Literature DB >> 21588583

2-(Pyrimidin-2-yl-oxy)phenol.

Shah Bakhtiar Nasir1, Zanariah Abdullah, Zainal A Fairuz, Seik Weng Ng, Edward R T Tiekink.   

Abstract

The pyrimidine and benzene rings in the title compound, C(10)H(8)N(2)O(2), form a dihedral angle of 71.03 (7)°, with the roughly orthogonal benzene ring being folded towards one of the pyrimidine N atoms. In the crystal, pairs of O-H⋯N hydrogen bonds connect mol-ecules related by twofold symmetry into dimeric aggregates. These associate into a supra-molecular chain propagating along the b axis by way of C-H⋯π contacts. The chains are cross-linked by π-π inter-actions that occur between pyrimidine rings [ring centroid-centroid distances = 3.5393 (9) and 3.5697 (9) Å].

Entities:  

Year:  2010        PMID: 21588583      PMCID: PMC3007867          DOI: 10.1107/S1600536810030448

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


Related literature

For background to the fluorescence properties of compounds related to the title compound, see: Kawai et al. (2001 ▶); Abdullah (2005 ▶). For a related structure, see: Nasir et al. (2010 ▶).

Experimental

Crystal data

C10H8N2O2 M = 188.18 Monoclinic, a = 18.0849 (18) Å b = 7.3293 (8) Å c = 13.3983 (14) Å β = 92.521 (1)° V = 1774.2 (3) Å3 Z = 8 Mo Kα radiation μ = 0.10 mm−1 T = 293 K 0.32 × 0.30 × 0.10 mm

Data collection

Bruker SMART APEX CCD diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.901, T max = 1.000 8265 measured reflections 2048 independent reflections 1569 reflections with I > 2σ(I) R int = 0.027

