organic compounds
of ethyl 6-(2-fluorophenyl)-4-hydroxy-2-sulfanylidene-4-trifluoromethyl-1,3-diazinane-5-carboxylate
aDepartment of Studies in Chemistry, Central College Campus, Bangalore University, Bangalore 560 001, Karnataka, India
*Correspondence e-mail: noorsb@rediffmail.com
In the title compound, C14H14F4N2O3S, the central dihydropyrimidine ring adopts a sofa conformation with the C atom bearing the 2-fluorobenzene ring displaced by 0.596 (3) Å from the other five atoms. The 2-fluorobenzene ring is positioned axially and bisects the pyrimidine ring with a dihedral angle of 70.92 (8)°. The molecular conformation is stabilized by an intramolecular O—H⋯O hydrogen bond, generating an S(6) ring. The features C—H⋯F, N—H⋯S and N—H⋯O hydrogen bonds, which link the molecules into a three-dimensional network.
Keywords: crystal structure; dihydropyrimidine derivative; organofluorine compounds; hydrogen bonding.
CCDC reference: 1055499
1. Related literature
For the bioactivity of dihydropyrimidines, see: Atwal et al. (1989); Brier et al. (2004); Cochran et al. (2005); Moran et al. (2007); Zorkun et al. (2006). For the bioactivity of organofluorine compounds, see: Hermann et al. (2003); Ulrich (2004). For related structures, see: Mosslemin et al. (2009); Li et al. (2011); Huang et al. (2012).
2. Experimental
2.1. Crystal data
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2.3. Refinement
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Data collection: SMART (Bruker,1998); cell SAINT-Plus (Bruker, 1998); data reduction: SAINT-Plus; 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 CAMERON (Watkin et al., 1996); software used to prepare material for publication: WinGX (Farrugia, 2012).
Supporting information
CCDC reference: 1055499
https://doi.org/10.1107/S2056989015005836/hb7389sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2056989015005836/hb7389Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S2056989015005836/hb7389Isup3.cml
The title compound was synthesized by the reaction of 2-fluorobenzaldehyde (1.24 g, 10 mmol), ethyl 4, 4, 4, trifluoroacetoacetate (2.21 g, 12 mmol) and thiourea (1.14 g, 15 mmol) in 15 ml ethanol was refluxed for 6 h in the presence of concentrated hydrochloric acid as a catalyst. The reaction was monitored with TLC and the reaction medium was quenched in ice cold water. The precipitate obtained was filtered and dried. The compound was recrystallized from ethanol solvent by slow evaporation method, yielding colorless blocks (yield 82%; m.p. 455 K).
Hydrogen atoms involved in hydrogen-bonding interactions were located by difference methods and their positional and isotropic displacement parameters were refined. Other H atoms were placed in calculated positions, with C—H (aromatic) = 0.95 ° A and C—H (aliphatic) = 0.98 ° A, 0.99 ° A or 1.00 ° A, and treated as riding, with Uiso(H) = 1.2Ueq(C).
