Literature DB >> 21578352

N-[2-Chloro-6-(4-chloro-6-methoxy-pyrimidin-2-ylsulfan-yl)benz-yl]-3,4-dimethyl-aniline.

Weijun Fu1, Mei Zhu, Dongfeng Hong.   

Abstract

In the title mol-ecule, C(20)H(19)Cl(2)N(3)OS, the dihedral angle between the two benzene rings is 79.3 (7)°. The 4-chloro-6-methoxy-pyrimidine group is rotationally disordered over two sites by approximately 180°, the ratio of the refined occupancies being 0.6772 (15):0.3228 (15). Both disorder components of disorder are involved in intra-molecular N-H⋯N hydrogen bonds.

Entities:  

Year:  2009        PMID: 21578352      PMCID: PMC2971454          DOI: 10.1107/S1600536809041026

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the biological functions of pyrimidine derivatives, see: Joffe et al. (1989 ▶); Petersen & Schmidt (2003 ▶); Blum (2001 ▶); Gompper et al. (2004 ▶); Michael (2005 ▶); Nadal & Olavarria (2004 ▶).

Experimental

Crystal data

C20H19Cl2N3OS M = 420.34 Monoclinic, a = 12.3653 (12) Å b = 14.1332 (14) Å c = 11.8276 (11) Å β = 97.340 (1)° V = 2050.1 (3) Å3 Z = 4 Mo Kα radiation μ = 0.43 mm−1 T = 296 K 0.37 × 0.28 × 0.25 mm

