organic compounds
2-[(2,6-Dichlorobenzyl)amino]-N-(4-methylthiazol-2-yl)acetamide
aCollege of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, People's Republic of China, and bTianjin Key Laboratory of Molecular Design and Drug Discovery, Tianjin Institute of Pharmaceutical Research, Tianjin 300193, People's Republic of China
*Correspondence e-mail: qubaohan2009@yahoo.cn
In the title compound, C13H13Cl2N3OS, the thiazole and benzene rings are roughly parallel to one another in two layers [dihedral angle = 5.08 (2)°] because the N—C—C—N—C chain that links the two rings is folded [N—C—C—N torsion angle = 12.0 (2)°] rather than fully extended. An intramolecular N—H⋯N interaction occurs. In the crystal, weak intermolecular N—H⋯N and C—H⋯O interactions are present and π–π interactions are indicated by the short distances [3.507 (3)–3.665 (2) Å] between the centroids of the thiazole and benzene rings.
Related literature
For details of the biological activity of Dipeptidyl peptidase IV (DPP-IV) inhibitors, see: Cheon et al. (2005); Kondo et al. (2007); Sakashita et al. (2006); Zhan et al. (2009). For bond-length data, see: Allen et al. (1987).
Experimental
Crystal data
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Refinement
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Data collection: CrystalClear (Rigaku, 2007); cell CrystalClear; data reduction: CrystalClear; 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.
Supporting information
10.1107/S1600536810003089/fl2286sup1.cif
contains datablocks I, global. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536810003089/fl2286Isup2.hkl
A round-bottomed flask was charged with [(2,6-dichlorophenyl)methyl]amine (1.76 g, 10 mmol), 2-[(2-chloroacetyl)amino]-4-methylthiazole (1.91 g, 10 mmol), triethylamine (1.21 g, 12 mmol) and THF (20 ml), and the resulting mixture was stirred at room temperature over night. The reaction mixture was concentrated on a rotary evaporator and diluted with 100 ml of dichloromethane, and the organic solution thus obtained was washed with saturated brine, dried over sodium sulfate and evaporated on a rotary evaporator to afford a solid residue, which was triturated with a mixed solvent consisting of 5 ml of dichloromethane and 10 ml of ethyl acetate and filtered. The crystals were collected and dried to yield the title compound as colorless crystals 2.51 g (Yield 76.1%). Crystals suitable for single-crystal X-ray diffraction were obtained via slow evaporation at room temperature of a solution of the pure title compound in dichloromethane.
All H atoms were found on difference maps. The H atoms of secondary amine were refined freely, giveing 0.84 or 0.89 Å, and C—H hyrdogens in the final cycles of
using a riding model, giveing 0.95-0.99 Å, with Uiso(H) = 1.2Ueq(C) and 1.5Ueq(C) for the methyl H atoms.Data collection: CrystalClear (Rigaku, 2007); cell