Dihydropyrimidine (DHPM) derivatives can be used as potential calcium channel blockers (Zorkun et al., 2006), inhibitors of mitotic kinesin Eg5 for treating cancer (Cochran et al., 2005) and as TRPA1 modulators for treating pain (Moran et al., 2007). In addition, compounds that contain fluorine have special bioactivity, e.g. flumioxazin is a widely used herbicide (Hermann et al., 2003; Ulrich, 2004). One of the most popular fluorine- containing functional groups in drug molecules is the trifluoromethyl moiety. Because it contains three fluorine atoms, it exerts significant changes on neighbouring groups, such as increasing the acidity of other centers nearby. It is also one of the most lipophilic groups known, so it provides an extremely useful way of making a molecule more easily delivered to the active site in the body. This led us to focus our attention on the synthesis and bioactivity of these important fused perfluoroalkylated
During the synthesis of DHPM derivatives, the title compound, an intermediate C14H14F4N2O3S (I) was isolated and the structure confirmed by X-ray diffraction. The molecular structure of the title compound is shown in Fig. 1. The 2-fluoro phenyl ring at chiral carbon atom C6 is positioned axially and bisects the pyrimidine ring with a dihedral angle of 70.92 (8) °. The hexahydro pyrimidine ring adopts a sofa conformation with atom C6 displaced by -0.5961 (3) Å from the mean plane of the other five atoms (N1/C2/N2/C5/C4). The carbonyl group of the exocyclic ester at C5 adopts a cis orientation with respect to C5—C4 single bond. The 2-fluoro phenyl ring adopts an anti periplanar conformation with respect to C6—H6 bond of the pyrimidine ring. The molecular structure is stabilized by intramolecular O—H···O hydrogen bond, generating an S(6) ring. The is primarily stabilized by intermolecular C10—H10···F2 and C13—H13···F1 interactions which result in two dimensional sheets along [011] (Table. 1; Fig. 2). The packing is further stabilized by intermolecular N—H···S hydrogen bonds resulting in a centrosymmetric head to head dimer with graph set R22(8) notation (Bernstein et al., 1995) and intermolecular N—H···O hydrogen bonds form a molecular chain along the crystallographic b axis (Table. 1; Fig. 3).For the bioactivity of dihydropyrimidines, see: Atwal et al. (1989); Brier et al. (2004); Cochran et al. (2005); Moran et al. (2007); Zorkun et al. (2006). For the bioactivity of organofluorine compounds, see: Hermann et al. (2003); Ulrich (2004). For related structures, see: Mosslemin et al. (2009); Li et al. (2011); Huang et al. (2012).
Data collection: SMART (Bruker,1998); cell