Data collection

Bruker APEXII diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.856, T max = 0.899 15364 measured reflections 3804 independent reflections 2727 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.049 wR(F 2) = 0.139 S = 1.04 3804 reflections 235 parameters H-atom parameters constrained Δρmax = 0.29 e Å−3 Δρmin = −0.48 e Å−3 Data collection: APEX2 (Bruker, 2004 ▶); cell refinement: SAINT (Bruker, 2004 ▶); 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. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809041026/lh2926sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809041026/lh2926Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H19Cl2N3OSF(000) = 872
Mr = 420.34Dx = 1.362 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3665 reflections
a = 12.3653 (12) Åθ = 2.7–21.7°
b = 14.1332 (14) ŵ = 0.43 mm1
c = 11.8276 (11) ÅT = 296 K
β = 97.340 (1)°Block, colourless
V = 2050.1 (3) Å30.37 × 0.28 × 0.25 mm
Z = 4
Bruker APEXII diffractometer3804 independent reflections
Radiation source: fine-focus sealed tube2727 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 25.5°, θmin = 2.3°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −14→14
Tmin = 0.856, Tmax = 0.899k = −17→17
15364 measured reflectionsl = −14→14
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.049Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.139H-atom parameters constrained
S = 1.04w = 1/[σ2(Fo2) + (0.0558P)2 + 1.1287P] where P = (Fo2 + 2Fc2)/3
3804 reflections(Δ/σ)max = 0.001
235 parametersΔρmax = 0.29 e Å3
0 restraintsΔρmin = −0.48 e Å3
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 > 2sigma(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.
xyzUiso*/UeqOcc. (<1)
C160.15712 (12)0.08616 (19)0.48299 (12)0.0579 (7)0.6772 (15)
C170.06084 (10)0.14779 (8)0.61811 (10)0.0540 (9)0.6772 (15)
C18−0.03179 (7)0.15182 (8)0.54001 (8)0.0582 (11)0.6772 (15)
H18−0.09850.17040.56120.070*0.6772 (15)
C19−0.02176 (7)0.12790 (7)0.43258 (8)0.0573 (10)0.6772 (15)
C200.15013 (16)0.16340 (13)0.81220 (15)0.0654 (12)0.6772 (15)
H20A0.17490.09910.81130.098*0.6772 (15)
H20B0.12990.17790.88600.098*0.6772 (15)
H20C0.20760.20510.79620.098*0.6772 (15)
Cl2−0.13131 (8)0.13451 (9)0.32716 (10)0.0852 (4)0.6772 (15)
O10.05547 (12)0.17589 (12)0.72538 (12)0.0680 (7)0.6772 (15)
C16'0.16085 (11)0.10476 (18)0.49634 (11)0.0579 (7)0.3228 (15)
C19'0.08829 (11)0.14785 (9)0.66157 (11)0.0573 (10)0.3228 (15)
C18'−0.01246 (9)0.15594 (9)0.60104 (9)0.0582 (11)0.3228 (15)
H18'−0.07060.18000.63480.070*0.3228 (15)
C17'−0.02647 (7)0.12816 (7)0.49021 (8)0.0540 (9)0.3228 (15)
C20'−0.11725 (8)0.11835 (10)0.30480 (11)0.0654 (12)0.3228 (15)
H20D−0.06990.16270.27410.098*0.3228 (15)
H20E−0.18880.12210.26260.098*0.3228 (15)
H20F−0.08910.05550.29910.098*0.3228 (15)