CrystalClear (Rigaku, 2007); data reduction: CrystalClear (Rigaku, 2007); 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).C13H13Cl2N3OS | F(000) = 1360 |
Mr = 330.22 | Dx = 1.529 Mg m−3 |
Monoclinic, C2/c | Mo Kα radiation, λ = 0.71075 Å |
Hall symbol: -C 2yc | Cell parameters from 5153 reflections |
a = 14.008 (4) Å | θ = 1.8–27.9° |
b = 18.133 (5) Å | µ = 0.60 mm−1 |
c = 11.390 (3) Å | T = 113 K |
β = 97.341 (3)° | Prism, colorless |
V = 2869.4 (14) Å3 | 0.22 × 0.18 × 0.16 mm |
Z = 8 |
Rigaku Saturn diffractometer | 3371 independent reflections |
Radiation source: rotating anode | 3150 reflections with I > 2σ(I) |
Multilayer monochromator | Rint = 0.036 |
Detector resolution: 14.63 pixels mm-1 | θmax = 27.9°, θmin = 1.9° |
ω and ϕ scans | h = −18→18 |
Absorption correction: multi-scan (CrystalClear; Rigaku, 2007) | k = −23→18 |
Tmin = 0.880, Tmax = 0.911 | l = −13→14 |
11103 measured reflections |
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)] = 0.056 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.131 | w = 1/[σ2(Fo2) + (0.0837P)2 + 0.6909P] where P = (Fo2 + 2Fc2)/3 |
S = 1.20 | (Δ/σ)max < 0.001 |
3371 reflections | Δρmax = 0.65 e Å−3 |
191 parameters | Δρmin = −0.83 e Å−3 |
0 restraints | Extinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.086 (3) |
C13H13Cl2N3OS | V = 2869.4 (14) Å3 |
Mr = 330.22 | Z = 8 |
Monoclinic, C2/c | Mo Kα radiation |
a = 14.008 (4) Å | µ = 0.60 mm−1 |
b = 18.133 (5) Å | T = 113 K |
c = 11.390 (3) Å | 0.22 × 0.18 × 0.16 mm |
β = 97.341 (3)° |
Rigaku Saturn diffractometer | 3371 independent reflections |
Absorption correction: multi-scan (CrystalClear; Rigaku, 2007) | 3150 reflections with I > 2σ(I) |
Tmin = 0.880, Tmax = 0.911 | Rint = 0.036 |
11103 measured reflections |
R[F2 > 2σ(F2)] = 0.056 | 0 restraints |
wR(F2) = 0.131 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.20 | Δρmax = 0.65 e Å−3 |
3371 reflections | Δρmin = −0.83 e Å−3 |
191 parameters |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 | ||
Cl1 | 0.59889 (3) | 0.30694 (2) | 0.64087 (4) | 0.03507 (18) | |
Cl2 | 0.60026 (3) | 0.00844 (2) | 0.65202 (3) | 0.03000 (17) | |
S1 | 0.60179 (3) | 0.37651 (2) | 0.15270 (3) | 0.02879 (17) | |
O1 | 0.59946 (9) | 0.22476 (8) | 0.16770 (10) | 0.0371 (3) | |
N2 | 0.65223 (10) | 0.28348 (8) | 0.33975 (11) | 0.0262 (3) | |
N1 | 0.66017 (10) | 0.41118 (7) | 0.37000 (11) | 0.0260 (3) | |
N3 | 0.66669 (9) | 0.15932 (7) | 0.46748 (11) | 0.0244 (3) | |
C1 | 0.64101 (10) | 0.35505 (9) | 0.29875 (12) | 0.0242 (3) | |
C2 | 0.64316 (12) | 0.47666 (9) | 0.30816 (14) | 0.0284 (3) | |
C3 | 0.61282 (13) | 0.46827 (10) | 0.19104 (15) | 0.0325 (4) | |
H3A | 0.5994 | 0.5080 | 0.1370 | 0.039* | |
C4 | 0.65614 (15) | 0.54732 (10) | 0.37486 (15) | 0.0368 (4) | |
H4A | 0.6702 | 0.5869 | 0.3211 | 0.055* | |
H4B | 0.7097 | 0.5425 | 0.4387 | 0.055* | |
H4C | 0.5971 | 0.5590 | 0.4087 | 0.055* | |