SAINT-Plus (Bruker, 1998); data reduction: SAINT-Plus (Bruker, 1998); 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 CAMERON (Watkin et al., 1996); software used to prepare material for publication: WinGX (Farrugia, 2012).Fig. 1. The molecular structure of the title compound with displacement ellipsoids drawn at the 50% probability level. | |
Fig. 2. Unit-cell packing of the title compound showing C—H···F interactions as dotted lines. H atoms not involved in hydrogen bonding have been excluded. | |
Fig. 3. Unit-cell packing depicting the N—H···S and N—H···O interactions with dotted lines. H atoms not involved in hydrogen bonding have been excluded. |
C14H14F4N2O3S | F(000) = 752 |
Mr = 366.33 | Dx = 1.612 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 2646 reflections |
a = 10.937 (3) Å | θ = 2.0–25.0° |
b = 9.934 (3) Å | µ = 0.28 mm−1 |
c = 14.629 (4) Å | T = 100 K |
β = 108.239 (5)° | Block, colourless |
V = 1509.7 (8) Å3 | 0.15 × 0.12 × 0.09 mm |
Z = 4 |
Bruker SMART APEX CCD detector diffractometer | 2646 independent reflections |
Radiation source: fine-focus sealed tube | 2138 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.034 |
ω scans | θmax = 25.0°, θmin = 2.0° |
Absorption correction: multi-scan (SADABS; Bruker, 1998) | h = −12→13 |
Tmin = 0.952, Tmax = 0.957 | k = −11→7 |
7619 measured reflections | l = −17→17 |
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)] = 0.046 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.141 | H-atom parameters constrained |
S = 1.03 | w = 1/[σ2(Fo2) + (0.0939P)2 + 0.0341P] where P = (Fo2 + 2Fc2)/3 |
2646 reflections | (Δ/σ)max < 0.001 |
219 parameters | Δρmax = 0.64 e Å−3 |
0 restraints | Δρmin = −0.29 e Å−3 |
C14H14F4N2O3S | V = 1509.7 (8) Å3 |
Mr = 366.33 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 10.937 (3) Å | µ = 0.28 mm−1 |
b = 9.934 (3) Å | T = 100 K |
c = 14.629 (4) Å | 0.15 × 0.12 × 0.09 mm |
β = 108.239 (5)° |
Bruker SMART APEX CCD detector diffractometer | 2646 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 1998) | 2138 reflections with I > 2σ(I) |
Tmin = 0.952, Tmax = 0.957 | Rint = 0.034 |
7619 measured reflections |
R[F2 > 2σ(F2)] = 0.046 | 0 restraints |
wR(F2) = 0.141 | H-atom parameters constrained |
S = 1.03 | Δρmax = 0.64 e Å−3 |
2646 reflections | Δρmin = −0.29 e Å−3 |
219 parameters |
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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. |
x | y | z | Uiso*/Ueq | ||
S1 | 0.09623 (6) | 0.40020 (7) | 0.12780 (4) | 0.0190 (2) | |
O1 | −0.35850 (17) | 0.71225 (18) | 0.25205 (13) | 0.0243 (5) | |
O2 | −0.44764 (17) | 0.50537 (18) | 0.22450 (13) | 0.0214 (4) | |
O3 | −0.18273 (16) | 0.75721 (18) | 0.15250 (12) | 0.0194 (4) | |
H3 | −0.2203 | 0.7777 | 0.1926 | 0.029* | |
