Literature DB >> 21582606

2-[6-Thioxo-5-(2,4,6-trimethyl-phen-yl)-1,3,5-thia-diazinan-3-yl]acetic acid.

Mohammad Arfan, M Nawaz Tahir, Muhammad Ishaq Ali Shah, Rassol Khan, Mohammad S Iqbal.   

Abstract

In the mol-ecule of the title compound, C(14)H(18)N(2)O(2)S(2), the 1,3,5-thia-diazinane-2-thione ring adopts an envelope conformation with one of the N atoms at the flap position. The plane throught the five co-planar atoms of the heterocycle is oriented at a dihedral angle of 80.59 (8)° with respect to the aromatic ring. In the crystal structure, weak inter-molecular O-H⋯S inter-actions link the mol-ecules into chains along the b axis.

Entities:  

Year:  2009        PMID: 21582606      PMCID: PMC2968990          DOI: 10.1107/S1600536809011027

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


Related literature

For related structures, see: Arfan et al. (2009 ▶); Perez et al. (2001 ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C14H18N2O2S2 M = 310.42 Orthorhombic, a = 6.9134 (4) Å b = 17.6934 (11) Å c = 24.9073 (15) Å V = 3046.7 (3) Å3 Z = 8 Mo Kα radiation μ = 0.35 mm−1 T = 296 K 0.26 × 0.18 × 0.16 mm

Data collection

Bruker Kappa APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.922, T max = 0.942 18229 measured reflections 3957 independent reflections 2120 reflections with I > 2σ(I) R int = 0.053

