Literature DB >> 21577870

(E)-3-[(3-Bromo-phen-yl)imino-meth-yl]benzene-1,2-diol: a combined X-ray and computational structural study.

Zeynep Keleşoğlu, Orhan Büyükgüngör, Ciğdem Albayrak, Mustafa Odabaşoğlu.   

Abstract

The title compound, C(13)H(10)BrNO(2), exists as an enol-imine form in the crystal and adopts an E configuration with respect to the C=N double bond. The mol-ecule is close to planar, with a dihedral angle of 6.88 (14)° between the aromatic rings. Intra-molecular O-H⋯N and O-H⋯O hydrogen bonds generate S(6) and S(5) ring motifs, respectively. The crystal structure is stabilized by inter-molecular O-H⋯O hydrogen-bond inter-actions, forming R(2) (2)(10) and R(2) (2)(20) chains along [100]. ab initio Hartree-Fock (HF), density-functional theory (DFT) and semi-empirical (AM1 and PM3) calculations and full-geometry optimizations were also performed. Although there are some discrepancies between the experimental and calculated parameters, caused presumably by the O-H⋯O hydrogen-bond inter-actions, there is an acceptable general agreement between them.

Entities:  

Year:  2009        PMID: 21577870      PMCID: PMC2970385          DOI: 10.1107/S1600536809035053

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


Related literature

For general background to Schiff base compounds in coordination chemistry, see: Chen et al. (2008 ▶); May et al. (2004 ▶); Weber et al. (2007 ▶). For background to DFT calculations, see: Becke (1988 ▶, 1993 ▶); Lee et al. (1988 ▶); Schmidt & Polik et al. (2007 ▶); Friesner et al. (2005 ▶); Liu et al. (2004 ▶). For a related structure, see: Cao et al. (2009 ▶); Temel et al. (2007 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C13H10BrNO2 M = 292.13 Orthorhombic, a = 4.7411 (2) Å b = 18.9447 (6) Å c = 26.1417 (10) Å V = 2348.01 (15) Å3 Z = 8 Mo Kα radiation μ = 3.50 mm−1 T = 296 K 0.66 × 0.38 × 0.10 mm

Data collection

Stoe IPDS-II diffractometer Absorption correction: integration (X-RED32; Stoe & Cie, 2002 ▶) T min = 0.229, T max = 0.735 7185 measured reflections 2212 independent reflections 1764 reflections with I > 2σ(I) R int = 0.040