Cl2'0.11223 (15)0.18012 (14)0.80264 (15)0.0852 (4)0.3228 (15)
N3'0.17432 (13)0.11642 (15)0.61125 (12)0.0625 (9)0.3228 (15)
N2'0.05936 (9)0.09825 (12)0.43865 (9)0.0551 (8)0.3228 (15)
O1'−0.12330 (7)0.14091 (10)0.42454 (9)0.0680 (7)0.3228 (15)
C10.3169 (2)0.35870 (18)0.5611 (2)0.0509 (6)
C20.2300 (2)0.39912 (19)0.6075 (2)0.0554 (6)
H20.19370.36340.65690.067*
C30.1958 (2)0.4909 (2)0.5823 (2)0.0605 (7)
C40.2502 (3)0.5451 (2)0.5075 (2)0.0667 (8)
C50.3344 (3)0.5040 (2)0.4610 (2)0.0682 (8)
H50.37020.53920.41060.082*
C60.3687 (2)0.4123 (2)0.4860 (2)0.0606 (7)
H60.42620.38670.45250.073*
C70.1032 (3)0.5315 (3)0.6380 (3)0.0932 (11)
H7A0.07220.48280.68060.140*
H7B0.04830.55560.58050.140*
H7C0.12990.58180.68850.140*
C80.2164 (4)0.6463 (2)0.4800 (3)0.1028 (13)
H8A0.25950.67140.42500.154*
H8B0.22760.68370.54820.154*
H8C0.14070.64790.44920.154*
C90.4226 (2)0.2140 (2)0.5326 (2)0.0664 (8)
H9A0.49220.24590.53390.080*
H9B0.39010.20790.45380.080*
C100.3725 (2)0.0407 (2)0.5510 (2)0.0580 (7)
C110.4391 (2)0.11761 (19)0.5862 (2)0.0560 (7)
C120.5198 (2)0.1017 (2)0.6773 (2)0.0591 (7)
C130.5361 (2)0.0153 (2)0.7298 (2)0.0649 (8)
H130.59090.00770.79060.078*
C140.4713 (2)−0.0591 (2)0.6921 (3)0.0668 (8)
H140.4821−0.11790.72680.080*
C150.3897 (2)−0.0469 (2)0.6025 (3)0.0655 (8)
H150.3459−0.09790.57640.079*
Cl10.60797 (8)0.19268 (7)0.72836 (9)0.1024 (4)
N10.35165 (18)0.26822 (15)0.59613 (19)0.0620 (6)
H10.30290.23570.62610.093*
N20.1576 (3)0.1175 (2)0.5905 (3)0.0551 (8)0.6772 (15)
N30.0724 (3)0.0956 (3)0.3984 (3)0.0625 (9)0.6772 (15)
S10.27000 (6)0.04895 (7)0.43144 (7)0.0834 (3)
U11U22U33U12U13U23
C160.0475 (15)0.0469 (17)0.079 (2)0.0063 (13)0.0058 (14)−0.0074 (15)
C170.049 (2)0.054 (2)0.059 (2)0.0051 (17)0.0072 (18)0.0076 (17)
C180.0427 (19)0.065 (2)0.064 (3)0.0067 (16)−0.004 (2)0.000 (2)
C190.0444 (19)0.059 (2)0.069 (3)0.0032 (16)0.0065 (17)0.0124 (18)
C200.049 (2)0.096 (3)0.050 (2)0.019 (2)0.0033 (17)0.007 (2)
Cl20.0551 (6)0.1185 (10)0.0778 (8)0.0104 (6)−0.0073 (5)−0.0032 (7)
O10.0512 (14)0.098 (2)0.0554 (15)0.0186 (14)0.0076 (11)0.0065 (14)
C16'0.0475 (15)0.0469 (17)0.079 (2)0.0063 (13)0.0058 (14)−0.0074 (15)
C19'0.0444 (19)0.059 (2)0.069 (3)0.0032 (16)0.0065 (17)0.0124 (18)
C18'0.0427 (19)0.065 (2)0.064 (3)0.0067 (16)−0.004 (2)0.000 (2)
C17'0.049 (2)0.054 (2)0.059 (2)0.0051 (17)0.0072 (18)0.0076 (17)
C20'0.049 (2)0.096 (3)0.050 (2)0.019 (2)0.0033 (17)0.007 (2)
Cl2'0.0551 (6)0.1185 (10)0.0778 (8)0.0104 (6)−0.0073 (5)−0.0032 (7)
N3'0.0452 (18)0.076 (2)0.067 (2)0.0063 (17)0.0107 (15)−0.0018 (17)
N2'0.0462 (17)0.056 (2)0.0644 (19)0.0078 (15)0.0129 (14)0.0073 (15)
O1'0.0512 (14)0.098 (2)0.0554 (15)0.0186 (14)0.0076 (11)0.0065 (14)
C10.0480 (13)0.0527 (14)0.0502 (14)0.0020 (12)−0.0013 (11)−0.0005 (11)
C20.0524 (15)0.0616 (16)0.0518 (14)0.0043 (12)0.0048 (12)−0.0005 (12)
C30.0595 (16)0.0671 (18)0.0523 (15)0.0159 (14)−0.0028 (13)−0.0078 (13)