N1 | −0.10705 (19) | 0.5616 (2) | 0.09977 (14) | 0.0177 (5) | |
H1 | −0.0968 | 0.5790 | 0.0436 | 0.021* | |
N2 | −0.0313 (2) | 0.4589 (2) | 0.24785 (14) | 0.0178 (5) | |
H2 | 0.0244 | 0.4048 | 0.2875 | 0.021* | |
F1 | −0.36294 (14) | 0.50800 (15) | −0.00967 (10) | 0.0242 (4) | |
F2 | −0.29456 (14) | 0.70124 (16) | −0.04041 (10) | 0.0238 (4) | |
F3 | −0.42992 (13) | 0.68945 (15) | 0.03915 (10) | 0.0225 (4) | |
F4 | −0.18118 (15) | 0.23990 (15) | 0.27621 (10) | 0.0270 (4) | |
C1 | −0.3263 (2) | 0.6310 (3) | 0.02677 (18) | 0.0183 (6) | |
C2 | −0.0206 (2) | 0.4780 (2) | 0.16074 (18) | 0.0165 (6) | |
C3 | −0.3585 (2) | 0.5968 (3) | 0.22634 (18) | 0.0189 (6) | |
C6 | −0.1299 (2) | 0.5223 (3) | 0.28213 (17) | 0.0182 (6) | |
H6 | −0.0996 | 0.6145 | 0.3062 | 0.022* | |
C5 | −0.2516 (2) | 0.5364 (3) | 0.19469 (17) | 0.0164 (6) | |
H5 | −0.2787 | 0.4454 | 0.1664 | 0.020* | |
C4 | −0.2143 (2) | 0.6238 (3) | 0.12085 (18) | 0.0163 (6) | |
C7 | −0.5546 (3) | 0.5477 (3) | 0.2590 (2) | 0.0270 (7) | |
H7A | −0.6337 | 0.4981 | 0.2234 | 0.032* | |
H7B | −0.5711 | 0.6451 | 0.2465 | 0.032* | |
C8 | −0.5230 (3) | 0.5208 (3) | 0.3643 (2) | 0.0334 (7) | |
H8A | −0.5017 | 0.4254 | 0.3770 | 0.050* | |
H8B | −0.5975 | 0.5433 | 0.3851 | 0.050* | |
H8C | −0.4493 | 0.5761 | 0.3999 | 0.050* | |
C9 | −0.1537 (2) | 0.4440 (3) | 0.36335 (17) | 0.0163 (6) | |
C10 | −0.1553 (2) | 0.5097 (3) | 0.44637 (17) | 0.0182 (6) | |
H10 | −0.1368 | 0.6033 | 0.4530 | 0.022* | |
C11 | −0.1832 (2) | 0.4416 (3) | 0.51975 (18) | 0.0210 (6) | |
H11 | −0.1870 | 0.4889 | 0.5752 | 0.025* | |
C12 | −0.2054 (2) | 0.3050 (3) | 0.51222 (19) | 0.0235 (6) | |
H12 | −0.2225 | 0.2579 | 0.5634 | 0.028* | |
C13 | −0.2031 (2) | 0.2362 (3) | 0.43111 (17) | 0.0214 (6) | |
H13 | −0.2176 | 0.1418 | 0.4259 | 0.026* | |
C14 | −0.1794 (2) | 0.3073 (3) | 0.35795 (18) | 0.0199 (6) |
U11 | U22 | U33 | U12 | U13 | U23 | |
S1 | 0.0188 (4) | 0.0194 (4) | 0.0211 (4) | 0.0030 (3) | 0.0096 (3) | 0.0022 (3) |
O1 | 0.0242 (10) | 0.0196 (11) | 0.0303 (10) | 0.0003 (8) | 0.0104 (8) | −0.0030 (8) |
O2 | 0.0194 (10) | 0.0217 (10) | 0.0250 (10) | −0.0018 (8) | 0.0098 (8) | 0.0004 (8) |
O3 | 0.0205 (10) | 0.0177 (10) | 0.0216 (10) | −0.0009 (8) | 0.0089 (8) | −0.0010 (8) |
N1 | 0.0208 (11) | 0.0191 (12) | 0.0152 (11) | 0.0020 (9) | 0.0086 (9) | 0.0033 (9) |
N2 | 0.0176 (11) | 0.0212 (12) | 0.0139 (11) | 0.0037 (9) | 0.0040 (9) | 0.0029 (9) |
F1 | 0.0250 (8) | 0.0219 (9) | 0.0227 (8) | −0.0002 (7) | 0.0035 (7) | −0.0039 (7) |
F2 | 0.0231 (8) | 0.0304 (9) | 0.0186 (8) | 0.0043 (7) | 0.0074 (6) | 0.0092 (7) |
F3 | 0.0169 (7) | 0.0278 (9) | 0.0232 (8) | 0.0058 (6) | 0.0071 (6) | 0.0019 (7) |
F4 | 0.0400 (9) | 0.0207 (9) | 0.0240 (8) | −0.0038 (7) | 0.0154 (7) | −0.0038 (7) |
