Literature DB >> 23476237

4,6-Dimeth-oxy-2-(methyl-sulfan-yl)pyrimidine-4-hy-droxy-benzoic acid (1/1).

Kaliyaperumal Thanigaimani1, Abbas Farhadikoutenaei, Suhana Arshad, Ibrahim Abdul Razak, Kasthuri Balasubramani.   

Abstract

The base mol-ecule of the title co-crystal, C7H10N2O2S·C7H6O3, is essentially planar, with a maximum deviation of 0.0806 (14) Å for all non-H atoms. The acid mol-ecule is also nearly planar, with a dihedral angle of 8.12 (14)° between the benzene ring and the carb-oxy group. In the crystal, the acid mol-ecules form an inversion dimer through a pair of O-H⋯O hydrogen bonds with an R2(2)(8) ring motif. The pyrimidine mol-ecules are linked on both sides of the dimer into a heterotetra-mer via O-H⋯N and C-H⋯O hydrogen bonds with R2(2)(8) ring motifs. The heterotetra-mers are further linked by weak C-H⋯O hydrogen bonds, forming a tape structure along [1-10].

Entities:  

Year:  2012        PMID: 23476237      PMCID: PMC3589001          DOI: 10.1107/S1600536812046338

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


Related literature

For general background to substituted pyrimidines, see: Hunt et al. (1980 ▶); Baker & Santi (1965 ▶); Holy et al. (1974 ▶). For 4-hy­droxy­benzoic acid, see: Vishweshwar et al. (2003 ▶). For related structures, see: Balasubramani & Fun (2009 ▶); Hemamalini & Fun (2010 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For bond-length data, see: Allen et al. (1987 ▶). For the stability of the temperature controller used for the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C7H10N2O2S·C7H6O3 M = 324.35 Triclinic, a = 6.9923 (5) Å b = 10.2887 (8) Å c = 10.7578 (8) Å α = 77.419 (2)° β = 83.381 (2)° γ = 89.209 (2)° V = 750.27 (10) Å3 Z = 2 Mo Kα radiation μ = 0.24 mm−1 T = 100 K 0.44 × 0.37 × 0.23 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.901, T max = 0.947 13682 measured reflections 3393 independent reflections 3105 reflections with I > 2σ(I) R int = 0.024