C40.084 (2)0.0598 (17)0.0520 (15)0.0133 (15)−0.0067 (15)0.0033 (13)
C50.081 (2)0.0665 (19)0.0563 (16)−0.0022 (16)0.0069 (15)0.0107 (14)
C60.0588 (16)0.0663 (17)0.0569 (16)0.0037 (14)0.0081 (13)0.0029 (13)
C70.096 (3)0.099 (3)0.087 (2)0.039 (2)0.019 (2)−0.005 (2)
C80.153 (4)0.068 (2)0.082 (2)0.030 (2)−0.004 (2)0.0116 (18)
C90.0664 (17)0.0695 (18)0.0647 (17)0.0221 (14)0.0140 (14)0.0099 (14)
C100.0439 (14)0.0737 (19)0.0578 (15)0.0164 (13)0.0118 (12)−0.0061 (14)
C110.0530 (15)0.0644 (17)0.0522 (15)0.0182 (13)0.0124 (12)0.0033 (12)
C120.0542 (15)0.0612 (17)0.0615 (16)0.0092 (13)0.0058 (12)−0.0004 (13)
C130.0612 (17)0.077 (2)0.0569 (16)0.0209 (15)0.0070 (13)0.0076 (15)
C140.0713 (19)0.0633 (18)0.0693 (18)0.0155 (15)0.0227 (15)0.0130 (15)
C150.0545 (16)0.0673 (19)0.079 (2)0.0039 (14)0.0258 (15)−0.0090 (15)
Cl10.0947 (7)0.0804 (6)0.1220 (8)−0.0042 (5)−0.0248 (6)−0.0057 (5)
N10.0617 (14)0.0545 (13)0.0732 (15)0.0142 (11)0.0217 (12)0.0084 (11)
N20.0462 (17)0.056 (2)0.0644 (19)0.0078 (15)0.0129 (14)0.0073 (15)
N30.0452 (18)0.076 (2)0.067 (2)0.0063 (17)0.0107 (15)−0.0018 (17)
S10.0551 (4)0.1282 (8)0.0650 (5)0.0243 (5)0.0012 (4)−0.0217 (5)
C16—N21.345 (4)C2—C31.385 (4)
C16—N31.360 (4)C2—H20.9300
C16—S11.6775 (16)C3—C41.405 (4)
C17—O11.3392C3—C71.505 (4)
C17—N21.350 (3)C4—C51.368 (4)
C17—C181.3777C4—C81.513 (4)
C18—C191.3358C5—C61.385 (4)
C18—H180.9300C5—H50.9300
C19—N31.360 (3)C6—H60.9300
C19—Cl21.7224C7—H7A0.9600
C20—O11.4659C7—H7B0.9600
C20—H20A0.9600C7—H7C0.9600
C20—H20B0.9600C8—H8A0.9600
C20—H20C0.9600C8—H8B0.9600
C16'—N2'1.3529C8—H8C0.9600
C16'—N3'1.3581C9—N11.446 (3)
C16'—S11.8159 (16)C9—C111.505 (4)
C19'—N3'1.3582C9—H9A0.9700
C19'—C18'1.3601C9—H9B0.9700
C19'—Cl2'1.7185C10—C151.384 (4)
C18'—C17'1.3581C10—C111.395 (4)
C18'—H18'0.9300C10—S11.778 (3)
C17'—O1'1.3535C11—C121.390 (4)
C17'—N2'1.3573C12—C131.373 (4)
C20'—O1'1.4629C12—Cl11.743 (3)
C20'—H20D0.9600C13—C141.362 (4)
C20'—H20E0.9600C13—H130.9300
C20'—H20F0.9600C14—C151.377 (4)
C1—C61.384 (4)C14—H140.9300
C1—C21.390 (3)C15—H150.9300
C1—N11.395 (3)N1—H10.8684
N2—C16—N3125.0 (2)C6—C5—H5118.6
N2—C16—S1122.89 (17)C1—C6—C5119.7 (3)
N3—C16—S1111.19 (16)C1—C6—H6120.2
O1—C17—N2118.44 (16)C5—C6—H6120.2
O1—C17—C18119.0C3—C7—H7A109.5
N2—C17—C18122.52 (16)C3—C7—H7B109.5
C19—C18—C17117.2H7A—C7—H7B109.5
C19—C18—H18121.4C3—C7—H7C109.5
C17—C18—H18121.4H7A—C7—H7C109.5
C18—C19—N3123.72 (16)H7B—C7—H7C109.5
C18—C19—Cl2121.0C4—C8—H8A109.5
N3—C19—Cl2115.28 (16)C4—C8—H8B109.5
C17—O1—C20119.8H8A—C8—H8B109.5
N2'—C16'—N3'120.0C4—C8—H8C109.5
N2'—C16'—S1116.68 (7)H8A—C8—H8C109.5
N3'—C16'—S1118.23 (6)H8B—C8—H8C109.5
N3'—C19'—C18'120.9N1—C9—C11108.6 (2)
N3'—C19'—Cl2'117.7N1—C9—H9A110.0
C18'—C19'—Cl2'121.4C11—C9—H9A110.0
C17'—C18'—C19'118.6N1—C9—H9B110.0
C17'—C18'—H18'120.7C11—C9—H9B110.0
C19'—C18'—H18'120.7H9A—C9—H9B108.3