C1 | 0.0189 (13) | 0.0156 (13) | 0.0225 (14) | 0.0026 (11) | 0.0097 (11) | 0.0005 (11) |
C2 | 0.0163 (13) | 0.0144 (13) | 0.0189 (13) | −0.0023 (10) | 0.0055 (11) | 0.0011 (10) |
C3 | 0.0158 (13) | 0.0224 (16) | 0.0166 (13) | −0.0023 (11) | 0.0023 (10) | 0.0026 (11) |
C6 | 0.0175 (13) | 0.0159 (14) | 0.0207 (13) | −0.0004 (11) | 0.0052 (11) | 0.0001 (11) |
C5 | 0.0185 (13) | 0.0155 (13) | 0.0155 (12) | 0.0016 (11) | 0.0058 (11) | 0.0004 (10) |
C4 | 0.0170 (13) | 0.0136 (13) | 0.0189 (13) | 0.0016 (10) | 0.0066 (11) | −0.0009 (10) |
C7 | 0.0168 (14) | 0.0304 (16) | 0.0372 (17) | 0.0008 (12) | 0.0134 (13) | −0.0010 (13) |
C8 | 0.0311 (16) | 0.046 (2) | 0.0301 (16) | −0.0089 (15) | 0.0197 (14) | −0.0049 (14) |
C9 | 0.0127 (12) | 0.0202 (14) | 0.0156 (12) | 0.0032 (11) | 0.0041 (10) | 0.0031 (11) |
C10 | 0.0144 (13) | 0.0177 (14) | 0.0207 (14) | 0.0010 (10) | 0.0030 (11) | −0.0020 (11) |
C11 | 0.0206 (14) | 0.0273 (15) | 0.0160 (13) | 0.0013 (12) | 0.0070 (11) | −0.0014 (11) |
C12 | 0.0243 (14) | 0.0253 (16) | 0.0235 (14) | 0.0033 (12) | 0.0111 (11) | 0.0080 (12) |
C13 | 0.0281 (14) | 0.0154 (14) | 0.0228 (14) | 0.0002 (12) | 0.0110 (11) | 0.0038 (11) |
C14 | 0.0229 (14) | 0.0183 (14) | 0.0186 (13) | 0.0014 (11) | 0.0068 (11) | −0.0032 (11) |
S1—C2 | 1.688 (3) | C6—H6 | 1.0000 |
O1—C3 | 1.207 (3) | C5—C4 | 1.537 (3) |
O2—C3 | 1.327 (3) | C5—H5 | 1.0000 |
O2—C7 | 1.473 (3) | C7—C8 | 1.494 (4) |
O3—C4 | 1.411 (3) | C7—H7A | 0.9900 |
O3—H3 | 0.8400 | C7—H7B | 0.9900 |
N1—C2 | 1.361 (3) | C8—H8A | 0.9800 |
N1—C4 | 1.442 (3) | C8—H8B | 0.9800 |
N1—H1 | 0.8800 | C8—H8C | 0.9800 |
N2—C2 | 1.329 (3) | C9—C10 | 1.384 (3) |
N2—C6 | 1.466 (3) | C9—C14 | 1.384 (4) |
N2—H2 | 0.8800 | C10—C11 | 1.381 (4) |
F1—C1 | 1.343 (3) | C10—H10 | 0.9500 |
F2—C1 | 1.337 (3) | C11—C12 | 1.377 (4) |
F3—C1 | 1.335 (3) | C11—H11 | 0.9500 |
F4—C14 | 1.365 (3) | C12—C13 | 1.377 (4) |
C1—C4 | 1.531 (3) | C12—H12 | 0.9500 |
C3—C5 | 1.510 (3) | C13—C14 | 1.373 (4) |
C6—C9 | 1.509 (3) | C13—H13 | 0.9500 |
C6—C5 | 1.537 (3) | ||
C3—O2—C7 | 117.0 (2) | N1—C4—C1 | 107.66 (19) |
C4—O3—H3 | 109.5 | O3—C4—C5 | 113.1 (2) |
C2—N1—C4 | 124.5 (2) | N1—C4—C5 | 108.7 (2) |
C2—N1—H1 | 117.8 | C1—C4—C5 | 110.1 (2) |
C4—N1—H1 | 117.8 | O2—C7—C8 | 110.5 (2) |
C2—N2—C6 | 124.1 (2) | O2—C7—H7A | 109.6 |
C2—N2—H2 | 117.9 | C8—C7—H7A | 109.6 |
C6—N2—H2 | 117.9 | O2—C7—H7B | 109.6 |
F3—C1—F2 | 107.4 (2) | C8—C7—H7B | 109.6 |
F3—C1—F1 | 106.8 (2) | H7A—C7—H7B | 108.1 |
F2—C1—F1 | 107.3 (2) | C7—C8—H8A | 109.5 |
F3—C1—C4 | 111.9 (2) | C7—C8—H8B | 109.5 |
F2—C1—C4 | 111.5 (2) | H8A—C8—H8B | 109.5 |
F1—C1—C4 | 111.7 (2) | C7—C8—H8C | 109.5 |
N2—C2—N1 | 117.7 (2) | H8A—C8—H8C | 109.5 |
N2—C2—S1 | 120.65 (19) | H8B—C8—H8C | 109.5 |
