organic compounds
(Z)-N-Ethyl-2-(5-fluoro-2-oxoindolin-3-ylidene)hydrazinecarbothioamide
aSchool of Chemical Sciences, Universiti Sains Malaysia, Minden, Penang, Malaysia, bFaculty of Science, Sabha University, Libya, cDepartment of Chemistry, International University of Africa, Khartoum, Sudan, and dX-ray Crystallography Unit, School of Physics,Universiti Sains Malaysia, 11800 USM, Penang, Malaysia
*Correspondence e-mail: sgteoh@usm.my
In the title compound, C11H11FN4OS, an intramolecular N—H⋯O hydrogen bond generates an S(6) ring. In the crystal, molecules form chains through N—H⋯O hydrogen bonds, which are extended by N—H⋯S hydrogen bonds into an infinite three-dimensional network.
Related literature
For related structures, see: Ali et al. (2012a,b); Qasem Ali et al. (2011; 2012a,b,c,d). For graph-set analysis, see Bernstein et al. (1995). For the biological activity of isatin and its derivatives, see: Suryavanshi & Pai (2006); Pandeya et al. (1999); Bhandari et al. (2008).
Experimental
Crystal data
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Data collection: APEX2 (Bruker, 2005); cell SAINT (Bruker, 2005); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009).
Supporting information
https://doi.org/10.1107/S1600536812036471/fy2062sup1.cif
contains datablocks I, global. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S1600536812036471/fy2062Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S1600536812036471/fy2062Isup3.cml
The Schiff base has been synthesized by refluxing the reaction mixture of a hot ethanolic solution (30 ml) of 4-ethyl-3-thiosemicarbazide (0.01 mol) and a hot ethanolic solution (30 ml) of 5-flouroisatin (0.01 mol) for 2 hrs. The precipitate formed on cooling of the reaction mixture was filtered, washed with cold EtOH and recrystallized from hot EtOH. Yield: 80%; m.p.: 521.3–522.1 K. The yellow crystals were grown in ethanol-DMF (4:1) by slow evaporation at room temperature.
N-bound H atoms were located in a difference Fourier map and were refined freely. The remaining H atoms were positioned geometrically and refined using a riding model, with C—H = 0.95 Å for aromatic ring, C—H = 0.98 Å for methyl group and C—H = 0.99 Å for methylene group H atoms, and with Uiso(H) = 1.2 Ueq(C), 1.2Ueq(C) and 1.5Ueq(C) for aromatic ring, methylene group and methyl group H atoms, respectively. The highest residual electron density peak is located at 0.11 Å from S1 and the deepest hole is located at 0.47 Å from S1.
Isatin (2,3-dioxindole) is an endogenous compound identified in humans, and its effect has been studied in a variety of systems. The biological properties of isatin and its derivatives include a range of actions in the brain, they offer protection against bacterial (Suryavanshi & Pai, 2006) and fungal infections and they confer anticonvulsant, anti-HIV (Pandeya et al., 1999), anti-depressant and anti-inflammatory activities (Bhandari et al., 2008). In the present paper we describe the single-crystal X-ray diffraction study of title compound, Fig. 1.
In the title compound C11H11FN4OS, (Fig. 1), the intramolecular N3—H1N3···O1 hydrogen-bonding interaction generates a ring motif [graph set S(6)]. In the crystal the molecules form chains through intermolecular N1—H1N1···O1 hydrogen bonds, which are extended by the N4—H1N4···S1 hydrogen bonding interaction into an infinite three-dimensional network (Fig. 2, Table 1).
For related structures, see: Ali et al. (2012a,b); Qasem Ali et al. (2011; 2012a,b,c,d). For graph-set analysis, see Bernstein et al. (1995). For the biological activity of isatin and its derivatives, see: Suryavanshi & Pai (2006); Pandeya et al. (1999); Bhandari et al. (2008).
