Literature DB >> 24764841

Dimethyl 5-acetyl-1-hy-droxy-4-methyl-1H-pyrrole-2,3-di-carboxyl-ate, an oxidation-resistant N-hy-droxy-pyrrole.

Gerald M Rosen1, Sukumaran Muralidharan2, Peter Y Zavalij3, Joseph P Y Kao4.   

Abstract

The title compound, C11H13NO6, exhibits an intra-molecular O-H⋯O=C hydrogen bond between the N-hydroxyl H atom and carbonyl O atom of the neighboring acetyl group. This finding contradicts a previously published model in which the hydrogen bond was postulated to occur with the neighboring carbomethoxy group. This relatively strong hydrogen bond [O-H⋯O: D = 2.5583 (11) Å and θ = 152°] may underlie the resistance of the title compound to oxidation into the corresponding nitroxide.

Entities:  

Year:  2014        PMID: 24764841      PMCID: PMC3998280          DOI: 10.1107/S1600536813034466

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


Related literature

The title compound was obtained as part of an effort to synthesize aromatic nitroxides and was prepared by a published procedure (Hekmatshoar et al., 2008 ▶). The compound could not be converted to the corresponding nitroxide under commonly used oxidation conditions (Keana et al., 1988 ▶). For analysis of intra­molecular hydrogen-bond parameters in organic crystals, see: Bilton et al. (2000 ▶); Galek et al. (2010 ▶). A survey of the effect of intra­molecular hydrogen bonding on the reduction potential of quinones appears in the review by Guin et al. (2011 ▶). Examples of hydrogen bonding affecting the redox properties of quinones are discussed by Gupta & Linschitz (1997 ▶) and Feldman et al. (2007 ▶).

Experimental

Crystal data

C11H13NO6 M = 255.22 Monoclinic, a = 10.3893 (8) Å b = 15.1803 (12) Å c = 7.5789 (6) Å β = 99.630 (1)° V = 1178.45 (16) Å3 Z = 4 Mo Kα radiation μ = 0.12 mm−1 T = 150 K 0.52 × 0.43 × 0.31 mm

Data collection

Bruker SMART APEXII diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.888, T max = 0.964 19259 measured reflections 3437 independent reflections 2836 reflections with I > 2σ(I) R int = 0.014

