organic compounds
2-Chloro-1-[4-(2-fluorobenzyl)piperazin-1-yl]ethanone
aKey Laboratory of Original New Drug Design and Discovery of the Ministry of Education, Shenyang Pharmaceutical University, Shenyang, Liaoning 110016, People's Republic of China, bDeparment of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China, cThe Key Laboratory of Chemical Biology, Guangdong Province, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, People's Republic of China, and dSchool of Medicine, Tsinghua University, Beijing 100084, People's Republic of China
*Correspondence e-mail: jiangyy@sz.tsinghua.edu.cn
In the title compound, C13H16ClFN2O, the piperazine ring is flanked by 1-(2-fluorobenzyl)piperazine and adopts a chair conformation. The dihedral angle between the fluorophenyl ring and the four planar C atoms (r.m.s. = 0.0055 Å) of the piperazine chair is 78.27 (7)°, whereas the dihedral angle between the four planar C atoms of the piperazine chair and the ethanone plane is 55.21 (9) Å; the Cl atom displaced by1.589 (2) Å out of the plane.
Related literature
For the synthesis of related compounds, see: Contreras et al. (2001); Capuano et al. (2002). For their use as intermediates in the synthesis of anti-inflammatory agents or CCR1 antagonists, see: Rolland & Duhault (1989); Kaufmann (2005); Tanikawa et al. (1995); Xie et al. (2007).
Experimental
Crystal data
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Data collection: APEX2 (Bruker, 2003); cell SAINT (Bruker, 2001); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: DIAMOND (Brandenburg, 1999); software used to prepare material for publication: SHELXL97.
Supporting information
10.1107/S1600536811006180/si2316sup1.cif
contains datablocks I, global. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536811006180/si2316Isup2.hkl
All chemicals and solvents were obtained from commercial supplies and used without purification. To a solution of chloroacetic chloride (0.58 ml, 7.15 mmol) in CH2Cl2 (10 ml) was added, at 0 °C, 1-(2-fluorobenzyl)piperazine(II) (1.15 g, 5.90 mmol) dissolved in CH2Cl2 (20 ml) which was prepared from the reaction of anhydrous piperazine(III) and 1-(chloromethyl)-2-fluorobenzene(IV). The reaction mixture was stirred at room temperature for about 30 min until no 1-(2-fluorobenzyl)piperazine remained, as monitored by TLC. The mixture was poured into cold H2O (50 ml) and rendered alkaline with a 10% NaHCO3 aqueous solution and separated. The organic layer, dried over Na2SO4, was evaporated under reduced pressure to give 1.44 g of pure title compound as a yellow oil. Yield 90%; 1H NMR (400 MHz, CDCl3) δ 7.35 (dd, J = 7.4, 1.4 Hz, 1H), δ 7.23–7.29 (m, 1H), δ 7.12 (t, J = 7.2 Hz, 1H), δ 7.04 (t, J = 9.2 Hz, 1H), δ 4.05 (s, 2H), δ 3.64 (d, J = 5.2 Hz, 2H), δ 3.62 (d, J = 4.4 Hz, 2H), 3.52 (t, J = 5.0 Hz, 2H), δ 2.51 (dt, J = 15.6, 4.8 Hz, 4H); 13C NMR (100.6 MHz, CDCl3) δ 161.16, 131.24, 128.88, 123.88, 123.75, 115.27, 115.05, 54.87, 52.41, 52.00, 46.06, 41.93, 40.67.