Refinement

R[F 2 > 2σ(F 2)] = 0.039 wR(F 2) = 0.112 S = 1.01 2048 reflections 130 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.17 e Å−3 Δρmin = −0.18 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); 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 (Farrugia, 1997 ▶) and DIAMOND (Brandenburg, 2006 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810030448/hb5592sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810030448/hb5592Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C10H8N2O2F(000) = 784
Mr = 188.18Dx = 1.409 Mg m3
Monoclinic, C2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -C 2ycCell parameters from 2567 reflections
a = 18.0849 (18) Åθ = 3.0–26.9°
b = 7.3293 (8) ŵ = 0.10 mm1
c = 13.3983 (14) ÅT = 293 K
β = 92.521 (1)°Block, colourless
V = 1774.2 (3) Å30.32 × 0.30 × 0.10 mm
Z = 8
Bruker SMART APEX CCD diffractometer2048 independent reflections
Radiation source: fine-focus sealed tube1569 reflections with I > 2σ(I)
graphiteRint = 0.027
ω scansθmax = 27.5°, θmin = 2.3°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −23→23
Tmin = 0.901, Tmax = 1.000k = −9→9
8265 measured reflectionsl = −17→15
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.039Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.112H atoms treated by a mixture of independent and constrained refinement
S = 1.01w = 1/[σ2(Fo2) + (0.0586P)2 + 0.4928P] where P = (Fo2 + 2Fc2)/3
2048 reflections(Δ/σ)max = 0.001
130 parametersΔρmax = 0.17 e Å3
1 restraintΔρmin = −0.18 e Å3
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
O10.44378 (5)0.18501 (12)0.65018 (7)0.0445 (3)
O20.38586 (6)0.06384 (16)0.82550 (8)0.0622 (3)
H2o0.4144 (10)0.156 (2)0.8229 (16)0.093*
N10.39630 (6)0.47232 (14)0.61828 (9)0.0431 (3)
N20.52544 (6)0.41044 (15)0.63993 (8)0.0423 (3)
C10.45408 (7)0.36583 (16)0.63476 (9)0.0356 (3)
C20.41257 (8)0.64865 (19)0.60601 (12)0.0523 (4)
H20.37400.73060.59350.063*
C30.48369 (9)0.71379 (19)0.61104 (12)0.0542 (4)
H30.49400.83710.60310.065*
C40.53883 (8)0.5881 (2)0.62839 (10)0.0491 (3)
H40.58770.62830.63230.059*
C50.37173 (7)0.11373 (16)0.64788 (10)0.0396 (3)
C60.33142 (8)0.09337 (19)0.55923 (12)0.0537 (4)
H60.34950.13810.50010.064*
C70.26364 (9)0.0057 (2)0.55871 (14)0.0651 (5)
H70.2356−0.00760.49930.078*
C80.23810 (8)−0.0614 (2)0.64619 (15)0.0653 (5)
H80.1927−0.12120.64560.078*
C90.27880 (8)−0.0416 (2)0.73537 (13)0.0575 (4)
H90.2609−0.08850.79410.069*
C100.34627 (7)0.04819 (17)0.73708 (11)0.0438 (3)
U11U22U33U12U13U23
O10.0343 (5)0.0366 (5)0.0623 (6)0.0010 (4)−0.0025 (4)0.0077 (4)
O20.0621 (7)0.0705 (7)0.0534 (6)−0.0158 (5)−0.0041 (5)0.0089 (5)
N10.0372 (6)0.0360 (6)0.0557 (7)0.0015 (4)−0.0036 (5)−0.0019 (5)
N20.0337 (6)0.0490 (6)0.0441 (6)−0.0023 (5)0.0010 (4)0.0043 (5)
C10.0352 (6)0.0372 (6)0.0343 (6)−0.0008 (5)−0.0012 (5)0.0006 (5)
C20.0516 (8)0.0359 (7)0.0686 (10)0.0031 (6)−0.0070 (7)−0.0024 (6)
C30.0606 (9)0.0385 (7)0.0634 (9)−0.0089 (6)0.0005 (7)0.0007 (6)
C40.0423 (7)0.0553 (8)0.0499 (8)−0.0131 (6)0.0026 (6)0.0023 (6)
C50.0336 (6)0.0292 (6)0.0554 (8)0.0001 (5)−0.0040 (5)0.0032 (5)
C60.0587 (9)0.0440 (8)0.0570 (9)−0.0057 (6)−0.0124 (7)0.0083 (6)
C70.0621 (10)0.0485 (8)0.0818 (12)−0.0098 (7)−0.0306 (9)0.0079 (8)
C80.0411 (8)0.0475 (8)0.1058 (14)−0.0096 (6)−0.0125 (8)0.0084 (9)
C90.0461 (8)0.0508 (9)0.0759 (11)−0.0063 (6)0.0066 (7)0.0076 (7)
C100.0397 (7)0.0364 (6)0.0550 (8)0.0006 (5)−0.0014 (6)0.0018 (6)
O1—C11.3554 (15)C4—H40.9300
O1—C51.4029 (14)C5—C61.3741 (18)
O2—C101.3619 (17)C5—C101.385 (2)
O2—H2o0.852 (16)C6—C71.384 (2)
N1—C11.3151 (16)C6—H60.9300
N1—C21.3372 (17)C7—C81.370 (3)
N2—C11.3302 (16)C7—H70.9300
N2—C41.3347 (18)C8—C91.383 (2)
C2—C31.371 (2)C8—H80.9300
C2—H20.9300C9—C101.3857 (19)
C3—C41.370 (2)C9—H90.9300
C3—H30.9300
C1—O1—C5119.64 (9)C6—C5—O1121.09 (12)
C10—O2—H2o109.1 (15)C10—C5—O1116.98 (11)
C1—N1—C2114.63 (11)C5—C6—C7119.40 (14)
C1—N2—C4114.48 (11)C5—C6—H6120.3
N1—C1—N2128.66 (12)C7—C6—H6120.3
N1—C1—O1119.50 (11)C8—C7—C6119.62 (15)
N2—C1—O1111.84 (10)C8—C7—H7120.2
N1—C2—C3122.80 (13)C6—C7—H7120.2
N1—C2—H2118.6C7—C8—C9120.99 (14)
C3—C2—H2118.6C7—C8—H8119.5
C4—C3—C2116.65 (13)C9—C8—H8119.5
C4—C3—H3121.7C8—C9—C10119.92 (15)
C2—C3—H3121.7C8—C9—H9120.0
N2—C4—C3122.77 (13)C10—C9—H9120.0
N2—C4—H4118.6O2—C10—C5122.64 (12)
C3—C4—H4118.6O2—C10—C9118.89 (13)
C6—C5—C10121.62 (12)C5—C10—C9118.44 (13)
C2—N1—C1—N2−0.6 (2)C10—C5—C6—C70.1 (2)
C2—N1—C1—O1178.72 (12)O1—C5—C6—C7173.48 (13)
C4—N2—C1—N11.30 (19)C5—C6—C7—C8−0.8 (2)
C4—N2—C1—O1−178.02 (11)C6—C7—C8—C90.5 (3)
C5—O1—C1—N10.31 (17)C7—C8—C9—C100.4 (2)
C5—O1—C1—N2179.70 (10)C6—C5—C10—O2178.77 (13)
C1—N1—C2—C3−0.5 (2)O1—C5—C10—O25.17 (18)
N1—C2—C3—C40.7 (2)C6—C5—C10—C90.8 (2)
C1—N2—C4—C3−1.0 (2)O1—C5—C10—C9−172.84 (12)
C2—C3—C4—N20.1 (2)C8—C9—C10—O2−179.10 (14)
C1—O1—C5—C673.64 (16)C8—C9—C10—C5−1.0 (2)
C1—O1—C5—C10−112.73 (13)
Cg1 is the centroid of the C5–C10 ring.
D—H···AD—HH···AD···AD—H···A
O2—H2o···N2i0.85 (2)2.21 (1)3.0292 (16)163 (2)
C2—H2···Cg1ii0.932.623.4424 (16)148
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroid of the C5–C10 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
O2—H2o⋯N2i0.85 (2)2.21 (1)3.0292 (16)163 (2)
C2—H2⋯Cg1ii0.932.623.4424 (16)148

Symmetry codes: (i) ; (ii) .

  2 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.  2-(3-Meth-oxy-phen-oxy)pyrimidine.

Authors:  Shah Bakhtiar Nasir; Zanariah Abdullah; Zainal A Fairuz; Seik Weng Ng; Edward R T Tiekink
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-07-31
  2 in total

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