Literature DB >> 21582583

5-Chloro-8-hydr-oxy-6-methyl-1,4-naphthoquinone.

Daniel Teoh-Chuan Tan, Hasnah Osman, Azlina Harun Kamaruddin, Samuel Robinson Jebas, Hoong-Kun Fun.   

Abstract

The mol-ecule of the title compound, C(11)H(7)ClO(3), is planar, with a maximum deviation of 0.0383 (10) Å from the naphthoquinone plane. An intra-molecular O-H⋯O hydrogen bond generates an S(6) ring motif. The crystal packing is stabilized by inter-molecular C-H⋯O hydrogen bonds. Short intra-molecular Cl⋯O [2.8234 (8) Å] and O⋯O [2.5530 (11) Å], and inter-molecular Cl⋯Cl [3.2777 (3) Å] contacts further stabilize the crystal structure.

Entities:  

Year:  2009        PMID: 21582583      PMCID: PMC2969072          DOI: 10.1107/S1600536809010137

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


Related literature

For the biological activity of the related compound 7-methyl­juglone, see: Mahapatra et al. (2007 ▶); Van der Kooy & Meyer (2006 ▶). For the synthesis of 7-methyl­juglone from the title compound, see: Musgrave & Skoyles (2001 ▶); Mahapatra et al. (2007 ▶). For bond-length data, see: Allen et al. (1987 ▶). For graph-set analysis of hydrogen bonding, see: Bernstein et al. (1995 ▶). For the stability of the temperature controller used for the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C11H7ClO3 M = 222.62 Monoclinic, a = 10.7546 (1) Å b = 10.3104 (1) Å c = 16.8370 (2) Å β = 100.285 (1)° V = 1836.96 (3) Å3 Z = 8 Mo Kα radiation μ = 0.40 mm−1 T = 100 K 0.30 × 0.21 × 0.14 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.891, T max = 0.945 17328 measured reflections 4015 independent reflections 3356 reflections with I > 2σ(I) R int = 0.031