Refinement

R[F 2 > 2σ(F 2)] = 0.033 wR(F 2) = 0.078 S = 1.05 2212 reflections 162 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.33 e Å−3 Δρmin = −0.42 e Å−3 Data collection: X-AREA (Stoe & Cie, 2002 ▶); cell refinement: X-AREA; data reduction: X-RED32 (Stoe & Cie, 2002 ▶); 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 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶) and GAUSSIAN (Frisch et al., 2004 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809035053/si2198sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809035053/si2198Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H10BrNO2F(000) = 1168
Mr = 292.13Dx = 1.653 Mg m3
Orthorhombic, PbcaMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ac 2abCell parameters from 7185 reflections
a = 4.7411 (2) Åθ = 1.3–26.2°
b = 18.9447 (6) ŵ = 3.50 mm1
c = 26.1417 (10) ÅT = 296 K
V = 2348.01 (15) Å3Plate, red
Z = 80.66 × 0.38 × 0.10 mm
Stoe IPDS-II diffractometer2212 independent reflections
Radiation source: fine-focus sealed tube1764 reflections with I > 2σ(I)
graphiteRint = 0.040
Detector resolution: 6.67 pixels mm-1θmax = 25.6°, θmin = 1.6°
rotation method scansh = −5→5
Absorption correction: integration (X-RED32; Stoe & Cie, 2002)k = −22→22
Tmin = 0.229, Tmax = 0.735l = −31→31
7185 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.033H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.078w = 1/[σ2(Fo2) + (0.0356P)2 + 0.8167P] where P = (Fo2 + 2Fc2)/3
S = 1.05(Δ/σ)max = 0.002
2212 reflectionsΔρmax = 0.33 e Å3
162 parametersΔρmin = −0.42 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008)
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0
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*/Ueq
C10.2287 (5)0.59650 (12)0.38493 (9)0.0430 (5)
C20.1687 (5)0.56587 (13)0.33762 (9)0.0441 (5)
C3−0.0340 (6)0.51215 (13)0.33440 (10)0.0480 (6)
C4−0.1727 (6)0.49065 (14)0.37771 (11)0.0543 (7)
H4−0.30820.45530.37530.065*
C5−0.1148 (6)0.52049 (15)0.42490 (11)0.0556 (7)
H5−0.21060.50520.45390.067*
C60.0848 (6)0.57283 (14)0.42865 (10)0.0524 (6)
H60.12480.59270.46030.063*
C70.4352 (5)0.65240 (13)0.38933 (9)0.0451 (6)
H70.46740.67260.42120.054*
C80.7753 (5)0.72987 (12)0.35557 (9)0.0409 (5)
C90.8643 (5)0.75859 (13)0.40177 (9)0.0461 (6)
H90.79180.74190.43250.055*
C101.0603 (6)0.81192 (13)0.40147 (9)0.0475 (6)
C111.1712 (6)0.83889 (14)0.35705 (10)0.0520 (6)
H111.30310.87520.35780.062*
C121.0810 (6)0.81048 (15)0.31139 (10)0.0572 (7)
H121.15100.82830.28080.069*
C130.8888 (6)0.75614 (15)0.31054 (10)0.0513 (6)
H130.83420.73680.27940.062*
N10.5747 (4)0.67489 (11)0.35080 (8)0.0442 (5)
O10.2990 (5)0.58565 (11)0.29377 (7)0.0583 (5)
O2−0.0900 (5)0.48050 (12)0.28892 (8)0.0684 (6)
Br11.18395 (9)0.85040 (2)0.464746 (12)0.08086 (16)
H10.415 (8)0.619 (2)0.3026 (13)0.088 (12)*
H2−0.007 (10)0.499 (2)0.2666 (14)0.113 (16)*
U11U22U33U12U13U23
C10.0352 (13)0.0422 (12)0.0517 (13)0.0035 (10)−0.0009 (10)0.0026 (10)
C20.0396 (13)0.0415 (13)0.0513 (13)−0.0004 (11)0.0019 (11)0.0055 (11)
C30.0454 (14)0.0416 (13)0.0570 (14)−0.0023 (11)−0.0068 (12)0.0033 (11)
C40.0431 (15)0.0433 (14)0.0764 (18)−0.0048 (12)0.0014 (13)0.0124 (13)
C50.0503 (16)0.0549 (16)0.0616 (16)−0.0008 (13)0.0088 (13)0.0107 (13)
C60.0495 (15)0.0553 (15)0.0525 (14)0.0032 (13)0.0019 (12)0.0019 (12)
C70.0432 (13)0.0457 (13)0.0465 (12)0.0027 (11)−0.0039 (11)−0.0036 (10)
C80.0359 (12)0.0393 (12)0.0476 (12)0.0023 (10)−0.0044 (10)0.0006 (9)
C90.0475 (15)0.0472 (14)0.0436 (12)−0.0054 (12)−0.0012 (11)0.0028 (10)
C100.0485 (15)0.0441 (14)0.0498 (13)−0.0009 (12)−0.0058 (12)−0.0038 (11)