Data collection: APEX2 (Bruker, 2005); cell
SAINT (Bruker, 2005); data reduction: SAINT (Bruker, 2005); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).C11H11FN4OS | Dx = 1.511 Mg m−3 |
Mr = 266.30 | Melting point = 521.3–522.1 K |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 1888 reflections |
a = 4.5151 (1) Å | θ = 3.3–26.6° |
b = 11.6102 (3) Å | µ = 0.28 mm−1 |
c = 22.3255 (7) Å | T = 100 K |
V = 1170.33 (5) Å3 | Needle, yellow |
Z = 4 | 0.43 × 0.09 × 0.05 mm |
F(000) = 552 |
Bruker APEXII CCD diffractometer | 3384 independent reflections |
Radiation source: fine-focus sealed tube | 2558 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.047 |
φ and ω scans | θmax = 30.0°, θmin = 1.8° |
Absorption correction: multi-scan (SADABS; Bruker, 2005) | h = −6→3 |
Tmin = 0.887, Tmax = 0.987 | k = −16→16 |
8163 measured reflections | l = −31→19 |
Refinement on F2 | Secondary atom site location: difference Fourier map |
Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
R[F2 > 2σ(F2)] = 0.064 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.098 | w = 1/[σ2(Fo2) + (0.0233P)2 + 0.3031P] where P = (Fo2 + 2Fc2)/3 |
S = 1.09 | (Δ/σ)max = 0.001 |
3384 reflections | Δρmax = 0.48 e Å−3 |
176 parameters | Δρmin = −0.40 e Å−3 |
0 restraints | Absolute structure: Flack (1983), 1367 Friedel pairs |
Primary atom site location: structure-invariant direct methods | Absolute structure parameter: −0.12 (12) |
C11H11FN4OS | V = 1170.33 (5) Å3 |
Mr = 266.30 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 4.5151 (1) Å | µ = 0.28 mm−1 |
b = 11.6102 (3) Å | T = 100 K |
c = 22.3255 (7) Å | 0.43 × 0.09 × 0.05 mm |
Bruker APEXII CCD diffractometer | 3384 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2005) | 2558 reflections with I > 2σ(I) |
Tmin = 0.887, Tmax = 0.987 | Rint = 0.047 |
8163 measured reflections |
R[F2 > 2σ(F2)] = 0.064 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.098 | Δρmax = 0.48 e Å−3 |
S = 1.09 | Δρmin = −0.40 e Å−3 |
3384 reflections | Absolute structure: Flack (1983), 1367 Friedel pairs |
176 parameters | Absolute structure parameter: −0.12 (12) |
0 restraints |
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. |
x | y | z | Uiso*/Ueq | ||
S1 | 1.24481 (17) | 0.73593 (5) | 0.74840 (3) | 0.01960 (16) | |
F1 | −0.1405 (4) | 0.22456 (12) | 0.90756 (7) | 0.0262 (4) | |
O1 | 0.7062 (4) | 0.74520 (13) | 0.92210 (7) | 0.0173 (4) | |
N1 | 0.3500 (6) | 0.63660 (18) | 0.97059 (10) | 0.0169 (5) | |
N2 | 0.6774 (5) | 0.54684 (16) | 0.83437 (9) | 0.0146 (5) | |
N3 | 0.8668 (5) | 0.63110 (18) | 0.81930 (9) | 0.0143 (5) | |
N4 | 1.0264 (6) | 0.5213 (2) | 0.74068 (10) | 0.0181 (5) | |
C1 | 0.2029 (7) | 0.5313 (2) | 0.96080 (11) | 0.0149 (6) | |