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.132 S = 1.03 3957 reflections 186 parameters H-atom parameters constrained Δρmax = 0.32 e Å−3 Δρmin = −0.27 e Å−3 Data collection: APEX2 (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; 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, 1997 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶) and PLATON. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809011027/hk2650sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809011027/hk2650Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H18N2O2S2F(000) = 1312
Mr = 310.42Dx = 1.354 Mg m3
Orthorhombic, PbcaMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ac 2abCell parameters from 3957 reflections
a = 6.9134 (4) Åθ = 2.4–28.8°
b = 17.6934 (11) ŵ = 0.35 mm1
c = 24.9073 (15) ÅT = 296 K
V = 3046.7 (3) Å3Prism, colorless
Z = 80.26 × 0.18 × 0.16 mm
Bruker Kappa APEXII CCD area-detector diffractometer3957 independent reflections
Radiation source: fine-focus sealed tube2120 reflections with I > 2σ(I)
graphiteRint = 0.053
Detector resolution: 7.40 pixels mm-1θmax = 28.8°, θmin = 2.4°
ω scansh = −9→6
Absorption correction: multi-scan (SADABS; Bruker, 2005)k = −24→21
Tmin = 0.922, Tmax = 0.942l = −32→33
18229 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.046Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.132H-atom parameters constrained
S = 1.03w = 1/[σ2(Fo2) + (0.0418P)2 + 2.0698P] where P = (Fo2 + 2Fc2)/3
3957 reflections(Δ/σ)max = 0.001
186 parametersΔρmax = 0.32 e Å3
0 restraintsΔρmin = −0.27 e Å3
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
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.
xyzUiso*/Ueq
S10.05204 (10)0.04895 (4)0.06455 (3)0.0462 (3)
S2−0.05342 (10)0.17988 (4)0.12532 (3)0.0502 (3)
O10.4812 (3)−0.14565 (11)0.15003 (8)0.0521 (7)
O20.5343 (4)−0.12709 (11)0.06276 (9)0.0639 (9)
N10.3157 (3)0.14751 (11)0.10199 (8)0.0342 (7)
N20.4407 (3)0.02387 (12)0.07081 (9)0.0409 (8)
C10.3789 (4)0.21613 (14)0.12872 (11)0.0355 (8)
C20.4250 (4)0.27902 (14)0.09806 (11)0.0382 (9)
C30.4943 (4)0.34268 (15)0.12500 (13)0.0465 (10)
C40.5158 (4)0.34412 (16)0.18049 (13)0.0494 (10)
C50.4705 (4)0.27966 (16)0.20908 (13)0.0508 (11)
C60.4040 (4)0.21442 (15)0.18430 (12)0.0423 (9)
C70.3984 (5)0.28082 (17)0.03821 (12)0.0554 (11)
C80.5854 (5)0.41477 (18)0.20860 (15)0.0693 (14)
C90.3599 (5)0.14439 (18)0.21674 (12)0.0617 (11)
C100.1280 (4)0.13078 (13)0.09810 (10)0.0356 (8)
C110.2787 (4)0.01152 (15)0.03629 (12)0.0455 (10)
C120.4777 (4)0.10269 (14)0.07749 (13)0.0451 (10)
C130.4446 (4)−0.02219 (15)0.11916 (11)0.0465 (10)
C140.4921 (4)−0.10347 (15)0.10630 (13)0.0444 (10)
H10.49414−0.190270.141890.0625*
H30.527120.385400.105240.0556*
H50.484960.279990.246200.0610*
H7A0.435670.329520.024730.0833*
H7B0.477510.242530.021980.0833*
H7C0.265080.271570.029680.0833*
H8A0.627610.450960.182380.1037*
H8B0.481510.435910.229310.1037*
H8C0.691130.402330.231950.1037*
H9A0.357790.156970.254230.0926*
H9B0.235990.124720.206340.0926*
H9C0.457710.106990.210280.0926*
H11A0.303050.035560.001950.0545*