Refinement

R[F 2 > 2σ(F 2)] = 0.032 wR(F 2) = 0.093 S = 1.10 3393 reflections 210 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.46 e Å−3 Δρmin = −0.27 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812046338/is5216sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812046338/is5216Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812046338/is5216Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C7H10N2O2S·C7H6O3Z = 2
Mr = 324.35F(000) = 340
Triclinic, P1Dx = 1.436 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 6.9923 (5) ÅCell parameters from 9952 reflections
b = 10.2887 (8) Åθ = 2.5–32.6°
c = 10.7578 (8) ŵ = 0.24 mm1
α = 77.419 (2)°T = 100 K
β = 83.381 (2)°Block, colourless
γ = 89.209 (2)°0.44 × 0.37 × 0.23 mm
V = 750.27 (10) Å3
Bruker SMART APEXII CCD area-detector diffractometer3393 independent reflections
Radiation source: fine-focus sealed tube3105 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.024
φ and ω scansθmax = 27.5°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −9→9
Tmin = 0.901, Tmax = 0.947k = −13→13
13682 measured reflectionsl = −13→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.032Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.093H atoms treated by a mixture of independent and constrained refinement
S = 1.10w = 1/[σ2(Fo2) + (0.0508P)2 + 0.2589P] where P = (Fo2 + 2Fc2)/3
3393 reflections(Δ/σ)max = 0.001
210 parametersΔρmax = 0.46 e Å3
1 restraintΔρmin = −0.27 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K.
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.
xyzUiso*/Ueq
S10.22119 (4)0.45956 (3)0.93029 (3)0.02129 (10)
O10.78663 (12)0.67424 (9)0.67045 (9)0.0237 (2)
O20.81296 (13)0.20863 (9)0.83750 (9)0.0261 (2)
O30.31596 (13)0.39971 (9)0.58570 (9)0.0251 (2)
O40.61173 (13)0.34673 (10)0.50895 (9)0.0272 (2)
O50.28845 (14)−0.22653 (9)0.78692 (9)0.0260 (2)
N10.53552 (14)0.56189 (10)0.79118 (10)0.0195 (2)
N20.54001 (14)0.32727 (10)0.87876 (10)0.0199 (2)
C10.71747 (17)0.55457 (12)0.73576 (11)0.0197 (2)
C20.81861 (17)0.43673 (13)0.74714 (12)0.0214 (2)
H2A0.94600.43240.70670.026*
C30.71973 (17)0.32502 (13)0.82225 (11)0.0207 (2)
C40.45790 (16)0.44686 (12)0.85972 (11)0.0185 (2)
C50.7153 (2)0.09621 (13)0.92394 (13)0.0300 (3)
H5A0.80140.01960.93440.045*
H5B0.59980.07410.88880.045*
H5C0.67840.11851.00740.045*
C60.16623 (18)0.28891 (13)1.00996 (13)0.0261 (3)
H6A0.03520.28281.05460.039*
H6B0.25790.25811.07210.039*
H6C0.17560.23310.94640.039*
C70.98129 (18)0.67934 (14)0.60767 (13)0.0271 (3)
H7A1.01680.77180.56650.041*
H7B0.98970.62530.54270.041*
H7C1.06940.64440.67120.041*
C80.55397 (17)0.07913 (13)0.62423 (12)0.0219 (2)
H8A0.67980.10820.58620.026*
C90.51922 (17)−0.05487 (13)0.67699 (12)0.0220 (2)
H9A0.6210−0.11700.67620.026*
C100.33342 (18)−0.09825 (12)0.73148 (11)0.0213 (2)
C110.18445 (18)−0.00551 (13)0.73189 (13)0.0266 (3)
H11A0.0576−0.03480.76740.032*
C120.22154 (18)0.12821 (13)0.68095 (12)0.0248 (3)
H12A0.12050.19060.68330.030*
C130.40666 (17)0.17230 (12)0.62604 (11)0.0199 (2)
C140.44409 (17)0.31494 (12)0.57134 (11)0.0201 (2)
H1O40.625 (4)0.4317 (11)0.482 (3)0.095 (10)*
H1O50.377 (3)−0.275 (3)0.781 (2)0.063 (7)*
U11U22U33U12U13U23
S10.01540 (15)0.01880 (17)0.02680 (17)0.00153 (11)0.00292 (11)−0.00160 (12)
O10.0193 (4)0.0201 (4)0.0286 (4)−0.0013 (3)0.0057 (3)−0.0024 (4)
O20.0238 (4)0.0198 (5)0.0323 (5)0.0059 (4)0.0029 (4)−0.0040 (4)
O30.0258 (4)0.0179 (4)0.0298 (5)0.0025 (3)0.0014 (4)−0.0040 (4)
O40.0218 (4)0.0204 (5)0.0345 (5)−0.0021 (4)0.0034 (4)0.0010 (4)
O50.0235 (5)0.0152 (4)0.0350 (5)0.0010 (4)0.0047 (4)−0.0008 (4)
N10.0164 (4)0.0196 (5)0.0216 (5)0.0012 (4)0.0002 (4)−0.0037 (4)
N20.0174 (5)0.0196 (5)0.0223 (5)0.0013 (4)−0.0004 (4)−0.0049 (4)
C10.0178 (5)0.0205 (6)0.0203 (5)−0.0006 (4)−0.0001 (4)−0.0045 (4)