C2 | −0.0082 (7) | 0.4801 (2) | 0.99618 (11) | 0.0173 (6) | |
H2A | −0.0732 | 0.5149 | 1.0324 | 0.021* | |
C3 | −0.1231 (7) | 0.3755 (2) | 0.97690 (12) | 0.0180 (6) | |
H3A | −0.2699 | 0.3370 | 0.9999 | 0.022* | |
C4 | −0.0221 (7) | 0.3275 (2) | 0.92389 (12) | 0.0188 (7) | |
C5 | 0.1898 (7) | 0.3770 (2) | 0.88805 (11) | 0.0171 (6) | |
H5A | 0.2550 | 0.3412 | 0.8521 | 0.021* | |
C6 | 0.3043 (6) | 0.48216 (19) | 0.90700 (11) | 0.0131 (6) | |
C7 | 0.5237 (6) | 0.5616 (2) | 0.88265 (11) | 0.0124 (6) | |
C8 | 0.5425 (7) | 0.6604 (2) | 0.92589 (11) | 0.0138 (6) | |
C9 | 1.0386 (6) | 0.6223 (2) | 0.76802 (11) | 0.0153 (6) | |
C10 | 1.1774 (7) | 0.4928 (2) | 0.68493 (11) | 0.0205 (7) | |
H10A | 1.2888 | 0.4200 | 0.6901 | 0.025* | |
H10B | 1.3211 | 0.5544 | 0.6751 | 0.025* | |
C11 | 0.9584 (7) | 0.4796 (2) | 0.63365 (12) | 0.0211 (7) | |
H11A | 1.0663 | 0.4636 | 0.5965 | 0.032* | |
H11B | 0.8445 | 0.5509 | 0.6291 | 0.032* | |
H11C | 0.8232 | 0.4157 | 0.6423 | 0.032* | |
H1N1 | 0.326 (7) | 0.679 (2) | 1.0006 (11) | 0.026 (9)* | |
H1N3 | 0.866 (6) | 0.696 (2) | 0.8394 (10) | 0.009 (7)* | |
H1N4 | 0.928 (7) | 0.473 (2) | 0.7566 (12) | 0.018 (8)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
S1 | 0.0212 (4) | 0.0175 (3) | 0.0201 (3) | −0.0010 (3) | 0.0025 (3) | 0.0015 (3) |
F1 | 0.0337 (11) | 0.0178 (7) | 0.0269 (9) | −0.0080 (8) | 0.0005 (8) | 0.0005 (7) |
O1 | 0.0213 (12) | 0.0156 (8) | 0.0150 (9) | −0.0033 (9) | 0.0001 (8) | −0.0028 (7) |
N1 | 0.0218 (14) | 0.0167 (11) | 0.0121 (12) | 0.0002 (11) | 0.0024 (11) | −0.0060 (10) |
N2 | 0.0146 (14) | 0.0166 (10) | 0.0124 (11) | 0.0004 (10) | −0.0012 (10) | 0.0009 (9) |
N3 | 0.0157 (13) | 0.0150 (10) | 0.0121 (12) | 0.0007 (10) | 0.0019 (10) | −0.0023 (10) |
N4 | 0.0214 (15) | 0.0194 (11) | 0.0136 (13) | −0.0022 (11) | 0.0043 (11) | −0.0024 (10) |
C1 | 0.0178 (17) | 0.0140 (11) | 0.0130 (13) | 0.0044 (12) | −0.0019 (12) | 0.0020 (10) |
C2 | 0.0191 (17) | 0.0203 (13) | 0.0125 (14) | 0.0041 (13) | 0.0013 (13) | 0.0018 (11) |
C3 | 0.0164 (16) | 0.0199 (13) | 0.0176 (15) | 0.0002 (12) | −0.0001 (12) | 0.0089 (12) |
C4 | 0.0226 (18) | 0.0130 (12) | 0.0209 (15) | 0.0001 (13) | −0.0061 (13) | 0.0021 (12) |
C5 | 0.0198 (17) | 0.0161 (12) | 0.0153 (14) | 0.0006 (12) | −0.0028 (12) | −0.0008 (11) |
C6 | 0.0149 (16) | 0.0140 (11) | 0.0105 (13) | 0.0030 (11) | 0.0004 (11) | 0.0020 (10) |
C7 | 0.0148 (16) | 0.0138 (12) | 0.0085 (13) | 0.0030 (11) | −0.0020 (11) | −0.0001 (10) |
C8 | 0.0147 (16) | 0.0165 (12) | 0.0103 (13) | 0.0041 (12) | −0.0033 (11) | −0.0010 (11) |
C9 | 0.0137 (15) | 0.0203 (13) | 0.0118 (13) | 0.0038 (12) | −0.0015 (11) | 0.0024 (11) |
C10 | 0.0234 (18) | 0.0204 (13) | 0.0179 (15) | 0.0000 (13) | 0.0063 (13) | −0.0042 (11) |