All H atoms were positioned geometrically and refined using a riding model approximation with distances C—H = 0.93 Å for the benzene ring and 0.97 Å for Csp3 carbon atoms and Uiso(H) = 1.2 times Ueq(C). The
was determined by using the with the TWIN/BASF instruction, and the coordinates of all atoms were inverted by instruction MOVE 1 1 1 - 1 in the final with SHELXL97.Data collection: APEX2 (Bruker, 2003); cell
SAINT (Bruker, 2001); data reduction: SAINT (Bruker, 2001); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: DIAMOND (Brandenburg, 1999); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).Fig. 1. Molecular structure of the title compound showing displacement ellipsoids at the 30% probability level. | |
Fig. 2. Synthesis of the title compound |
C13H16ClFN2O | F(000) = 568 |
Mr = 270.73 | Dx = 1.409 Mg m−3 |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71069 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 25 reflections |
a = 7.9350 (5) Å | θ = 7.5–15° |
b = 8.4610 (4) Å | µ = 0.30 mm−1 |
c = 19.0040 (11) Å | T = 291 K |
V = 1275.89 (12) Å3 | Block, colorless |
Z = 4 | 0.30 × 0.30 × 0.20 mm |
Bruker APEXII CCD diffractometer | 3001 independent reflections |
Radiation source: fine-focus sealed tube | 2550 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.033 |
ω scans | θmax = 28.4°, θmin = 3.2° |
Absorption correction: multi-scan (SADABS; Bruker, 2001) | h = −10→10 |
Tmin = 0.566, Tmax = 0.716 | k = −10→10 |
12886 measured reflections | l = −25→25 |
Refinement on F2 | Hydrogen site location: inferred from neighbouring sites |
Least-squares matrix: full | H-atom parameters constrained |
R[F2 > 2σ(F2)] = 0.035 | w = 1/[σ2(Fo2) + (0.028P)2 + 0.4P] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.085 | (Δ/σ)max < 0.001 |
S = 1.01 | Δρmax = 0.33 e Å−3 |
3001 reflections | Δρmin = −0.18 e Å−3 |
165 parameters | Extinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
0 restraints | Extinction coefficient: 0.077 (3) |
Primary atom site location: structure-invariant direct methods | Absolute structure: Flack (1983), 1255 Friedel pairs |
Secondary atom site location: difference Fourier map | Absolute structure parameter: 0.03 (7) |
C13H16ClFN2O | V = 1275.89 (12) Å3 |
Mr = 270.73 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 7.9350 (5) Å | µ = 0.30 mm−1 |
b = 8.4610 (4) Å | T = 291 K |
c = 19.0040 (11) Å | 0.30 × 0.30 × 0.20 mm |
Bruker APEXII CCD diffractometer | 3001 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2001) | 2550 reflections with I > 2σ(I) |
Tmin = 0.566, Tmax = 0.716 | Rint = 0.033 |
12886 measured reflections |
R[F2 > 2σ(F2)] = 0.035 | H-atom parameters constrained |
wR(F2) = 0.085 | Δρmax = 0.33 e Å−3 |
S = 1.01 | Δρmin = −0.18 e Å−3 |
3001 reflections | Absolute structure: Flack (1983), 1255 Friedel pairs |
165 parameters | Absolute structure parameter: 0.03 (7) |
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 | ||
O1 | 1.51486 (16) | 0.40256 (17) | 0.67832 (8) | 0.0512 (3) | |
Cl1 | 1.23456 (9) | 0.09826 (6) | 0.64207 (3) | 0.06647 (19) | |