Refinement

R[F 2 > 2σ(F 2)] = 0.038 wR(F 2) = 0.109 S = 1.07 4015 reflections 137 parameters H-atom parameters constrained Δρmax = 0.61 e Å−3 Δρmin = −0.35 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); 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 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809010137/sj2597sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809010137/sj2597Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C11H7ClO3F(000) = 912
Mr = 222.62Dx = 1.610 Mg m3
Monoclinic, C2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -C 2ycCell parameters from 6307 reflections
a = 10.7546 (1) Åθ = 2.8–30.1°
b = 10.3104 (1) ŵ = 0.40 mm1
c = 16.8370 (2) ÅT = 100 K
β = 100.285 (1)°Block, red
V = 1836.96 (3) Å30.30 × 0.21 × 0.14 mm
Z = 8
Bruker SMART APEXII CCD area-detector diffractometer4015 independent reflections
Radiation source: fine-focus sealed tube3356 reflections with I > 2σ(I)
graphiteRint = 0.031
φ and ω scansθmax = 35.1°, θmin = 2.8°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −12→17
Tmin = 0.891, Tmax = 0.945k = −16→16
17328 measured reflectionsl = −27→27
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.038Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.109H-atom parameters constrained
S = 1.07w = 1/[σ2(Fo2) + (0.0595P)2 + 0.6106P] where P = (Fo2 + 2Fc2)/3
4015 reflections(Δ/σ)max < 0.001
137 parametersΔρmax = 0.61 e Å3
0 restraintsΔρmin = −0.35 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cyrosystems 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
Cl10.60008 (2)0.08776 (3)0.687132 (14)0.02314 (8)
O10.40351 (7)0.18970 (8)0.57005 (5)0.02395 (16)
O20.64859 (7)0.18264 (8)0.31989 (4)0.02085 (15)
O30.83772 (7)0.06289 (8)0.40048 (4)0.02028 (14)
H1O30.78470.10420.36530.030*
C10.46492 (8)0.18621 (9)0.51561 (6)0.01565 (16)
C20.40771 (9)0.23850 (9)0.43571 (6)0.01789 (17)
H2A0.32710.27430.42920.021*
C30.46720 (9)0.23648 (9)0.37229 (6)0.01852 (17)
H3A0.42750.27100.32320.022*
C40.59410 (9)0.18056 (9)0.37912 (5)0.01556 (16)
C50.77541 (8)0.06817 (8)0.46273 (6)0.01477 (15)
C60.83488 (8)0.01527 (9)0.53621 (6)0.01568 (16)
H6A0.9135−0.02380.53940.019*
C70.77959 (8)0.01969 (9)0.60416 (5)0.01563 (15)
C80.65972 (8)0.07923 (9)0.59849 (5)0.01508 (15)
C90.59512 (8)0.12905 (8)0.52543 (5)0.01356 (15)
C100.65466 (8)0.12451 (8)0.45647 (5)0.01354 (15)
C110.84754 (10)−0.03753 (11)0.68182 (6)0.02193 (19)
H11A0.9265−0.07380.67360.033*
H11B0.7964−0.10440.69930.033*
H11C0.86320.02900.72220.033*
U11U22U33U12U13U23
Cl10.02101 (12)0.03306 (14)0.01720 (11)0.00279 (9)0.00841 (8)0.00089 (8)
O10.0164 (3)0.0311 (4)0.0264 (4)0.0055 (3)0.0096 (3)−0.0001 (3)
O20.0206 (3)0.0258 (3)0.0170 (3)0.0004 (3)0.0055 (3)0.0009 (3)
O30.0172 (3)0.0258 (3)0.0200 (3)0.0053 (3)0.0093 (3)0.0014 (3)
C10.0117 (3)0.0146 (3)0.0210 (4)0.0004 (3)0.0040 (3)−0.0023 (3)
C20.0123 (4)0.0162 (4)0.0243 (4)0.0018 (3)0.0009 (3)−0.0017 (3)
C30.0150 (4)0.0188 (4)0.0206 (4)0.0015 (3)0.0000 (3)0.0006 (3)
C40.0146 (4)0.0150 (3)0.0170 (4)−0.0012 (3)0.0027 (3)−0.0009 (3)
C50.0122 (3)0.0152 (3)0.0181 (4)−0.0003 (3)0.0058 (3)−0.0017 (3)