C11 | 0.0266 (19) | 0.0200 (13) | 0.0166 (15) | −0.0022 (14) | 0.0043 (13) | −0.0021 (12) |
S1—C9 | 1.673 (3) | C2—C3 | 1.390 (4) |
F1—C4 | 1.359 (3) | C2—H2A | 0.9500 |
O1—C8 | 1.234 (3) | C3—C4 | 1.385 (4) |
N1—C8 | 1.352 (3) | C3—H3A | 0.9500 |
N1—C1 | 1.409 (3) | C4—C5 | 1.373 (4) |
N1—H1N1 | 0.84 (2) | C5—C6 | 1.392 (3) |
N2—C7 | 1.293 (3) | C5—H5A | 0.9500 |
N2—N3 | 1.342 (3) | C6—C7 | 1.459 (4) |
N3—C9 | 1.387 (3) | C7—C8 | 1.501 (3) |
N3—H1N3 | 0.88 (2) | C10—C11 | 1.521 (4) |
N4—C9 | 1.323 (3) | C10—H10A | 0.9900 |
N4—C10 | 1.457 (3) | C10—H10B | 0.9900 |
N4—H1N4 | 0.80 (3) | C11—H11A | 0.9800 |
C1—C2 | 1.373 (4) | C11—H11B | 0.9800 |
C1—C6 | 1.406 (3) | C11—H11C | 0.9800 |
C8—N1—C1 | 111.5 (2) | C5—C6—C1 | 119.6 (2) |
C8—N1—H1N1 | 123 (2) | C5—C6—C7 | 133.9 (2) |
C1—N1—H1N1 | 125 (2) | C1—C6—C7 | 106.4 (2) |
C7—N2—N3 | 117.0 (2) | N2—C7—C6 | 126.2 (2) |
N2—N3—C9 | 120.7 (2) | N2—C7—C8 | 127.4 (2) |
N2—N3—H1N3 | 119.8 (17) | C6—C7—C8 | 106.4 (2) |
C9—N3—H1N3 | 119.0 (17) | O1—C8—N1 | 126.8 (2) |
C9—N4—C10 | 125.2 (2) | O1—C8—C7 | 126.8 (2) |
C9—N4—H1N4 | 116.1 (19) | N1—C8—C7 | 106.4 (2) |
C10—N4—H1N4 | 118.7 (19) | N4—C9—N3 | 115.0 (2) |
C2—C1—C6 | 122.8 (2) | N4—C9—S1 | 126.9 (2) |
C2—C1—N1 | 127.8 (2) | N3—C9—S1 | 118.02 (19) |
C6—C1—N1 | 109.3 (2) | N4—C10—C11 | 111.2 (2) |
C1—C2—C3 | 117.3 (2) | N4—C10—H10A | 109.4 |
C1—C2—H2A | 121.3 | C11—C10—H10A | 109.4 |
C3—C2—H2A | 121.3 | N4—C10—H10B | 109.4 |
C4—C3—C2 | 119.6 (3) | C11—C10—H10B | 109.4 |
C4—C3—H3A | 120.2 | H10A—C10—H10B | 108.0 |
C2—C3—H3A | 120.2 | C10—C11—H11A | 109.5 |
F1—C4—C5 | 119.1 (2) | C10—C11—H11B | 109.5 |
F1—C4—C3 | 116.9 (3) | H11A—C11—H11B | 109.5 |
C5—C4—C3 | 124.0 (2) | C10—C11—H11C | 109.5 |
C4—C5—C6 | 116.7 (2) | H11A—C11—H11C | 109.5 |
C4—C5—H5A | 121.7 | H11B—C11—H11C | 109.5 |
C6—C5—H5A | 121.7 | ||
C7—N2—N3—C9 | −179.6 (2) | N3—N2—C7—C8 | −3.2 (4) |
C8—N1—C1—C2 | −179.4 (3) | C5—C6—C7—N2 | −2.3 (5) |
C8—N1—C1—C6 | 0.4 (3) | C1—C6—C7—N2 | 177.7 (3) |
C6—C1—C2—C3 | −0.1 (4) | C5—C6—C7—C8 | 179.8 (3) |
N1—C1—C2—C3 | 179.7 (2) | C1—C6—C7—C8 | −0.1 (3) |
C1—C2—C3—C4 | 0.1 (4) | C1—N1—C8—O1 | −178.9 (2) |
C2—C3—C4—F1 | 179.4 (2) | C1—N1—C8—C7 | −0.4 (3) |
C2—C3—C4—C5 | 0.2 (4) | N2—C7—C8—O1 | 1.0 (5) |
F1—C4—C5—C6 | −179.8 (2) | C6—C7—C8—O1 | 178.8 (2) |
C3—C4—C5—C6 | −0.6 (4) | N2—C7—C8—N1 | −177.5 (3) |
C4—C5—C6—C1 | 0.6 (4) | C6—C7—C8—N1 | 0.3 (3) |
C4—C5—C6—C7 | −179.4 (3) | C10—N4—C9—N3 | 177.4 (2) |
C2—C1—C6—C5 | −0.3 (4) | C10—N4—C9—S1 | −4.7 (4) |
N1—C1—C6—C5 | 179.9 (2) | N2—N3—C9—N4 | −7.8 (4) |
C2—C1—C6—C7 | 179.7 (3) | N2—N3—C9—S1 | 174.10 (18) |
N1—C1—C6—C7 | −0.2 (3) | C9—N4—C10—C11 | −109.6 (3) |
N3—N2—C7—C6 | 179.4 (2) |