C110.0490 (15)0.0440 (14)0.0630 (15)−0.0050 (12)0.0027 (13)−0.0010 (11)
C120.0615 (18)0.0578 (16)0.0524 (14)−0.0089 (14)0.0103 (13)0.0035 (12)
C130.0551 (16)0.0548 (16)0.0441 (13)−0.0062 (13)−0.0012 (12)−0.0012 (11)
N10.0396 (11)0.0440 (11)0.0490 (11)−0.0024 (9)−0.0028 (9)0.0001 (9)
O10.0626 (12)0.0612 (12)0.0512 (10)−0.0231 (10)0.0022 (9)−0.0014 (9)
O20.0769 (15)0.0665 (14)0.0618 (12)−0.0291 (12)−0.0049 (11)−0.0011 (10)
Br10.1009 (3)0.0846 (2)0.05706 (19)−0.0355 (2)−0.01118 (17)−0.01177 (16)
C1—C21.395 (3)C8—C131.387 (3)
C1—C61.405 (4)C8—C91.390 (3)
C1—C71.447 (4)C8—N11.416 (3)
C2—O11.355 (3)C9—C101.373 (4)
C2—C31.402 (3)C9—H90.9300
C3—O21.358 (3)C10—C111.373 (4)
C3—C41.371 (4)C10—Br11.900 (2)
C4—C51.384 (4)C11—C121.377 (4)
C4—H40.9300C11—H110.9300
C5—C61.374 (4)C12—C131.375 (4)
C5—H50.9300C12—H120.9300
C6—H60.9300C13—H130.9300
C7—N11.278 (3)O1—H10.87 (4)
C7—H70.9300O2—H20.78 (4)
C2—C1—C6119.3 (2)C13—C8—C9118.6 (2)
C2—C1—C7120.9 (2)C13—C8—N1116.7 (2)
C6—C1—C7119.8 (2)C9—C8—N1124.6 (2)
O1—C2—C1122.8 (2)C10—C9—C8119.2 (2)
O1—C2—C3117.5 (2)C10—C9—H9120.4
C1—C2—C3119.7 (2)C8—C9—H9120.4
O2—C3—C4119.9 (2)C9—C10—C11122.5 (2)
O2—C3—C2120.5 (2)C9—C10—Br1119.09 (19)
C4—C3—C2119.7 (2)C11—C10—Br1118.4 (2)
C3—C4—C5121.3 (3)C10—C11—C12117.9 (2)
C3—C4—H4119.4C10—C11—H11121.0
C5—C4—H4119.3C12—C11—H11121.0
C6—C5—C4119.6 (3)C13—C12—C11120.8 (3)
C6—C5—H5120.2C13—C12—H12119.6
C4—C5—H5120.2C11—C12—H12119.6
C5—C6—C1120.5 (3)C12—C13—C8120.8 (2)
C5—C6—H6119.8C12—C13—H13119.6
C1—C6—H6119.8C8—C13—H13119.6
N1—C7—C1122.1 (2)C7—N1—C8121.6 (2)
N1—C7—H7118.9C2—O1—H1105 (2)
C1—C7—H7118.9C3—O2—H2111 (3)
C6—C1—C2—O1−179.8 (2)C6—C1—C7—N1178.8 (2)
C7—C1—C2—O10.6 (4)C13—C8—C9—C100.1 (4)
C6—C1—C2—C30.1 (4)N1—C8—C9—C10−179.9 (2)
C7—C1—C2—C3−179.5 (2)C8—C9—C10—C110.7 (4)
O1—C2—C3—O21.6 (4)C8—C9—C10—Br1−179.41 (19)
C1—C2—C3—O2−178.3 (2)C9—C10—C11—C12−0.4 (4)
O1—C2—C3—C4−179.6 (2)Br1—C10—C11—C12179.8 (2)
C1—C2—C3—C40.5 (4)C10—C11—C12—C13−0.9 (4)
O2—C3—C4—C5178.2 (3)C11—C12—C13—C81.7 (4)
C2—C3—C4—C5−0.6 (4)C9—C8—C13—C12−1.3 (4)
C3—C4—C5—C60.2 (4)N1—C8—C13—C12178.7 (2)
C4—C5—C6—C10.4 (4)C1—C7—N1—C8179.7 (2)
C2—C1—C6—C5−0.5 (4)C13—C8—N1—C7−172.2 (2)
C7—C1—C6—C5179.0 (2)C9—C8—N1—C77.9 (4)
C2—C1—C7—N1−1.6 (4)
D—H···AD—HH···AD···AD—H···A
O1—H1···N10.87 (4)1.81 (4)2.606 (3)151 (3)
O2—H2···O10.78 (4)2.31 (5)2.718 (3)113 (4)
O2—H2···O2i0.78 (4)2.48 (5)3.124 (3)141 (5)
O2—H2···O1ii0.78 (4)2.46 (4)2.986 (3)126 (4)
ParametersX-rayAM1PM3HF*DFT/B3LYP*
C1—C71.447 (4)1.46591.45921.46551.4472
C8—N11.416 (3)1.41031.4311.40821.4071
C7—N11.278 (3)1.29231.30281.26261.2947
C2—O11.355 (3)1.37111.36121.34141.35
C3—O21.358 (3)1.37491.36951.34721.3601
C10—Br11.900 (2)1.87431.86761.8991.9138
O1—C2—C1122.8 (2)126.384124.0177124.2818123.5134
N1—C7—C1122.1 (2)123.752119.6344123.297121.9975
O2—C3—C4119.9 (2)117.2553115.9182119.9887120.7548
O1—C2—C3117.5 (2)113.7932116.4985115.8053116.4318
O2—C3—C2120.5 (2)122.181123.9237119.978119.4331
C7—N1—C8121.6 (2)121.8246122.1744120.3634121.3341
C12—C13—H13119.6119.7856119.8376120.8687121.0058
C8—C13—H13119.6120.1274120.1469119.0149118.759
C1—C7—N1—C8179.7 (2)-179.2308179.9974-178.6515-177.5099
C9—C8—N1—C77.9 (4)34.10920.000944.541835.1166
C2—C1—C7—N1-1.6 (4)2.65420.00870.80660.3196
N1—C8—C9—C10-179.9 (2)-177.3895179.9976179.3862179.4699
C8—C9—C10—Br1-179.41 (19)-179.8397-180.0011-179.9136-179.7804
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1⋯N10.87 (4)1.81 (4)2.606 (3)151 (3)
O2—H2⋯O10.78 (4)2.31 (5)2.718 (3)113 (4)
O2—H2⋯O2i0.78 (4)2.48 (5)3.124 (3)141 (5)
O2—H2⋯O1ii0.78 (4)2.46 (4)2.986 (3)126 (4)