F1 | 0.6313 (2) | 0.88072 (19) | 0.64912 (8) | 0.0801 (4) | |
N1 | 0.96049 (18) | 0.62572 (16) | 0.64509 (8) | 0.0378 (3) | |
N2 | 1.2433 (2) | 0.46187 (17) | 0.70180 (8) | 0.0437 (4) | |
C1 | 0.8356 (2) | 0.8253 (2) | 0.56706 (9) | 0.0415 (4) | |
C2 | 0.7317 (3) | 0.9332 (2) | 0.59859 (10) | 0.0492 (5) | |
C3 | 0.7224 (3) | 1.0901 (3) | 0.58058 (12) | 0.0622 (6) | |
H3 | 0.6497 | 1.1582 | 0.6041 | 0.075* | |
C4 | 0.8215 (3) | 1.1433 (3) | 0.52783 (12) | 0.0623 (6) | |
H4 | 0.8177 | 1.2491 | 0.5146 | 0.075* | |
C5 | 0.9276 (3) | 1.0405 (3) | 0.49380 (12) | 0.0588 (6) | |
H5 | 0.9960 | 1.0766 | 0.4574 | 0.071* | |
C6 | 0.9328 (3) | 0.8832 (3) | 0.51363 (10) | 0.0524 (5) | |
H6 | 1.0047 | 0.8148 | 0.4898 | 0.063* | |
C7 | 0.8427 (2) | 0.6546 (2) | 0.58860 (10) | 0.0459 (4) | |
H7A | 0.7312 | 0.6211 | 0.6034 | 0.055* | |
H7B | 0.8746 | 0.5912 | 0.5482 | 0.055* | |
C8 | 1.1333 (2) | 0.6613 (2) | 0.62433 (10) | 0.0424 (4) | |
H8A | 1.1409 | 0.7723 | 0.6118 | 0.051* | |
H8B | 1.1613 | 0.6000 | 0.5828 | 0.051* | |
C9 | 1.2590 (2) | 0.6266 (2) | 0.68052 (10) | 0.0459 (4) | |
H9A | 1.3719 | 0.6464 | 0.6631 | 0.055* | |
H9B | 1.2395 | 0.6951 | 0.7207 | 0.055* | |
C10 | 1.0718 (2) | 0.4225 (3) | 0.72213 (11) | 0.0500 (5) | |
H10A | 1.0413 | 0.4821 | 0.7638 | 0.060* | |
H10B | 1.0655 | 0.3109 | 0.7336 | 0.060* | |
C11 | 0.9506 (2) | 0.4583 (2) | 0.66487 (11) | 0.0460 (5) | |
H11A | 0.9758 | 0.3931 | 0.6242 | 0.055* | |
H11B | 0.8372 | 0.4337 | 0.6804 | 0.055* | |
C12 | 1.3729 (2) | 0.3613 (2) | 0.69620 (9) | 0.0388 (4) | |
C13 | 1.3417 (3) | 0.1882 (2) | 0.71208 (10) | 0.0476 (5) | |
H13A | 1.2753 | 0.1787 | 0.7547 | 0.057* | |
H13B | 1.4484 | 0.1351 | 0.7197 | 0.057* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.0326 (7) | 0.0537 (8) | 0.0671 (9) | 0.0000 (6) | −0.0001 (6) | 0.0034 (7) |
Cl1 | 0.0760 (4) | 0.0506 (3) | 0.0729 (3) | −0.0109 (3) | −0.0059 (3) | −0.0099 (3) |
F1 | 0.0805 (10) | 0.0910 (10) | 0.0688 (8) | 0.0264 (8) | 0.0272 (8) | 0.0187 (8) |
N1 | 0.0326 (7) | 0.0339 (7) | 0.0471 (8) | 0.0024 (6) | −0.0027 (6) | 0.0003 (6) |
N2 | 0.0343 (8) | 0.0416 (7) | 0.0552 (9) | 0.0042 (7) | 0.0010 (8) | 0.0090 (6) |
C1 | 0.0373 (9) | 0.0480 (10) | 0.0393 (9) | 0.0030 (8) | −0.0091 (7) | −0.0007 (8) |
C2 | 0.0465 (11) | 0.0587 (12) | 0.0423 (9) | 0.0063 (10) | −0.0002 (9) | 0.0045 (8) |
C3 | 0.0751 (15) | 0.0544 (11) | 0.0573 (12) | 0.0190 (12) | 0.0006 (12) | −0.0014 (10) |
C4 | 0.0801 (17) | 0.0479 (12) | 0.0590 (13) | −0.0008 (11) | −0.0167 (11) | 0.0099 (10) |
C5 | 0.0596 (14) | 0.0677 (14) | 0.0492 (11) | −0.0068 (11) | −0.0017 (10) | 0.0128 (10) |
C6 | 0.0502 (11) | 0.0624 (13) | 0.0447 (10) | 0.0049 (10) | −0.0006 (9) | −0.0006 (10) |
C7 | 0.0400 (10) | 0.0464 (10) | 0.0512 (10) | −0.0017 (8) | −0.0089 (9) | −0.0047 (9) |
C8 | 0.0363 (9) | 0.0337 (8) | 0.0570 (11) | −0.0023 (7) | −0.0006 (8) | 0.0053 (8) |
C9 | 0.0370 (9) | 0.0362 (9) | 0.0645 (11) | −0.0006 (8) | −0.0076 (9) | 0.0016 (8) |
C10 | 0.0393 (11) | 0.0497 (11) | 0.0610 (12) | 0.0068 (8) | 0.0094 (9) | 0.0158 (10) |
