)	N1—C14—N2—C13	7.7 (3)
O5—C4—C3—C2	179.86 (15)	C1—C13—N2—C14	112.29 (19)
C5—C4—C3—C2	1.4 (3)	C12—C13—N2—C14	−11.9 (2)
O3—C2—C3—O4	−10.1 (2)	O6—C14—N1—C11	−177.08 (18)
C1—C2—C3—O4	171.86 (15)	N2—C14—N1—C11	1.9 (3)
O3—C2—C3—C4	175.89 (15)	C12—C11—N1—C14	−5.6 (3)
C1—C2—C3—C4	−2.1 (2)	C10—C11—N1—C14	173.14 (17)
C6—C1—C13—N2	−72.80 (18)	C5—C4—O5—C7	−1.3 (3)
C2—C1—C13—N2	104.02 (16)	C3—C4—O5—C7	−179.67 (18)
C6—C1—C13—C12	49.8 (2)	C4—C3—O4—C8	−114.3 (2)
C2—C1—C13—C12	−133.40 (15)	C2—C3—O4—C8	71.6 (2)
N2—C13—C12—C11	7.4 (2)	C3—C2—O3—C9	71.6 (2)
C1—C13—C12—C11	−114.95 (17)	C1—C2—O3—C9	−110.4 (2)
N2—C13—C12—C15	−173.26 (14)	O1—C15—O2—C16	2.5 (3)
C1—C13—C12—C15	64.41 (19)	C12—C15—O2—C16	−175.83 (15)
C15—C12—C11—N1	−179.15 (15)	C17—C16—O2—C15	168.35 (19)

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Hydrogen-bond geometry (Å, º)

Cg is the centroid of the N1/C11–C13/N2/C14 pyrimidine ring.

D—H···A	D—H	H···A	D···A	D—H···A
N1—H1N···O6ⁱ	0.86	1.95	2.812 (2)	178
N2—H2N···O4ⁱⁱ	0.86	2.37	3.160 (2)	153
C17—H17C···Cgⁱⁱⁱ	0.96	2.83	3.676 (4)	147
C10—H10A···O1	0.97	2.14	2.864 (3)	131

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Symmetry codes: (i) −x+1, −y+1, −z+1; (ii) −x, −y, −z; (iii) −x, −y+1, −z+2.

References

Altomare, A., Cascarano, G., Giacovazzo, C. & Guagliardi, A. (1993). J. Appl. Cryst. 26, 343–350.
Asghari, S., Tajbakhsh, M., Kenari, B. J. & Khaksar, S. (2011). Chin. Chem. Lett. 22, 127–130.
Beena, K. P. & Akelesh, T. (2012). Int. Res. J. Pharm. 3, 303–304.
Bharanidharan, S., Saleem, H., Gunasekaran, B., Padusha, M. S. A. & Suresh, M. (2014). Acta Cryst. E70, o1185–o1186. [DOI] [PMC free article] [PubMed]
Bruker (2008). APEX2, SADABS, SAINT and XPREP. Bruker AXS Inc., Madison, Wisconsin, USA.
Farrugia, L. J. (2012). J. Appl. Cryst. 45, 849–854.
Kettmann, V., Světlík, J. & Veizerová, L. (2008). Acta Cryst. E64, o1092. [DOI] [PMC free article] [PubMed]
Novina, J. J., Vasuki, G., Suresh, M. & Padusha, M. S. A. (2015). Acta Cryst. E71, o206–o207. [DOI] [PMC free article] [PubMed]
Sharma, A., Khare, R., Kumar, V., Gupta, G. K. & Beniwal, V. (2014). Int. J. Pharm. Pharm. Sci. 6, 171–175.
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
Spek, A. L. (2009). Acta Cryst. D65, 148–155. [DOI] [PMC free article] [PubMed]
Vaisalini, N. B., Rao, N. V., Harika, V. B. M. L., Desu, P. K. & Nama, S. (2012). Int. J. Pharm. Chem. Res. 1, 2278–8700.

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablock(s) I. DOI: 10.1107/S2056989015011688/lh5770sup1.cif

e-71-00821-sup1.cif^{(28.5KB, cif)}

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015011688/lh5770Isup2.hkl

e-71-00821-Isup2.hkl^{(183.2KB, hkl)}

Click here for additional data file.^{(7.3KB, cml)}

Supporting information file. DOI: 10.1107/S2056989015011688/lh5770Isup3.cml

CCDC reference: 1407186

Additional supporting information: crystallographic information; 3D view; checkCIF report

[bb1] Altomare, A., Cascarano, G., Giacovazzo, C. & Guagliardi, A. (1993). J. Appl. Cryst. 26, 343–350.

[bb2] Asghari, S., Tajbakhsh, M., Kenari, B. J. & Khaksar, S. (2011). Chin. Chem. Lett. 22, 127–130.

[bb3] Beena, K. P. & Akelesh, T. (2012). Int. Res. J. Pharm. 3, 303–304.

[bb4] Bharanidharan, S., Saleem, H., Gunasekaran, B., Padusha, M. S. A. & Suresh, M. (2014). Acta Cryst. E70, o1185–o1186. [DOI] [PMC free article] [PubMed]

[bb5] Bruker (2008). APEX2, SADABS, SAINT and XPREP. Bruker AXS Inc., Madison, Wisconsin, USA.

[bb6] Farrugia, L. J. (2012). J. Appl. Cryst. 45, 849–854.

[bb7] Kettmann, V., Světlík, J. & Veizerová, L. (2008). Acta Cryst. E64, o1092. [DOI] [PMC free article] [PubMed]

[bb8] Novina, J. J., Vasuki, G., Suresh, M. & Padusha, M. S. A. (2015). Acta Cryst. E71, o206–o207. [DOI] [PMC free article] [PubMed]

[bb9] Sharma, A., Khare, R., Kumar, V., Gupta, G. K. & Beniwal, V. (2014). Int. J. Pharm. Pharm. Sci. 6, 171–175.

[bb10] Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]

[bb11] Spek, A. L. (2009). Acta Cryst. D65, 148–155. [DOI] [PMC free article] [PubMed]

[bb12] Vaisalini, N. B., Rao, N. V., Harika, V. B. M. L., Desu, P. K. & Nama, S. (2012). Int. J. Pharm. Chem. Res. 1, 2278–8700.

PERMALINK

Crystal structure of ethyl 6-chloromethyl-2-oxo-4-(2,3,4-trimethoxyphenyl)-1,2,3,4-tetrahydropyrimidine-5-carboxylate

M Suresh

M Syed Ali Padusha

J Josephine Novina

G Vasuki

Vijayan Viswanathan

Devadasan Velmurugan

Abstract

Chemical context

Structural commentary