C5 | 0.63006 (11) | 0.22221 (9) | 0.27318 (13) | 0.0282 (4) | |
C6 | 0.64796 (12) | 0.15012 (9) | 0.33971 (13) | 0.0290 (4) | |
H6A | 0.5911 | 0.1178 | 0.3207 | 0.035* | |
H6B | 0.7037 | 0.1250 | 0.3119 | 0.035* | |
C7 | 0.57765 (11) | 0.15610 (8) | 0.52297 (13) | 0.0239 (3) | |
H7A | 0.5421 | 0.1103 | 0.4986 | 0.029* | |
H7B | 0.5360 | 0.1986 | 0.4964 | 0.029* | |
C8 | 0.60135 (10) | 0.15779 (8) | 0.65549 (12) | 0.0216 (3) | |
C9 | 0.61402 (11) | 0.22376 (8) | 0.71857 (13) | 0.0251 (3) | |
C10 | 0.63758 (11) | 0.22652 (10) | 0.84107 (14) | 0.0299 (4) | |
H10 | 0.6454 | 0.2726 | 0.8809 | 0.036* | |
C11 | 0.64947 (12) | 0.16110 (10) | 0.90375 (14) | 0.0299 (4) | |
H11 | 0.6655 | 0.1622 | 0.9873 | 0.036* | |
C12 | 0.63813 (11) | 0.09389 (9) | 0.84525 (14) | 0.0275 (3) | |
H12 | 0.6462 | 0.0488 | 0.8880 | 0.033* | |
C13 | 0.61481 (10) | 0.09381 (8) | 0.72306 (13) | 0.0232 (3) | |
H2 | 0.6752 (16) | 0.2782 (14) | 0.411 (2) | 0.049 (6)* | |
H3 | 0.7065 (14) | 0.1245 (11) | 0.5004 (18) | 0.030 (5)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Cl1 | 0.0473 (3) | 0.0242 (2) | 0.0324 (3) | −0.00894 (14) | −0.0001 (2) | 0.00170 (13) |
Cl2 | 0.0396 (3) | 0.0237 (3) | 0.0275 (3) | −0.00282 (13) | 0.00714 (17) | 0.00110 (12) |
S1 | 0.0322 (3) | 0.0420 (3) | 0.0119 (2) | −0.00337 (14) | 0.00174 (16) | 0.00325 (13) |
O1 | 0.0493 (8) | 0.0486 (8) | 0.0121 (5) | −0.0193 (5) | −0.0016 (5) | −0.0025 (5) |
N2 | 0.0355 (7) | 0.0315 (7) | 0.0105 (6) | −0.0120 (5) | −0.0011 (5) | 0.0016 (5) |
N1 | 0.0302 (7) | 0.0323 (7) | 0.0157 (6) | −0.0046 (5) | 0.0031 (5) | 0.0022 (5) |
N3 | 0.0305 (7) | 0.0278 (7) | 0.0147 (6) | −0.0082 (5) | 0.0028 (5) | −0.0007 (4) |
C1 | 0.0244 (7) | 0.0353 (8) | 0.0131 (7) | −0.0071 (6) | 0.0029 (5) | 0.0024 (5) |
C2 | 0.0309 (8) | 0.0345 (8) | 0.0211 (8) | 0.0034 (6) | 0.0079 (6) | 0.0043 (6) |
C3 | 0.0397 (9) | 0.0384 (9) | 0.0200 (8) | 0.0065 (7) | 0.0066 (6) | 0.0064 (6) |
C4 | 0.0546 (11) | 0.0321 (8) | 0.0253 (8) | 0.0080 (7) | 0.0110 (7) | 0.0037 (6) |
C5 | 0.0331 (8) | 0.0380 (8) | 0.0134 (7) | −0.0158 (6) | 0.0027 (6) | −0.0025 (6) |
C6 | 0.0411 (9) | 0.0298 (8) | 0.0161 (8) | −0.0137 (6) | 0.0033 (6) | −0.0048 (6) |
C7 | 0.0282 (7) | 0.0285 (8) | 0.0146 (7) | −0.0088 (5) | 0.0007 (5) | 0.0015 (5) |
C8 | 0.0222 (7) | 0.0265 (8) | 0.0160 (7) | −0.0061 (5) | 0.0016 (5) | 0.0002 (5) |
C9 | 0.0271 (7) | 0.0277 (7) | 0.0201 (7) | −0.0056 (5) | 0.0008 (6) | 0.0005 (5) |
C10 | 0.0297 (8) | 0.0367 (8) | 0.0226 (8) | −0.0045 (6) | 0.0007 (6) | −0.0084 (6) |
C11 | 0.0273 (8) | 0.0471 (10) | 0.0147 (7) | −0.0007 (6) | 0.0007 (6) | −0.0007 (6) |
C12 | 0.0262 (7) | 0.0378 (9) | 0.0190 (7) | 0.0009 (6) | 0.0042 (6) | 0.0064 (6) |
C13 | 0.0236 (7) | 0.0272 (7) | 0.0192 (7) | −0.0035 (5) | 0.0044 (5) | 0.0009 (5) |
Cl1—C9 | 1.7480 (16) | C4—H4B | 0.9800 |
Cl2—C13 | 1.7465 (16) | C4—H4C | 0.9800 |
S1—C3 | 1.7222 (19) | C5—C6 | 1.516 (2) |
S1—C1 | 1.7282 (15) | C6—H6A | 0.9900 |