C20.0169 (5)0.0228 (6)0.0240 (6)0.0019 (4)0.0014 (4)−0.0061 (5)
C30.0188 (5)0.0209 (6)0.0228 (5)0.0039 (4)−0.0019 (4)−0.0065 (5)
C40.0166 (5)0.0198 (6)0.0193 (5)0.0004 (4)−0.0015 (4)−0.0050 (4)
C50.0351 (7)0.0196 (6)0.0313 (7)0.0053 (5)0.0039 (5)−0.0011 (5)
C60.0207 (6)0.0216 (6)0.0325 (6)−0.0009 (5)0.0041 (5)−0.0019 (5)
C70.0185 (6)0.0287 (7)0.0308 (7)−0.0037 (5)0.0054 (5)−0.0032 (5)
C80.0193 (5)0.0202 (6)0.0247 (6)0.0005 (5)0.0009 (4)−0.0037 (5)
C90.0199 (6)0.0195 (6)0.0254 (6)0.0031 (4)−0.0002 (4)−0.0037 (5)
C100.0237 (6)0.0173 (6)0.0212 (5)0.0002 (5)0.0009 (4)−0.0023 (4)
C110.0211 (6)0.0210 (6)0.0331 (7)0.0007 (5)0.0070 (5)−0.0012 (5)
C120.0228 (6)0.0198 (6)0.0288 (6)0.0037 (5)0.0043 (5)−0.0027 (5)
C130.0221 (6)0.0169 (6)0.0197 (5)0.0006 (4)0.0007 (4)−0.0034 (4)
C140.0217 (6)0.0185 (6)0.0195 (5)0.0004 (4)−0.0012 (4)−0.0037 (4)
S1—C41.7552 (12)C5—H5B0.9800
S1—C61.8034 (14)C5—H5C0.9800
O1—C11.3434 (15)C6—H6A0.9800
O1—C71.4444 (14)C6—H6B0.9800
O2—C31.3429 (15)C6—H6C0.9800
O2—C51.4406 (16)C7—H7A0.9800
O3—C141.2619 (15)C7—H7B0.9800
O4—C141.2904 (15)C7—H7C0.9800
O4—H1O40.862 (10)C8—C91.3851 (17)
O5—C101.3497 (15)C8—C131.3987 (17)
O5—H1O50.79 (3)C8—H8A0.9500
N1—C41.3358 (16)C9—C101.3990 (17)
N1—C11.3497 (15)C9—H9A0.9500
N2—C31.3336 (15)C10—C111.4032 (17)
N2—C41.3354 (16)C11—C121.3816 (18)
C1—C21.3845 (17)C11—H11A0.9500
C2—C31.3930 (17)C12—C131.3977 (17)
C2—H2A0.9500C12—H12A0.9500
C5—H5A0.9800C13—C141.4722 (17)
C4—S1—C6101.55 (6)H6A—C6—H6C109.5
C1—O1—C7117.10 (10)H6B—C6—H6C109.5
C3—O2—C5116.61 (10)O1—C7—H7A109.5
C14—O4—H1O4112 (2)O1—C7—H7B109.5
C10—O5—H1O5112.7 (18)H7A—C7—H7B109.5
C4—N1—C1115.43 (10)O1—C7—H7C109.5
C3—N2—C4115.10 (11)H7A—C7—H7C109.5
O1—C1—N1111.95 (10)H7B—C7—H7C109.5
O1—C1—C2124.93 (11)C9—C8—C13121.05 (11)
N1—C1—C2123.11 (11)C9—C8—H8A119.5
C1—C2—C3115.03 (11)C13—C8—H8A119.5
C1—C2—H2A122.5C8—C9—C10119.61 (11)
C3—C2—H2A122.5C8—C9—H9A120.2
N2—C3—O2118.77 (11)C10—C9—H9A120.2
N2—C3—C2124.02 (11)O5—C10—C9123.27 (11)
O2—C3—C2117.20 (11)O5—C10—C11117.12 (11)
N2—C4—N1127.30 (11)C9—C10—C11119.60 (11)
N2—C4—S1118.35 (9)C12—C11—C10120.27 (12)
N1—C4—S1114.35 (9)C12—C11—H11A119.9
O2—C5—H5A109.5C10—C11—H11A119.9
O2—C5—H5B109.5C11—C12—C13120.47 (12)
H5A—C5—H5B109.5C11—C12—H12A119.8
O2—C5—H5C109.5C13—C12—H12A119.8
H5A—C5—H5C109.5C12—C13—C8118.99 (11)
H5B—C5—H5C109.5C12—C13—C14119.95 (11)
S1—C6—H6A109.5C8—C13—C14121.05 (11)
S1—C6—H6B109.5O3—C14—O4122.92 (12)
H6A—C6—H6B109.5O3—C14—C13120.49 (11)
S1—C6—H6C109.5O4—C14—C13116.60 (11)
C7—O1—C1—N1179.48 (10)C6—S1—C4—N2−0.74 (11)
C7—O1—C1—C20.01 (18)C6—S1—C4—N1179.09 (9)
C4—N1—C1—O1−178.96 (10)C13—C8—C9—C100.86 (19)
C4—N1—C1—C20.52 (17)C8—C9—C10—O5−178.72 (11)
O1—C1—C2—C3178.46 (11)C8—C9—C10—C110.08 (19)
N1—C1—C2—C3−0.95 (18)O5—C10—C11—C12177.68 (12)
C4—N2—C3—O2179.53 (10)C9—C10—C11—C12−1.2 (2)
C4—N2—C3—C2−0.63 (17)C10—C11—C12—C131.4 (2)
C5—O2—C3—N2−5.20 (16)C11—C12—C13—C8−0.42 (19)
C5—O2—C3—C2174.95 (11)C11—C12—C13—C14179.62 (12)
C1—C2—C3—N21.02 (18)C9—C8—C13—C12−0.70 (19)
C1—C2—C3—O2−179.14 (11)C9—C8—C13—C14179.26 (11)
C3—N2—C4—N10.13 (18)C12—C13—C14—O37.67 (17)
C3—N2—C4—S1179.94 (8)C8—C13—C14—O3−172.29 (11)
C1—N1—C4—N2−0.08 (18)C12—C13—C14—O4−172.05 (11)
C1—N1—C4—S1−179.89 (8)C8—C13—C14—O47.99 (17)
D—H···AD—HH···AD···AD—H···A
O4—H1O4···O3i0.86 (2)1.76 (2)2.6189 (14)172 (3)
O5—H1O5···N1ii0.80 (3)1.99 (3)2.7562 (14)162 (3)
C9—H9A···O1ii0.952.443.3437 (16)160
C12—H12A···O2iii0.952.593.3340 (16)135
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O4—H1O4⋯O3i 0.86 (2)1.76 (2)2.6189 (14)172 (3)
O5—H1O5⋯N1ii 0.80 (3)1.99 (3)2.7562 (14)162 (3)
C9—H9A⋯O1ii 0.952.443.3437 (16)160
C12—H12A⋯O2iii 0.952.593.3340 (16)135

Symmetry codes: (i) ; (ii) ; (iii) .

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