C60.0115 (3)0.0164 (4)0.0193 (4)0.0008 (3)0.0034 (3)−0.0012 (3)
C70.0126 (3)0.0168 (4)0.0171 (4)−0.0006 (3)0.0017 (3)−0.0010 (3)
C80.0130 (3)0.0174 (4)0.0154 (4)−0.0011 (3)0.0043 (3)−0.0013 (3)
C90.0103 (3)0.0137 (3)0.0172 (4)−0.0002 (3)0.0040 (3)−0.0017 (3)
C100.0113 (3)0.0141 (3)0.0156 (3)0.0001 (3)0.0033 (3)−0.0014 (3)
C110.0189 (4)0.0279 (5)0.0177 (4)0.0024 (4)−0.0001 (3)0.0016 (3)
Cl1—C81.7287 (9)C5—C61.3980 (13)
O1—C11.2222 (12)C5—C101.4092 (12)
O2—C41.2438 (11)C6—C71.3812 (13)
O3—C51.3423 (11)C6—H6A0.9300
O3—H1O30.8581C7—C81.4156 (13)
C1—C21.4777 (14)C7—C111.5002 (13)
C1—C91.5008 (12)C8—C91.3980 (13)
C2—C31.3393 (14)C9—C101.4234 (12)
C2—H2A0.9300C11—H11A0.9600
C3—C41.4670 (13)C11—H11B0.9600
C3—H3A0.9300C11—H11C0.9600
C4—C101.4667 (13)
C5—O3—H1O399.0C6—C7—C8118.69 (8)
O1—C1—C2118.62 (8)C6—C7—C11119.62 (8)
O1—C1—C9123.19 (9)C8—C7—C11121.69 (8)
C2—C1—C9118.18 (8)C9—C8—C7121.48 (8)
C3—C2—C1122.65 (8)C9—C8—Cl1122.56 (7)
C3—C2—H2A118.7C7—C8—Cl1115.95 (7)
C1—C2—H2A118.7C8—C9—C10118.71 (8)
C2—C3—C4120.92 (9)C8—C9—C1123.27 (8)
C2—C3—H3A119.5C10—C9—C1118.02 (8)
C4—C3—H3A119.5C5—C10—C9119.69 (8)
O2—C4—C10121.37 (8)C5—C10—C4119.08 (8)
O2—C4—C3119.69 (8)C9—C10—C4121.21 (8)
C10—C4—C3118.94 (8)C7—C11—H11A109.5
O3—C5—C6117.51 (8)C7—C11—H11B109.5
O3—C5—C10122.69 (8)H11A—C11—H11B109.5
C6—C5—C10119.80 (8)C7—C11—H11C109.5
C7—C6—C5121.57 (8)H11A—C11—H11C109.5
C7—C6—H6A119.2H11B—C11—H11C109.5
C5—C6—H6A119.2
O1—C1—C2—C3−178.75 (9)O1—C1—C9—C8−2.55 (14)
C9—C1—C2—C30.15 (13)C2—C1—C9—C8178.61 (8)
C1—C2—C3—C40.34 (14)O1—C1—C9—C10176.82 (9)
C2—C3—C4—O2−178.28 (9)C2—C1—C9—C10−2.03 (12)
C2—C3—C4—C101.01 (14)O3—C5—C10—C9−178.76 (8)
O3—C5—C6—C7178.08 (8)C6—C5—C10—C91.06 (13)
C10—C5—C6—C7−1.75 (13)O3—C5—C10—C4−0.34 (13)
C5—C6—C7—C80.12 (13)C6—C5—C10—C4179.48 (8)
C5—C6—C7—C11−179.54 (9)C8—C9—C10—C51.20 (13)
C6—C7—C8—C92.23 (13)C1—C9—C10—C5−178.19 (8)
C11—C7—C8—C9−178.11 (9)C8—C9—C10—C4−177.18 (8)
C6—C7—C8—Cl1−177.07 (7)C1—C9—C10—C43.43 (12)
C11—C7—C8—Cl12.59 (12)O2—C4—C10—C5−2.09 (13)
C7—C8—C9—C10−2.87 (13)C3—C4—C10—C5178.63 (8)
Cl1—C8—C9—C10176.38 (7)O2—C4—C10—C9176.30 (8)
C7—C8—C9—C1176.48 (8)C3—C4—C10—C9−2.98 (13)
Cl1—C8—C9—C1−4.26 (12)
D—H···AD—HH···AD···AD—H···A
O3—H1O3···O20.861.732.5530 (11)161
C2—H2A···O1i0.932.513.4124 (12)163
C3—H3A···O2ii0.932.573.3000 (12)136
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O3—H1O3⋯O20.861.732.5530 (11)161
C2—H2A⋯O1i0.932.513.4124 (12)163
C3—H3A⋯O2ii0.932.573.3000 (12)136

Symmetry codes: (i) ; (ii) .

  3 in total

1.  Activity of 7-methyljuglone derivatives against Mycobacterium tuberculosis and as subversive substrates for mycothiol disulfide reductase.

Authors:  Anita Mahapatra; Sannah P N Mativandlela; B Binneman; P B Fourie; Chris J Hamilton; J J M Meyer; F van der Kooy; Peter Houghton; Namrita Lall
Journal:  Bioorg Med Chem       Date:  2007-09-06       Impact factor: 3.641

2.  A short history of SHELX.

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

3.  Structure validation in chemical crystallography.

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

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