O1—C5 | 1.2238 (19) | C6—H6B | 0.9900 |
N2—C5 | 1.359 (2) | C7—C8 | 1.5038 (19) |
N2—C1 | 1.381 (2) | C7—H7A | 0.9900 |
N2—H2 | 0.84 (2) | C7—H7B | 0.9900 |
N1—C1 | 1.308 (2) | C8—C13 | 1.392 (2) |
N1—C2 | 1.385 (2) | C8—C9 | 1.395 (2) |
N3—C6 | 1.4550 (19) | C9—C10 | 1.393 (2) |
N3—C7 | 1.470 (2) | C10—C11 | 1.384 (3) |
N3—H3 | 0.89 (2) | C10—H10 | 0.9500 |
C2—C3 | 1.356 (2) | C11—C12 | 1.388 (2) |
C2—C4 | 1.489 (3) | C11—H11 | 0.9500 |
C3—H3A | 0.9500 | C12—C13 | 1.388 (2) |
C4—H4A | 0.9800 | C12—H12 | 0.9500 |
C3—S1—C1 | 88.07 (8) | C5—C6—H6A | 108.9 |
C5—N2—C1 | 124.86 (13) | N3—C6—H6B | 108.9 |
C5—N2—H2 | 118.5 (17) | C5—C6—H6B | 108.9 |
C1—N2—H2 | 116.6 (17) | H6A—C6—H6B | 107.7 |
C1—N1—C2 | 110.07 (13) | N3—C7—C8 | 109.89 (11) |
C6—N3—C7 | 111.78 (12) | N3—C7—H7A | 109.7 |
C6—N3—H3 | 111.3 (13) | C8—C7—H7A | 109.7 |
C7—N3—H3 | 108.1 (13) | N3—C7—H7B | 109.7 |
N1—C1—N2 | 121.05 (13) | C8—C7—H7B | 109.7 |
N1—C1—S1 | 115.90 (12) | H7A—C7—H7B | 108.2 |
N2—C1—S1 | 123.05 (11) | C13—C8—C9 | 115.51 (13) |
C3—C2—N1 | 114.58 (15) | C13—C8—C7 | 122.35 (13) |
C3—C2—C4 | 126.94 (15) | C9—C8—C7 | 122.11 (13) |
N1—C2—C4 | 118.44 (14) | C10—C9—C8 | 123.02 (14) |
C2—C3—S1 | 111.37 (12) | C10—C9—Cl1 | 118.29 (12) |
C2—C3—H3A | 124.3 | C8—C9—Cl1 | 118.69 (11) |
S1—C3—H3A | 124.3 | C11—C10—C9 | 118.91 (15) |
C2—C4—H4A | 109.5 | C11—C10—H10 | 120.5 |
C2—C4—H4B | 109.5 | C9—C10—H10 | 120.5 |
H4A—C4—H4B | 109.5 | C10—C11—C12 | 120.41 (15) |
C2—C4—H4C | 109.5 | C10—C11—H11 | 119.8 |
H4A—C4—H4C | 109.5 | C12—C11—H11 | 119.8 |
H4B—C4—H4C | 109.5 | C11—C12—C13 | 118.67 (14) |
O1—C5—N2 | 122.92 (15) | C11—C12—H12 | 120.7 |
O1—C5—C6 | 122.55 (14) | C13—C12—H12 | 120.7 |
N2—C5—C6 | 114.51 (13) | C12—C13—C8 | 123.46 (14) |
N3—C6—C5 | 113.47 (13) | C12—C13—Cl2 | 117.64 (12) |
N3—C6—H6A | 108.9 | C8—C13—Cl2 | 118.89 (11) |
C2—N1—C1—N2 | −179.90 (14) | N3—C7—C8—C13 | −91.91 (15) |
C2—N1—C1—S1 | 0.25 (17) | N3—C7—C8—C9 | 86.22 (17) |
C5—N2—C1—N1 | 176.97 (15) | C13—C8—C9—C10 | −0.6 (2) |
C5—N2—C1—S1 | −3.2 (2) | C7—C8—C9—C10 | −178.88 (14) |
C3—S1—C1—N1 | 0.33 (13) | C13—C8—C9—Cl1 | 179.82 (11) |
C3—S1—C1—N2 | −179.52 (14) | C7—C8—C9—Cl1 | 1.57 (19) |
C1—N1—C2—C3 | −0.9 (2) | C8—C9—C10—C11 | 0.3 (2) |
C1—N1—C2—C4 | 177.06 (14) | Cl1—C9—C10—C11 | 179.80 (12) |
N1—C2—C3—S1 | 1.16 (19) | C9—C10—C11—C12 | 0.1 (2) |
C4—C2—C3—S1 | −176.61 (15) | C10—C11—C12—C13 | 0.1 (2) |
C1—S1—C3—C2 | −0.81 (13) | C11—C12—C13—C8 | −0.5 (2) |
C1—N2—C5—O1 | 1.8 (3) | C11—C12—C13—Cl2 | −179.61 (12) |
C1—N2—C5—C6 | −179.27 (14) | C9—C8—C13—C12 | 0.8 (2) |
C7—N3—C6—C5 | 90.42 (15) | C7—C8—C13—C12 | 179.01 (14) |
O1—C5—C6—N3 | −169.05 (15) | C9—C8—C13—Cl2 | 179.86 (11) |
N2—C5—C6—N3 | 12.0 (2) | C7—C8—C13—Cl2 | −1.90 (19) |
C6—N3—C7—C8 | 174.04 (12) |
D—H···A | D—H | H···A | D···A | D—H···A |
N3—H3···N1i | 0.89 (2) | 2.32 (2) | 3.130 (2) | 150.9 (17) |
C7—H7B···O1ii | 0.99 | 2.53 | 3.3233 (19) | 137 |