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N1···O1i | 0.84 (2) | 2.01 (2) | 2.836 (3) | 168 (3) |
N3—H1N3···O1 | 0.88 (2) | 2.06 (2) | 2.747 (3) | 134 (2) |
N4—H1N4···S1ii | 0.80 (3) | 2.86 (2) | 3.541 (2) | 144 (2) |
Symmetry codes: (i) x−1/2, −y+3/2, −z+2; (ii) −x+2, y−1/2, −z+3/2. |
Experimental details
Crystal data | |
Chemical formula | C11H11FN4OS |
Mr | 266.30 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 100 |
a, b, c (Å) | 4.5151 (1), 11.6102 (3), 22.3255 (7) |
V (Å3) | 1170.33 (5) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.28 |
Crystal size (mm) | 0.43 × 0.09 × 0.05 |
Data collection | |
Diffractometer | Bruker APEXII CCD |
Absorption correction | Multi-scan (SADABS; Bruker, 2005) |
Tmin, Tmax | 0.887, 0.987 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 8163, 3384, 2558 |
Rint | 0.047 |
(sin θ/λ)max (Å−1) | 0.703 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.064, 0.098, 1.09 |
No. of reflections | 3384 |
No. of parameters | 176 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.48, −0.40 |
Absolute structure | Flack (1983), 1367 Friedel pairs |
Absolute structure parameter | −0.12 (12) |
Computer programs: APEX2 (Bruker, 2005), SAINT (Bruker, 2005), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N1···O1i | 0.84 (2) | 2.01 (2) | 2.836 (3) | 168 (3) |
N3—H1N3···O1 | 0.88 (2) | 2.06 (2) | 2.747 (3) | 134 (2) |
N4—H1N4···S1ii | 0.80 (3) | 2.86 (2) | 3.541 (2) | 144 (2) |
Symmetry codes: (i) x−1/2, −y+3/2, −z+2; (ii) −x+2, y−1/2, −z+3/2. |
Acknowledgements
The authors thank the Malaysian Government and Universiti Sains Malaysia for the RU research grant (1001/PKIMIA/815067). AQA thanks the Ministry of Higher Education and the University of Sabha (Libya) for a scholarship.
References
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Isatin (2,3-dioxindole) is an endogenous compound identified in humans, and its effect has been studied in a variety of systems. The biological properties of isatin and its derivatives include a range of actions in the brain, they offer protection against bacterial (Suryavanshi & Pai, 2006) and fungal infections and they confer anticonvulsant, anti-HIV (Pandeya et al., 1999), anti-depressant and anti-inflammatory activities (Bhandari et al., 2008). In the present paper we describe the single-crystal X-ray diffraction study of title compound, Fig. 1.
In the title compound C11H11FN4OS, (Fig. 1), the intramolecular N3—H1N3···O1 hydrogen-bonding interaction generates a ring motif [graph set S(6)]. In the crystal the molecules form chains through intermolecular N1—H1N1···O1 hydrogen bonds, which are extended by the N4—H1N4···S1 hydrogen bonding interaction into an infinite three-dimensional network (Fig. 2, Table 1).