Refinement

R[F 2 > 2σ(F 2)] = 0.031 wR(F 2) = 0.064 S = 1.00 3437 reflections 215 parameters All H-atom parameters refined Δρmax = 0.35 e Å−3 Δρmin = −0.19 e Å−3 Data collection: APEX2 (Bruker, 2010 ▶); cell refinement: SAINT (Bruker, 2010 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL2012 (Sheldrick, 2008 ▶); molecular graphics: XSHELL (Bruker, 2010 ▶) and Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) I. DOI: 10.1107/S1600536813034466/ld2115sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813034466/ld2115Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S1600536813034466/ld2115Isup3.cml CCDC reference: Additional supporting information: crystallographic information; 3D view; checkCIF report
C11H13NO6F(000) = 536
Mr = 255.22Dx = 1.439 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 13127 reflections
a = 10.3893 (8) Åθ = 2.4–31.0°
b = 15.1803 (12) ŵ = 0.12 mm1
c = 7.5789 (6) ÅT = 150 K
β = 99.630 (1)°Prism, colourless
V = 1178.45 (16) Å30.52 × 0.43 × 0.31 mm
Z = 4
Bruker SMART APEXII diffractometer3437 independent reflections
Radiation source: fine-focus sealed tube2836 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.014
Detector resolution: 8.333 pixels mm-1θmax = 30.0°, θmin = 2.0°
φ and ω scansh = −14→14
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)k = −21→21
Tmin = 0.888, Tmax = 0.964l = −10→10
19259 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)] = 0.031Hydrogen site location: difference Fourier map
wR(F2) = 0.064All H-atom parameters refined
S = 1.00w = 1/[σ2(Fo2) + (0.01P)2 + 0.4962P], P = (max(Fo2,0) + 2Fc2)/3
3437 reflections(Δ/σ)max < 0.001
215 parametersΔρmax = 0.35 e Å3
0 restraintsΔρmin = −0.19 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. For all H atoms both coordinate and isotropic displacement parameters were freely refined.All H atoms were located from the difference Fourier maps and refined unconstrained including isotropic displacement parameters.
xyzUiso*/Ueq
N10.58967 (7)0.15991 (5)0.01532 (11)0.02245 (15)
C10.57608 (9)0.25121 (6)0.00825 (12)0.02170 (17)
C20.69238 (9)0.28546 (6)0.10473 (12)0.02101 (16)
C30.77256 (8)0.21282 (6)0.16540 (12)0.02102 (16)
C40.70478 (8)0.13542 (6)0.10655 (12)0.02093 (17)
O10.49892 (7)0.09969 (5)−0.06513 (11)0.03059 (16)
H10.4367 (15)0.1346 (10)−0.121 (2)0.055 (4)*
C50.45803 (9)0.28874 (6)−0.09308 (13)0.02522 (18)
O50.37225 (7)0.23953 (5)−0.17286 (11)0.03488 (18)
C60.44010 (11)0.38675 (7)−0.10178 (16)0.0318 (2)
H610.3632 (15)0.3989 (10)−0.190 (2)0.056 (4)*
H620.4261 (14)0.4098 (10)0.012 (2)0.048 (4)*
H630.5176 (13)0.4162 (9)−0.1332 (17)0.039 (4)*
C70.72552 (11)0.38090 (6)0.13774 (14)0.02725 (19)
H710.8031 (14)0.3861 (10)0.227 (2)0.050 (4)*
H720.6559 (14)0.4127 (9)0.1794 (18)0.044 (4)*
H730.7376 (13)0.4103 (9)0.0300 (19)0.044 (4)*
C80.90325 (9)0.21540 (6)0.27407 (13)0.02425 (18)
O80.96516 (8)0.28077 (5)0.32002 (13)0.0425 (2)
O90.94825 (7)0.13382 (5)0.31885 (10)0.02999 (16)
C91.07658 (11)0.13084 (9)0.42886 (18)0.0394 (3)
H911.0973 (16)0.0679 (11)0.439 (2)0.062 (5)*
H921.1394 (14)0.1618 (10)0.3656 (19)0.046 (4)*
H931.0726 (13)0.1588 (10)0.543 (2)0.046 (4)*
C100.74086 (8)0.04013 (6)0.13628 (12)0.02129 (17)
O100.70851 (7)−0.00387 (4)0.25304 (10)0.02722 (15)
O110.81287 (7)0.01306 (5)0.01819 (10)0.02943 (16)
C110.86684 (14)−0.07523 (8)0.04835 (18)0.0383 (3)
H1110.9238 (14)−0.0816 (9)−0.0377 (19)0.046 (4)*
H1120.9172 (15)−0.0775 (11)0.170 (2)0.060 (5)*
H1130.7977 (15)−0.1177 (11)0.037 (2)0.059 (5)*
U11U22U33U12U13U23
N10.0195 (3)0.0176 (3)0.0295 (4)−0.0019 (3)0.0019 (3)−0.0014 (3)
C10.0216 (4)0.0181 (4)0.0260 (4)0.0008 (3)0.0056 (3)0.0002 (3)
C20.0233 (4)0.0185 (4)0.0220 (4)−0.0006 (3)0.0061 (3)−0.0007 (3)
C30.0203 (4)0.0196 (4)0.0232 (4)−0.0016 (3)0.0038 (3)−0.0009 (3)
C40.0192 (4)0.0186 (4)0.0250 (4)−0.0002 (3)0.0040 (3)−0.0004 (3)
O10.0225 (3)0.0219 (3)0.0438 (4)−0.0053 (3)−0.0046 (3)−0.0031 (3)
C50.0224 (4)0.0257 (4)0.0284 (4)0.0036 (3)0.0068 (3)0.0028 (4)