H11B0.26428−0.042300.030020.0545*
H12A0.591620.108500.099850.0542*
H12B0.507550.124130.042610.0542*
H13A0.54067−0.002230.143760.0558*
H13B0.31956−0.019760.136730.0558*
U11U22U33U12U13U23
S10.0368 (4)0.0420 (4)0.0599 (5)−0.0050 (3)−0.0129 (4)−0.0075 (3)
S20.0299 (4)0.0516 (4)0.0691 (5)−0.0026 (3)0.0024 (4)−0.0111 (4)
O10.0600 (14)0.0462 (11)0.0501 (13)0.0040 (10)−0.0039 (10)−0.0002 (10)
O20.0921 (18)0.0482 (12)0.0515 (14)0.0146 (12)0.0067 (12)−0.0035 (10)
N10.0269 (12)0.0358 (11)0.0400 (12)−0.0034 (9)−0.0015 (10)−0.0034 (10)
N20.0376 (13)0.0370 (11)0.0480 (15)−0.0003 (10)−0.0085 (11)−0.0055 (10)
C10.0239 (13)0.0399 (13)0.0428 (16)−0.0024 (11)−0.0024 (12)−0.0071 (12)
C20.0284 (14)0.0413 (14)0.0449 (17)−0.0015 (11)0.0032 (13)−0.0034 (12)
C30.0335 (15)0.0419 (15)0.064 (2)−0.0063 (12)0.0084 (14)−0.0060 (14)
C40.0315 (16)0.0516 (17)0.065 (2)−0.0068 (13)0.0022 (14)−0.0210 (15)
C50.0442 (19)0.0621 (19)0.0462 (18)−0.0059 (15)−0.0053 (14)−0.0130 (15)
C60.0360 (16)0.0484 (15)0.0424 (17)−0.0044 (12)−0.0028 (13)−0.0027 (13)
C70.067 (2)0.0509 (17)0.0483 (19)0.0009 (15)0.0060 (16)0.0016 (14)
C80.057 (2)0.067 (2)0.084 (3)−0.0187 (17)0.0041 (19)−0.0321 (19)
C90.075 (2)0.068 (2)0.0420 (19)−0.0127 (18)−0.0066 (17)0.0043 (16)
C100.0345 (15)0.0360 (13)0.0364 (15)−0.0026 (11)−0.0045 (12)0.0027 (11)
C110.0473 (18)0.0419 (15)0.0472 (18)0.0015 (13)−0.0078 (14)−0.0055 (13)
C120.0338 (16)0.0385 (14)0.063 (2)0.0005 (12)0.0006 (14)−0.0089 (13)
C130.0435 (17)0.0489 (15)0.0472 (18)0.0094 (14)−0.0111 (14)−0.0064 (13)
C140.0398 (17)0.0446 (15)0.0488 (19)0.0032 (12)−0.0093 (14)−0.0020 (14)
S1—C101.752 (2)C6—C91.510 (4)
S1—C111.841 (3)C13—C141.510 (4)
S2—C101.670 (3)C3—H30.9300
O1—C141.323 (4)C5—H50.9300
O2—C141.198 (4)C7—H7A0.9600
O1—H10.8200C7—H7B0.9600
N1—C11.452 (3)C7—H7C0.9600
N1—C121.502 (3)C8—H8A0.9600
N1—C101.335 (3)C8—H8B0.9600
N2—C121.428 (3)C8—H8C0.9600
N2—C131.454 (3)C9—H9A0.9600
N2—C111.429 (4)C9—H9B0.9600
C1—C61.396 (4)C9—H9C0.9600
C1—C21.387 (4)C11—H11A0.9700
C2—C31.396 (4)C11—H11B0.9700
C2—C71.502 (4)C12—H12A0.9700
C3—C41.390 (5)C12—H12B0.9700
C4—C51.381 (4)C13—H13A0.9700
C4—C81.511 (4)C13—H13B0.9700
C5—C61.387 (4)
S1···C11i3.561 (3)C14···C3iv3.526 (4)
S1···S1i3.7226 (11)C14···C2iv3.561 (4)
S2···O1ii3.187 (2)C1···H1ii3.0800
S2···C63.540 (3)C7···H12B2.8800
S1···H7Aiii3.2000C10···H9B2.8000
S1···H3iv3.1100C12···H7B2.8300
S1···H13B2.8500C14···H11B2.6900
S2···H12Av2.8300H1···S2iv2.3700
S2···H9Avi3.0900H1···C1iv3.0800
S2···H9B3.0000H3···H7A2.3200
S2···H1ii2.3700H3···H8A2.3500
O1···C3iv3.352 (3)H3···S1ii3.1100
O1···S2iv3.187 (2)H5···H9A2.3600
O1···C2iv3.367 (3)H5···O1ix2.9100
O2···N22.756 (3)H7A···H32.3200
O2···C113.094 (4)H7A···S1x3.2000
O1···H5vii2.9100H7B···N12.8400
O2···H11B2.5300H7B···C122.8300
O2···H11Aviii2.5500H7B···H12B2.1700
O2···H12Bviii2.6400H7B···H7Cx2.3800
O2···H7Civ2.8600H7C···N12.8600
N2···O22.756 (3)H7C···H7Biii2.3800
N2···C11viii3.357 (4)H7C···O2ii2.8600
N1···H9B2.6900H8A···H32.3500
N1···H7B2.8400H8B···H8Cvi2.3100
N1···H7C2.8600H8C···H8Bxi2.3100
N2···H11Aviii2.7400H9A···H52.3600