O1'—C17'—N2'118.0C15—C10—C11121.0 (3)
O1'—C17'—C18'120.6C15—C10—S1117.5 (2)
N2'—C17'—C18'120.9C11—C10—S1121.3 (2)
O1'—C20'—H20D109.5C12—C11—C10116.3 (2)
O1'—C20'—H20E109.5C12—C11—C9121.2 (3)
H20D—C20'—H20E109.5C10—C11—C9122.5 (2)
O1'—C20'—H20F109.5C13—C12—C11122.9 (3)
H20D—C20'—H20F109.5C13—C12—Cl1116.8 (2)
H20E—C20'—H20F109.5C11—C12—Cl1120.3 (2)
C16'—N3'—C19'118.4C14—C13—C12119.5 (3)
C16'—N2'—C17'118.7C14—C13—H13120.2
C17'—O1'—C20'112.1C12—C13—H13120.2
C6—C1—C2118.2 (2)C13—C14—C15119.9 (3)
C6—C1—N1122.8 (2)C13—C14—H14120.1
C2—C1—N1118.9 (2)C15—C14—H14120.1
C3—C2—C1122.0 (3)C14—C15—C10120.4 (3)
C3—C2—H2119.0C14—C15—H15119.8
C1—C2—H2119.0C10—C15—H15119.8
C2—C3—C4119.2 (3)C1—N1—C9121.0 (2)
C2—C3—C7119.4 (3)C1—N1—H1113.8
C4—C3—C7121.3 (3)C9—N1—H1115.5
C5—C4—C3118.1 (3)C16—N2—C17115.8 (3)
C5—C4—C8121.2 (3)C16—N3—C19115.0 (3)
C3—C4—C8120.6 (3)C16—S1—C10105.87 (10)
C4—C5—C6122.7 (3)C16—S1—C16'9.0
C4—C5—H5118.6C10—S1—C16'100.69 (9)
O1—C17—C18—C19176.6S1—C10—C11—C95.4 (3)
N2—C17—C18—C19−2.7 (2)N1—C9—C11—C12−85.8 (3)
C17—C18—C19—N33.5 (2)N1—C9—C11—C1091.6 (3)
C17—C18—C19—Cl2−177.7C10—C11—C12—C131.2 (4)
N2—C17—O1—C20−6.7 (2)C9—C11—C12—C13178.7 (3)
C18—C17—O1—C20174.0C10—C11—C12—Cl1179.91 (19)
N3'—C19'—C18'—C17'2.7C9—C11—C12—Cl1−2.5 (3)
Cl2'—C19'—C18'—C17'−179.2C11—C12—C13—C140.2 (4)
C19'—C18'—C17'—O1'−175.4Cl1—C12—C13—C14−178.6 (2)
C19'—C18'—C17'—N2'−3.9C12—C13—C14—C15−0.5 (4)
N2'—C16'—N3'—C19'−18.4C13—C14—C15—C10−0.5 (4)
S1—C16'—N3'—C19'−172.43 (17)C11—C10—C15—C141.9 (4)
C18'—C19'—N3'—C16'8.3S1—C10—C15—C14177.0 (2)
Cl2'—C19'—N3'—C16'−169.9C6—C1—N1—C9−18.3 (4)
N3'—C16'—N2'—C17'17.4C2—C1—N1—C9165.0 (3)
S1—C16'—N2'—C17'171.73 (17)C11—C9—N1—C1−176.0 (2)
O1'—C17'—N2'—C16'165.7N3—C16—N2—C1710.0 (6)
C18'—C17'—N2'—C16'−6.0S1—C16—N2—C17177.98 (17)
N2'—C17'—O1'—C20'0.4O1—C17—N2—C16177.1 (2)
C18'—C17'—O1'—C20'172.2C18—C17—N2—C16−3.6 (4)
C6—C1—C2—C3−1.2 (4)N2—C16—N3—C19−9.2 (6)
N1—C1—C2—C3175.7 (2)S1—C16—N3—C19−178.4 (2)
C1—C2—C3—C40.1 (4)C18—C19—N3—C162.0 (4)
C1—C2—C3—C7−178.3 (3)Cl2—C19—N3—C16−176.9 (2)
C2—C3—C4—C50.9 (4)N2—C16—S1—C1010.2 (3)
C7—C3—C4—C5179.2 (3)N3—C16—S1—C10179.7 (3)
C2—C3—C4—C8−178.8 (3)N2—C16—S1—C16'−45.6 (3)
C7—C3—C4—C8−0.4 (4)N3—C16—S1—C16'123.9 (3)
C3—C4—C5—C6−0.9 (4)C15—C10—S1—C1695.5 (2)
C8—C4—C5—C6178.8 (3)C11—C10—S1—C16−89.4 (2)
C2—C1—C6—C51.2 (4)C15—C10—S1—C16'103.1 (2)
N1—C1—C6—C5−175.5 (3)C11—C10—S1—C16'−81.9 (2)
C4—C5—C6—C1−0.2 (4)N2'—C16'—S1—C16−35.93 (14)
C15—C10—C11—C12−2.2 (4)N3'—C16'—S1—C16118.9
S1—C10—C11—C12−177.06 (19)N2'—C16'—S1—C10−161.89 (12)
C15—C10—C11—C9−179.7 (2)N3'—C16'—S1—C10−7.04 (15)
D—H···AD—HH···AD···AD—H···A
N1—H1···N3'0.872.313.089 (3)150
N1—H1···N20.872.453.203 (4)145
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯N3′0.872.313.089 (3)150
N1—H1⋯N20.872.453.203 (4)145
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