C11 | 0.0328 (9) | 0.0397 (9) | 0.0656 (13) | −0.0015 (8) | 0.0056 (9) | 0.0061 (9) |
C12 | 0.0364 (9) | 0.0433 (9) | 0.0366 (8) | 0.0023 (8) | −0.0050 (7) | −0.0010 (7) |
C13 | 0.0479 (11) | 0.0442 (11) | 0.0506 (11) | 0.0067 (9) | −0.0049 (9) | 0.0071 (9) |
O1—C12 | 1.228 (2) | C5—H5 | 0.9300 |
Cl1—C13 | 1.753 (2) | C6—H6 | 0.9300 |
F1—C2 | 1.324 (2) | C7—H7A | 0.9700 |
N1—C7 | 1.444 (2) | C7—H7B | 0.9700 |
N1—C8 | 1.459 (2) | C8—C9 | 1.490 (3) |
N1—C11 | 1.467 (2) | C8—H8A | 0.9700 |
N2—C12 | 1.339 (2) | C8—H8B | 0.9700 |
N2—C10 | 1.454 (2) | C9—H9A | 0.9700 |
N2—C9 | 1.457 (2) | C9—H9B | 0.9700 |
C1—C6 | 1.366 (3) | C10—C11 | 1.483 (3) |
C1—C2 | 1.369 (3) | C10—H10A | 0.9700 |
C1—C7 | 1.502 (3) | C10—H10B | 0.9700 |
C2—C3 | 1.373 (3) | C11—H11A | 0.9700 |
C3—C4 | 1.351 (3) | C11—H11B | 0.9700 |
C3—H3 | 0.9300 | C12—C13 | 1.515 (3) |
C4—C5 | 1.373 (3) | C13—H13A | 0.9700 |
C4—H4 | 0.9300 | C13—H13B | 0.9700 |
C5—C6 | 1.384 (3) | ||
C7—N1—C8 | 111.87 (15) | C9—C8—H8A | 108.9 |
C7—N1—C11 | 108.62 (14) | N1—C8—H8B | 108.9 |
C8—N1—C11 | 108.59 (13) | C9—C8—H8B | 108.9 |
C12—N2—C10 | 126.45 (15) | H8A—C8—H8B | 107.7 |
C12—N2—C9 | 121.38 (16) | N2—C9—C8 | 109.27 (15) |
C10—N2—C9 | 111.92 (15) | N2—C9—H9A | 109.8 |
C6—C1—C2 | 115.21 (18) | C8—C9—H9A | 109.8 |
C6—C1—C7 | 121.77 (18) | N2—C9—H9B | 109.8 |
C2—C1—C7 | 123.02 (18) | C8—C9—H9B | 109.8 |
F1—C2—C1 | 117.11 (18) | H9A—C9—H9B | 108.3 |
F1—C2—C3 | 118.22 (19) | N2—C10—C11 | 111.40 (16) |
C1—C2—C3 | 124.7 (2) | N2—C10—H10A | 109.3 |
C4—C3—C2 | 118.4 (2) | C11—C10—H10A | 109.3 |
C4—C3—H3 | 120.8 | N2—C10—H10B | 109.3 |
C2—C3—H3 | 120.8 | C11—C10—H10B | 109.3 |
C3—C4—C5 | 119.7 (2) | H10A—C10—H10B | 108.0 |
C3—C4—H4 | 120.2 | N1—C11—C10 | 110.55 (16) |
C5—C4—H4 | 120.2 | N1—C11—H11A | 109.5 |
C4—C5—C6 | 120.0 (2) | C10—C11—H11A | 109.5 |
C4—C5—H5 | 120.0 | N1—C11—H11B | 109.5 |
C6—C5—H5 | 120.0 | C10—C11—H11B | 109.5 |
C1—C6—C5 | 122.1 (2) | H11A—C11—H11B | 108.1 |
C1—C6—H6 | 119.0 | O1—C12—N2 | 123.07 (18) |
C5—C6—H6 | 119.0 | O1—C12—C13 | 118.68 (17) |
N1—C7—C1 | 112.92 (15) | N2—C12—C13 | 118.24 (17) |
N1—C7—H7A | 109.0 | C12—C13—Cl1 | 110.34 (13) |
C1—C7—H7A | 109.0 | C12—C13—H13A | 109.6 |
N1—C7—H7B | 109.0 | Cl1—C13—H13A | 109.6 |
C1—C7—H7B | 109.0 | C12—C13—H13B | 109.6 |
H7A—C7—H7B | 107.8 | Cl1—C13—H13B | 109.6 |
N1—C8—C9 | 113.25 (16) | H13A—C13—H13B | 108.1 |
N1—C8—H8A | 108.9 | ||
C6—C1—C2—F1 | 177.86 (18) | C11—N1—C8—C9 | −57.8 (2) |
C7—C1—C2—F1 | −1.6 (3) | C12—N2—C9—C8 | 120.59 (19) |
C6—C1—C2—C3 | −0.9 (3) | C10—N2—C9—C8 | −54.0 (2) |
C7—C1—C2—C3 | 179.7 (2) | N1—C8—C9—N2 | 56.1 (2) |
F1—C2—C3—C4 | −178.3 (2) | C12—N2—C10—C11 | −118.1 (2) |
C1—C2—C3—C4 | 0.4 (3) | C9—N2—C10—C11 | 56.2 (2) |
C2—C3—C4—C5 | 0.1 (3) | C7—N1—C11—C10 | 179.10 (16) |
C3—C4—C5—C6 | 0.0 (3) | C8—N1—C11—C10 | 57.2 (2) |
C2—C1—C6—C5 | 0.9 (3) | N2—C10—C11—N1 | −57.6 (2) |
C7—C1—C6—C5 | −179.60 (19) | C10—N2—C12—O1 | 179.59 (18) |
C4—C5—C6—C1 | −0.5 (3) | C9—N2—C12—O1 | 5.8 (3) |
C8—N1—C7—C1 | −63.4 (2) | C10—N2—C12—C13 | 0.2 (3) |
C11—N1—C7—C1 | 176.72 (16) | C9—N2—C12—C13 | −173.64 (16) |