C2···O1ii3.367 (3)H9A···S2xi3.0900
C2···C14ii3.561 (4)H9B···S23.0000
C3···O1ii3.352 (3)H9B···N12.6900
C3···C14ii3.526 (4)H9B···C102.8000
C6···S23.540 (3)H11A···H12B2.3400
C7···C123.345 (4)H11A···O2viii2.5500
C7···C103.573 (4)H11A···N2viii2.7400
C9···C103.371 (4)H11B···O22.5300
C10···C73.573 (4)H11B···C142.6900
C10···C93.371 (4)H12A···S2xii2.8300
C10···C133.520 (4)H12A···H13A2.2700
C11···S1i3.561 (3)H12B···C72.8800
C11···O23.094 (4)H12B···H7B2.1700
C11···N2viii3.357 (4)H12B···H11A2.3400
C11···C11viii3.577 (4)H12B···O2viii2.6400
C12···C73.345 (4)H13A···H12A2.2700
C13···C103.520 (4)H13B···S12.8500
C10—S1—C11102.97 (13)C6—C5—H5119.00
C14—O1—H1109.00C2—C7—H7A109.00
C1—N1—C12113.8 (2)C2—C7—H7B109.00
C10—N1—C12125.4 (2)C2—C7—H7C109.00
C1—N1—C10120.8 (2)H7A—C7—H7B109.00
C11—N2—C12111.1 (2)H7A—C7—H7C109.00
C12—N2—C13116.6 (2)H7B—C7—H7C109.00
C11—N2—C13115.3 (2)C4—C8—H8A109.00
N1—C1—C2119.2 (2)C4—C8—H8B109.00
C2—C1—C6122.4 (2)C4—C8—H8C109.00
N1—C1—C6118.3 (2)H8A—C8—H8B109.00
C1—C2—C3117.5 (3)H8A—C8—H8C109.00
C1—C2—C7122.4 (2)H8B—C8—H8C109.00
C3—C2—C7120.1 (2)C6—C9—H9A109.00
C2—C3—C4122.0 (3)C6—C9—H9B109.00
C3—C4—C5118.3 (3)C6—C9—H9C109.00
C5—C4—C8121.1 (3)H9A—C9—H9B109.00
C3—C4—C8120.6 (3)H9A—C9—H9C109.00
C4—C5—C6122.2 (3)H9B—C9—H9C109.00
C1—C6—C5117.7 (3)S1—C11—H11A109.00
C1—C6—C9121.6 (2)S1—C11—H11B109.00
C5—C6—C9120.8 (3)N2—C11—H11A109.00
S1—C10—S2113.48 (16)N2—C11—H11B109.00
S1—C10—N1120.62 (19)H11A—C11—H11B108.00
S2—C10—N1125.84 (19)N1—C12—H12A108.00
S1—C11—N2112.5 (2)N1—C12—H12B108.00
N1—C12—N2115.4 (2)N2—C12—H12A108.00
N2—C13—C14111.2 (2)N2—C12—H12B108.00
O1—C14—C13110.5 (2)H12A—C12—H12B107.00
O2—C14—C13125.3 (3)N2—C13—H13A109.00
O1—C14—O2124.2 (2)N2—C13—H13B109.00
C2—C3—H3119.00C14—C13—H13A109.00
C4—C3—H3119.00C14—C13—H13B109.00
C4—C5—H5119.00H13A—C13—H13B108.00
C11—S1—C10—S2176.80 (15)N1—C1—C2—C3−176.9 (2)
C11—S1—C10—N1−5.7 (2)N1—C1—C2—C74.5 (4)
C10—S1—C11—N235.4 (2)C6—C1—C2—C3−1.6 (4)
C10—N1—C1—C2−98.6 (3)C6—C1—C2—C7179.9 (3)
C10—N1—C1—C685.9 (3)N1—C1—C6—C5177.9 (2)
C12—N1—C1—C277.9 (3)N1—C1—C6—C9−2.3 (4)
C12—N1—C1—C6−97.7 (3)C2—C1—C6—C52.6 (4)
C1—N1—C10—S1178.62 (18)C2—C1—C6—C9−177.7 (3)
C1—N1—C10—S2−4.3 (3)C1—C2—C3—C4−0.5 (4)
C12—N1—C10—S12.6 (3)C7—C2—C3—C4178.1 (3)
C12—N1—C10—S2179.7 (2)C2—C3—C4—C51.4 (4)
C1—N1—C12—N2155.3 (2)C2—C3—C4—C8−178.1 (3)
C10—N1—C12—N2−28.4 (4)C3—C4—C5—C6−0.3 (4)
C12—N2—C11—S1−63.8 (3)C8—C4—C5—C6179.2 (3)
C13—N2—C11—S171.7 (2)C4—C5—C6—C1−1.6 (4)
C11—N2—C12—N160.6 (3)C4—C5—C6—C9178.7 (3)
C13—N2—C12—N1−74.3 (3)N2—C13—C14—O1−175.4 (2)
C11—N2—C13—C1472.2 (3)N2—C13—C14—O24.7 (4)
C12—N2—C13—C14−154.8 (2)
D—H···AD—HH···AD···AD—H···A
O1—H1···S2iv0.822.373.187 (2)174
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1⋯S2i0.822.373.187 (2)174

Symmetry code: (i) .

  3 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  3-Benzyl-5-butyl-1,3,5-thia-diazinane-2-thione.

Authors:  Mohammad Arfan; M Nawaz Tahir; Muhammad Ishaq Ali Shah; Mohammad S Iqbal
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-02-06

3.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.