O50.0246 (3)0.0322 (4)0.0446 (4)0.0018 (3)−0.0036 (3)0.0005 (3)
C60.0282 (5)0.0256 (5)0.0414 (6)0.0066 (4)0.0055 (4)0.0056 (4)
C70.0338 (5)0.0184 (4)0.0291 (5)−0.0026 (4)0.0039 (4)−0.0019 (4)
C80.0223 (4)0.0251 (4)0.0253 (4)−0.0020 (3)0.0037 (3)0.0002 (3)
O80.0323 (4)0.0298 (4)0.0591 (5)−0.0082 (3)−0.0103 (4)−0.0025 (4)
O90.0226 (3)0.0286 (4)0.0362 (4)0.0011 (3)−0.0027 (3)0.0030 (3)
C90.0268 (5)0.0473 (7)0.0399 (6)0.0063 (5)−0.0063 (4)0.0017 (5)
C100.0193 (4)0.0186 (4)0.0247 (4)−0.0003 (3)0.0001 (3)−0.0014 (3)
O100.0305 (3)0.0218 (3)0.0303 (3)−0.0020 (3)0.0079 (3)0.0013 (3)
O110.0368 (4)0.0229 (3)0.0308 (4)0.0106 (3)0.0120 (3)0.0057 (3)
C110.0488 (7)0.0259 (5)0.0442 (6)0.0169 (5)0.0190 (6)0.0075 (5)
N1—C41.3304 (11)C7—H710.963 (15)
N1—O11.3799 (10)C7—H720.965 (14)
N1—C11.3932 (11)C7—H730.957 (14)
C1—C21.4033 (12)C8—O81.2020 (12)
C1—C51.4503 (13)C8—O91.3470 (12)
C2—C31.4118 (12)O9—C91.4501 (13)
C2—C71.5005 (13)C9—H910.980 (17)
C3—C41.4037 (12)C9—H920.991 (15)
C3—C81.4661 (12)C9—H930.971 (15)
C4—C101.5018 (12)C10—O101.2007 (11)
O1—H10.888 (16)C10—O111.3242 (11)
C5—O51.2399 (12)O11—C111.4561 (12)
C5—C61.4995 (14)C11—H1110.956 (14)
C6—H610.968 (15)C11—H1120.981 (16)
C6—H620.963 (15)C11—H1130.958 (16)
C6—H630.985 (14)
C4—N1—O1122.20 (8)C2—C7—H72112.0 (8)
C4—N1—C1111.99 (7)H71—C7—H72108.4 (11)
O1—N1—C1125.78 (8)C2—C7—H73111.6 (8)
N1—C1—C2106.00 (8)H71—C7—H73110.1 (12)
N1—C1—C5118.84 (8)H72—C7—H73104.9 (11)
C2—C1—C5135.11 (8)O8—C8—O9122.66 (9)
C1—C2—C3106.86 (8)O8—C8—C3125.82 (9)
C1—C2—C7126.74 (8)O9—C8—C3111.52 (8)
C3—C2—C7126.40 (8)C8—O9—C9114.87 (8)
C4—C3—C2108.24 (8)O9—C9—H91104.2 (10)
C4—C3—C8124.69 (8)O9—C9—H92108.9 (8)
C2—C3—C8127.06 (8)H91—C9—H92110.4 (12)
N1—C4—C3106.90 (8)O9—C9—H93109.0 (8)
N1—C4—C10121.82 (8)H91—C9—H93113.3 (13)
C3—C4—C10131.24 (8)H92—C9—H93110.7 (12)
N1—O1—H1101.8 (10)O10—C10—O11125.81 (8)
O5—C5—C1119.78 (9)O10—C10—C4123.55 (8)
O5—C5—C6120.16 (9)O11—C10—C4110.64 (8)
C1—C5—C6120.06 (9)C10—O11—C11115.20 (8)
C5—C6—H61107.5 (9)O11—C11—H111104.6 (9)
C5—C6—H62111.0 (9)O11—C11—H112108.1 (10)
H61—C6—H62108.4 (12)H111—C11—H112110.1 (12)
C5—C6—H63111.2 (8)O11—C11—H113110.0 (9)
H61—C6—H63111.1 (11)H111—C11—H113114.3 (13)
H62—C6—H63107.6 (11)H112—C11—H113109.5 (13)
C2—C7—H71109.7 (9)
C4—N1—C1—C2−0.55 (11)C2—C3—C4—C10−177.93 (9)
O1—N1—C1—C2−178.69 (8)C8—C3—C4—C101.01 (15)
C4—N1—C1—C5177.39 (8)N1—C1—C5—O5−0.77 (14)
O1—N1—C1—C5−0.75 (14)C2—C1—C5—O5176.43 (10)
N1—C1—C2—C30.48 (10)N1—C1—C5—C6179.45 (9)
C5—C1—C2—C3−176.97 (10)C2—C1—C5—C6−3.36 (16)
N1—C1—C2—C7−179.43 (9)C4—C3—C8—O8176.89 (10)
C5—C1—C2—C73.13 (17)C2—C3—C8—O8−4.37 (16)
C1—C2—C3—C4−0.26 (10)C4—C3—C8—O9−3.19 (13)
C7—C2—C3—C4179.64 (9)C2—C3—C8—O9175.56 (9)
C1—C2—C3—C8−179.17 (9)O8—C8—O9—C90.77 (15)
C7—C2—C3—C80.73 (15)C3—C8—O9—C9−179.15 (9)
O1—N1—C4—C3178.61 (8)N1—C4—C10—O10−82.60 (12)
C1—N1—C4—C30.39 (11)C3—C4—C10—O1094.99 (12)
O1—N1—C4—C10−3.29 (14)N1—C4—C10—O1197.95 (10)
C1—N1—C4—C10178.50 (8)C3—C4—C10—O11−84.45 (12)
C2—C3—C4—N1−0.07 (10)O10—C10—O11—C11−6.69 (15)
C8—C3—C4—N1178.87 (8)C4—C10—O11—C11172.74 (9)
D—H···AD—HH···AD···AD—H···A
O1—H1···O50.888 (16)1.746 (16)2.5583 (11)150.8 (14)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O1—H1⋯O50.888 (16)1.746 (16)2.5583 (11)150.8 (14)
  3 in total

1.  Universal prediction of intramolecular hydrogen bonds in organic crystals.

Authors:  Peter T A Galek; László Fábián; Frank H Allen
Journal:  Acta Crystallogr B       Date:  2010-03-16

2.  A short history of SHELX.

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

3.  A relationship between amide hydrogen bond strength and quinone reduction potential: implications for photosystem I and bacterial reaction center quinone function.

Authors:  Ken S Feldman; D Keith Hester; John H Golbeck
Journal:  Bioorg Med Chem Lett       Date:  2007-06-14       Impact factor: 2.823

  3 in total

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