N1—C2—S1 | 121.70 (19) | C10—C9—C14 | 117.0 (2) |
O1—C3—O2 | 125.8 (2) | C10—C9—C6 | 120.0 (2) |
O1—C3—C5 | 123.3 (2) | C14—C9—C6 | 122.9 (2) |
O2—C3—C5 | 110.9 (2) | C11—C10—C9 | 121.2 (3) |
N2—C6—C9 | 112.0 (2) | C11—C10—H10 | 119.4 |
N2—C6—C5 | 107.03 (19) | C9—C10—H10 | 119.4 |
C9—C6—C5 | 112.6 (2) | C12—C11—C10 | 119.8 (2) |
N2—C6—H6 | 108.4 | C12—C11—H11 | 120.1 |
C9—C6—H6 | 108.4 | C10—C11—H11 | 120.1 |
C5—C6—H6 | 108.4 | C13—C12—C11 | 120.5 (2) |
C3—C5—C6 | 109.46 (19) | C13—C12—H12 | 119.7 |
C3—C5—C4 | 113.1 (2) | C11—C12—H12 | 119.7 |
C6—C5—C4 | 106.6 (2) | C14—C13—C12 | 118.4 (3) |
C3—C5—H5 | 109.2 | C14—C13—H13 | 120.8 |
C6—C5—H5 | 109.2 | C12—C13—H13 | 120.8 |
C4—C5—H5 | 109.2 | F4—C14—C13 | 118.4 (2) |
O3—C4—N1 | 109.9 (2) | F4—C14—C9 | 118.5 (2) |
O3—C4—C1 | 107.2 (2) | C13—C14—C9 | 123.0 (2) |
C6—N2—C2—N1 | −0.1 (4) | F3—C1—C4—C5 | 62.6 (3) |
C6—N2—C2—S1 | −179.87 (18) | F2—C1—C4—C5 | −177.09 (19) |
C4—N1—C2—N2 | −4.3 (4) | F1—C1—C4—C5 | −57.1 (3) |
C4—N1—C2—S1 | 175.49 (18) | C3—C5—C4—O3 | 54.3 (3) |
C7—O2—C3—O1 | −1.5 (4) | C6—C5—C4—O3 | −66.0 (2) |
C7—O2—C3—C5 | 176.6 (2) | C3—C5—C4—N1 | 176.62 (19) |
C2—N2—C6—C9 | 157.1 (2) | C6—C5—C4—N1 | 56.3 (2) |
C2—N2—C6—C5 | 33.2 (3) | C3—C5—C4—C1 | −65.6 (3) |
O1—C3—C5—C6 | 69.9 (3) | C6—C5—C4—C1 | 174.1 (2) |
O2—C3—C5—C6 | −108.2 (2) | C3—O2—C7—C8 | −90.8 (3) |
O1—C3—C5—C4 | −48.7 (3) | N2—C6—C9—C10 | 131.1 (2) |
O2—C3—C5—C4 | 133.1 (2) | C5—C6—C9—C10 | −108.2 (3) |
N2—C6—C5—C3 | 178.0 (2) | N2—C6—C9—C14 | −51.4 (3) |
C9—C6—C5—C3 | 54.5 (3) | C5—C6—C9—C14 | 69.3 (3) |
N2—C6—C5—C4 | −59.4 (2) | C14—C9—C10—C11 | −0.9 (3) |
C9—C6—C5—C4 | 177.1 (2) | C6—C9—C10—C11 | 176.7 (2) |
C2—N1—C4—O3 | 98.7 (3) | C9—C10—C11—C12 | 2.3 (4) |
C2—N1—C4—C1 | −144.9 (2) | C10—C11—C12—C13 | −1.6 (4) |
C2—N1—C4—C5 | −25.5 (3) | C11—C12—C13—C14 | −0.6 (4) |
F3—C1—C4—O3 | −60.8 (3) | C12—C13—C14—F4 | −178.0 (2) |
F2—C1—C4—O3 | 59.5 (3) | C12—C13—C14—C9 | 2.2 (4) |
F1—C1—C4—O3 | 179.53 (18) | C10—C9—C14—F4 | 178.7 (2) |
F3—C1—C4—N1 | −179.01 (19) | C6—C9—C14—F4 | 1.2 (4) |
F2—C1—C4—N1 | −58.7 (3) | C10—C9—C14—C13 | −1.4 (4) |
F1—C1—C4—N1 | 61.3 (3) | C6—C9—C14—C13 | −178.9 (2) |
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3···O1 | 0.84 | 2.07 | 2.787 (3) | 143 |
C10—H10···F2i | 0.95 | 2.62 | 3.285 (6) | 128 |
C13—H13···F1ii | 0.95 | 2.56 | 3.262 (8) | 131 |
N1—H1···S1iii | 0.88 | 2.52 | 3.389 (2) | 171 |
N2—H2···O3iv | 0.88 | 2.23 | 3.079 (3) | 162 |
Symmetry codes: (i) x, −y+3/2, z+1/2; (ii) x, −y+1/2, z+1/2; (iii) −x, −y+1, −z; (iv) −x, y−1/2, −z+1/2. |
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3···O1 | 0.84 | 2.07 | 2.787 (3) | 143 |
C10—H10···F2i | 0.95 | 2.62 | 3.285 (6) | 128 |