Symmetry codes: (i) ; (ii) .

ParametersX-rayAM1PM3HF*DFT/B3LYP*
C1—C71.447 (4)1.46591.45921.46551.4472
C8—N11.416 (3)1.41031.4311.40821.4071
C7—N11.278 (3)1.29231.30281.26261.2947
C2—O11.355 (3)1.37111.36121.34141.35
C3—O21.358 (3)1.37491.36951.34721.3601
C10—Br11.900 (2)1.87431.86761.8991.9138
O1—C2—C1122.8 (2)126.384124.0177124.2818123.5134
N1—C7—C1122.1 (2)123.752119.6344123.297121.9975
O2—C3—C4119.9 (2)117.2553115.9182119.9887120.7548
O1—C2—C3117.5 (2)113.7932116.4985115.8053116.4318
O2—C3—C2120.5 (2)122.181123.9237119.978119.4331
C7—N1—C8121.6 (2)121.8246122.1744120.3634121.3341
C12—C13—H13119.6119.7856119.8376120.8687121.0058
C8—C13—H13119.6120.1274120.1469119.0149118.759
C1—C7—N1—C8179.7 (2)−179.2308179.9974−178.6515−177.5099
C9—C8—N1—C77.9 (4)34.10920.000944.541835.1166
C2—C1—C7—N1−1.6 (4)2.65420.00870.80660.3196
N1—C8—C9—C10−179.9 (2)−177.3895179.9976179.3862179.4699
C8—C9—C10—Br1−179.41 (19)−179.8397−180.0011−179.9136−179.7804

*6-31G(d,p).

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