N2—H2···N3 | 0.84 (2) | 2.26 (2) | 2.6742 (19) | 111 (2) |
Cg1···Cg1ii | 3.665 (2) | |||
Cg1···Cg2iii | 3.766 (3) | |||
Cg2···Cg2iv | 3.507 (3) |
Symmetry codes: (i) −x+3/2, −y+1/2, −z+1; (ii) −x+1, y, −z+1/2; (iii) −x+1/2, −y+1/2, −z; (iv) −x+1, y, −z−1/2. |
Experimental details
Crystal data | |
Chemical formula | C13H13Cl2N3OS |
Mr | 330.22 |
Crystal system, space group | Monoclinic, C2/c |
Temperature (K) | 113 |
a, b, c (Å) | 14.008 (4), 18.133 (5), 11.390 (3) |
β (°) | 97.341 (3) |
V (Å3) | 2869.4 (14) |
Z | 8 |
Radiation type | Mo Kα |
µ (mm−1) | 0.60 |
Crystal size (mm) | 0.22 × 0.18 × 0.16 |
Data collection | |
Diffractometer | Rigaku Saturn diffractometer |
Absorption correction | Multi-scan (CrystalClear; Rigaku, 2007) |
Tmin, Tmax | 0.880, 0.911 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 11103, 3371, 3150 |
Rint | 0.036 |
(sin θ/λ)max (Å−1) | 0.659 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.056, 0.131, 1.20 |
No. of reflections | 3371 |
No. of parameters | 191 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.65, −0.83 |
Computer programs: CrystalClear (Rigaku, 2007), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008).
D—H···A | D—H | H···A | D···A | D—H···A |
N3—H3···N1i | 0.89 (2) | 2.32 (2) | 3.130 (2) | 150.9 (17) |
C7—H7B···O1ii | 0.99 | 2.53 | 3.3233 (19) | 136.7 |
N2—H2···N3 | 0.84 (2) | 2.26 (2) | 2.6742 (19) | 111 (2) |
Symmetry codes: (i) −x+3/2, −y+1/2, −z+1; (ii) −x+1, y, −z+1/2. |
References
Allen, F. H., Kennard, O., Watson, D. G., Brammer, L., Orpen, A. G. & Taylor, R. (1987). J. Chem. Soc. Perkin Trans. 2, pp. S1–19. CrossRef Web of Science Google Scholar
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Dipeptidyl peptidase IV (DPP-IV) inhibitors are a new class of antidiabetic agents (Cheon et al., 2005; Kondo et al., 2007; Sakashita et al., 2006) and the title compound was prepared as a novel DPP-IV inhibitor (Zhan et al., 2009). We reported the crystal structure here.
In title compound, all bond lengths in the molecular are normal (Allen et al., 1987). Atoms C4—C6/N2/N3/O1 lie in thiazole (C1—C3/N1/S1) plane with maximun least squares plane deviation for C4 0.065 (2) Å. Thiazole ring (C1—C3/N1/S1) and benzene ring (C8—C13) are essentially parallel to one another (dihedral angle of 5.08 (2) °) because the N—C—C—N—C chain that links the two rings is folded ((N—C—C—N torsion angle of 12.0 (2) °) rather than fully extended. π—π interactions are indicated by the short distance (Cg1···Cg1 distance of 3.665 (2) Å, symmetry code: 1-x,y,1/2-z; Cg1···Cg2 distance of 3.766 (3) Å, symmetry code: 1/2-x,1/2-y,-z; Cg1···Cg2 distance of 3.507 (3) Å, symmetry code: 1-x,y,-1/2-z) between the centroids of the thiazole rings C1—C3/N1/S1 (Cg1) and benzene rings C8—C13 (Cg2) (Table 1). There are intramolecular interaction and weaker N—H···N, C—H···O intermolecular interactions, which stabilized the structure (Table 1).