C13—H13···F1ii | 0.95 | 2.56 | 3.262 (8) | 131 |
N1—H1···S1iii | 0.88 | 2.52 | 3.389 (2) | 171 |
N2—H2···O3iv | 0.88 | 2.23 | 3.079 (3) | 162 |
Symmetry codes: (i) x, −y+3/2, z+1/2; (ii) x, −y+1/2, z+1/2; (iii) −x, −y+1, −z; (iv) −x, y−1/2, −z+1/2. |
Acknowledgements
MSK is thankful to the University Grants Commission (UGC), India, for a UGC–BSR meritorious fellowship..
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Dihydropyrimidine (DHPM) derivatives can be used as potential calcium channel blockers (Zorkun et al., 2006), inhibitors of mitotic kinesin Eg5 for treating cancer (Cochran et al., 2005) and as TRPA1 modulators for treating pain (Moran et al., 2007). In addition, compounds that contain fluorine have special bioactivity, e.g. flumioxazin is a widely used herbicide (Hermann et al., 2003; Ulrich, 2004). One of the most popular fluorine- containing functional groups in drug molecules is the trifluoromethyl moiety. Because it contains three fluorine atoms, it exerts significant changes on neighbouring groups, such as increasing the acidity of other centers nearby. It is also one of the most lipophilic groups known, so it provides an extremely useful way of making a molecule more easily delivered to the active site in the body. This led us to focus our attention on the synthesis and bioactivity of these important fused perfluoroalkylated heterocyclic compounds. During the synthesis of DHPM derivatives, the title compound, an intermediate C14H14F4N2O3S (I) was isolated and the structure confirmed by X-ray diffraction. The molecular structure of the title compound is shown in Fig. 1. The 2-fluoro phenyl ring at chiral carbon atom C6 is positioned axially and bisects the pyrimidine ring with a dihedral angle of 70.92 (8) °. The hexahydro pyrimidine ring adopts a sofa conformation with atom C6 displaced by -0.5961 (3) Å from the mean plane of the other five atoms (N1/C2/N2/C5/C4). The carbonyl group of the exocyclic ester at C5 adopts a cis orientation with respect to C5—C4 single bond. The 2-fluoro phenyl ring adopts an anti periplanar conformation with respect to C6—H6 bond of the pyrimidine ring. The molecular structure is stabilized by intramolecular O—H···O hydrogen bond, generating an S(6) ring. The crystal structure is primarily stabilized by intermolecular C10—H10···F2 and C13—H13···F1 interactions which result in two dimensional sheets along [011] (Table. 1; Fig. 2). The packing is further stabilized by intermolecular N—H···S hydrogen bonds resulting in a centrosymmetric head to head dimer with graph set R22(8) notation (Bernstein et al., 1995) and intermolecular N—H···O hydrogen bonds form a molecular chain along the crystallographic b axis (Table. 1; Fig. 3).