C6—C1—C7—N1 | 93.1 (2) | O1—C12—C13—Cl1 | −103.48 (18) |
C2—C1—C7—N1 | −87.4 (2) | N2—C12—C13—Cl1 | 75.97 (19) |
C7—N1—C8—C9 | −177.68 (15) |
Experimental details
Crystal data | |
Chemical formula | C13H16ClFN2O |
Mr | 270.73 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 291 |
a, b, c (Å) | 7.9350 (5), 8.4610 (4), 19.0040 (11) |
V (Å3) | 1275.89 (12) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.30 |
Crystal size (mm) | 0.30 × 0.30 × 0.20 |
Data collection | |
Diffractometer | Bruker APEXII CCD diffractometer |
Absorption correction | Multi-scan (SADABS; Bruker, 2001) |
Tmin, Tmax | 0.566, 0.716 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 12886, 3001, 2550 |
Rint | 0.033 |
(sin θ/λ)max (Å−1) | 0.668 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.035, 0.085, 1.01 |
No. of reflections | 3001 |
No. of parameters | 165 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.33, −0.18 |
Absolute structure | Flack (1983), 1255 Friedel pairs |
Absolute structure parameter | 0.03 (7) |
Computer programs: APEX2 (Bruker, 2003), SAINT (Bruker, 2001), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), DIAMOND (Brandenburg, 1999).
Acknowledgements
The authors would like to thank the Ministry of Science and Technology of China (2007AA02Z160, 2009ZX09501–004) and the Chinese National Natural Science Foundation (20872077, 90813013) for financial support.
References
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This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
Piperazine derivatives similar to the title compound are well known as being useful for a variety of pharmaceutical indication, particularly as cardiotonic, neurotropic or anti-inflammatory agents (Kaufmann, 2005). The synthesis of related pyridazine compounds and their medicinal and pharmaceutical activity were reported (Contreras et al., 2001; Capuano et al., 2002). The use of related compounds as intermediates in the synthesis of antiinflammatory agents or CCRI antagonists can be studied in various patents (Rolland & Duhault, 1989; Kaufmann, 2005; Tanikawa et al., 1995) and medicinal journal (Xie et al., 2007). Moreover, we recently identified a series of compounds bearing various substituted benzylpiperazine moiety with potent antitumor activity by virtual screening approach (paper was being revised).
Herein, we report the synthesis of the title compound as one important representative of piperazine derivatives and its X-ray crystal structure. The molecule of (I) is shown in Fig. 1. The bond lengths and angles are within normal ranges. The piperazine ring in the molecule adopts a chair conformation. The dihedral angle between the fluorophenyl ring and the four planar C atoms (r.m.s. = 0.0055 Å) of the piperazine chair is 78.27 (7)°. Whereas the dihedral angle between the four planar C atoms of the piperazine chair and the ethanone plane is 55.21 (9)Å with the Cl atom about 1.589 (2) Å out of plane. In the crystal, there are no strong intermolecular hydrogen bonds to link the molecules.