Literature DB >> 21754538

Racemic methyl 3,10-dioxa-2-aza-tri-cyclo-[6.2.1.0]undecane-4-carboxyl-ate.

Basem A Moosa, Atif Fazal, Shaikh A Ali, Mohammed Fettouhi.   

Abstract

The structure of the racemic title compound, C(10)H(15)NO(4), consists of a tricyclic skeleton comprising a six-membered piperidine ring and five-membered isoxazolidine and tetra-hydro-furan rings. The piperidine ring adopts a distorted chair conformation, while the isoxazolidine and tetra-hydro-furan rings have envelope conformations.

Entities:  

Year:  2011        PMID: 21754538      PMCID: PMC3089240          DOI: 10.1107/S160053681101484X

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


Related literature

For related piperidine geometry, see: Parkin et al. (2004 ▶). For bicyclic polyhydro­isoxazolopyridines, see: Banerji et al. (2006 ▶); Carmona et al. (2009 ▶). For literature related to cyclo­addition reactions of cyclic nitro­nes, see: Ali & Wazeer (1988 ▶); Ali et al. (1988 ▶); Merino (2004 ▶); Chandrasekhar (2005 ▶); Moosa & Ali (2009 ▶, 2010 ▶). For the natural product SB-219383 and its inhibitory activity against tyrosyl tRNA sythetase, see: Houge-Frydrych et al. (2000 ▶); Stefanska et al. (2000 ▶).

Experimental

Crystal data

C10H15NO4 M = 213.23 Monoclinic, a = 11.213 (3) Å b = 7.1075 (18) Å c = 12.910 (3) Å β = 91.546 (5)° V = 1028.4 (4) Å3 Z = 4 Mo Kα radiation μ = 0.11 mm−1 T = 294 K 0.20 × 0.10 × 0.05 mm

Data collection

Bruker SMART APEX area-detector diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.979, T max = 0.995 13498 measured reflections 2563 independent reflections 1567 reflections with I > 2σ(I) R int = 0.052

Refinement

R[F 2 > 2σ(F 2)] = 0.057 wR(F 2) = 0.155 S = 1.03 2563 reflections 185 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.24 e Å−3 Δρmin = −0.22 e Å−3 Data collection: SMART (Bruker, 2008 ▶); cell refinement: SAINT (Bruker, 2008 ▶); 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 ▶); software used to prepare material for publication: SHELXTL (Sheldrick, 2008 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S160053681101484X/om2422sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S160053681101484X/om2422Isup2.hkl Supplementary material file. DOI: 10.1107/S160053681101484X/om2422Isup3.mol Supplementary material file. DOI: 10.1107/S160053681101484X/om2422Isup4.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C10H15NO4F(000) = 456
Mr = 213.23Dx = 1.377 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 13498 reflections
a = 11.213 (3) Åθ = 1.8–28.4°
b = 7.1075 (18) ŵ = 0.11 mm1
c = 12.910 (3) ÅT = 294 K
β = 91.546 (5)°Block, colourless
V = 1028.4 (4) Å30.20 × 0.10 × 0.05 mm
Z = 4
Bruker SMART APEX area-detector diffractometer2563 independent reflections
Radiation source: normal-focus sealed tube1567 reflections with I > 2σ(I)
graphiteRint = 0.052
ω scansθmax = 28.4°, θmin = 1.8°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −14→14
Tmin = 0.979, Tmax = 0.995k = −9→9
13498 measured reflectionsl = −17→17
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.057Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.155H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0701P)2 + 0.2128P] where P = (Fo2 + 2Fc2)/3
2563 reflections(Δ/σ)max = 0.002
185 parametersΔρmax = 0.24 e Å3
0 restraintsΔρmin = −0.22 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
N10.14231 (14)0.9997 (2)0.39231 (12)0.0433 (4)
O10.43183 (15)0.7626 (3)0.60910 (14)0.0821 (6)
O20.24093 (17)0.6880 (3)0.59172 (15)0.0838 (6)
O30.23751 (14)0.86158 (19)0.40074 (11)0.0559 (4)
O40.26276 (13)1.22561 (19)0.29897 (11)0.0516 (4)
C10.4428 (3)0.6375 (5)0.6972 (2)0.0950 (11)
H1A0.38340.66870.74650.142*
H1B0.52070.65070.72900.142*
H1C0.43160.50990.67450.142*
C20.3263 (2)0.7726 (3)0.56322 (17)0.0514 (5)
C30.3243 (2)0.9186 (3)0.47749 (16)0.0484 (5)
C40.2854 (2)1.1087 (3)0.51816 (18)0.0508 (5)
C50.15285 (19)1.1108 (3)0.48841 (15)0.0458 (5)
C60.0935 (2)1.3043 (3)0.47755 (17)0.0515 (5)
C70.1024 (2)1.3900 (3)0.36965 (17)0.0535 (6)
C80.0548 (2)1.2468 (3)0.29092 (19)0.0542 (6)
C90.15798 (18)1.1088 (3)0.29848 (15)0.0441 (5)
C100.2287 (2)1.4113 (3)0.3337 (2)0.0565 (6)
H40.400 (2)0.929 (3)0.4479 (16)0.056 (6)*
H50.3284 (19)1.202 (3)0.4850 (17)0.050 (6)*
H60.301 (2)1.116 (3)0.590 (2)0.069 (7)*
H70.1119 (18)1.042 (3)0.5399 (16)0.049 (6)*
H80.011 (2)1.290 (3)0.4920 (18)0.053 (6)*
H90.1310 (19)1.383 (3)0.5271 (17)0.051 (6)*
H100.061 (2)1.508 (4)0.3653 (17)0.061 (6)*
H11−0.020 (2)1.189 (3)0.3108 (17)0.060 (7)*
H120.050 (2)1.304 (4)0.220 (2)0.073 (7)*
H130.1645 (16)1.018 (3)0.2423 (15)0.041 (5)*
H140.235 (2)1.501 (4)0.2774 (19)0.072 (7)*
H150.284 (2)1.451 (3)0.3903 (18)0.056 (6)*
U11U22U33U12U13U23
N10.0489 (10)0.0403 (9)0.0410 (9)−0.0017 (7)0.0035 (7)−0.0061 (7)
O10.0499 (10)0.1099 (15)0.0864 (13)−0.0060 (9)−0.0012 (9)0.0487 (11)
O20.0686 (12)0.0947 (14)0.0873 (13)−0.0279 (11)−0.0100 (10)0.0354 (11)
O30.0732 (11)0.0427 (8)0.0513 (9)0.0081 (7)−0.0086 (7)−0.0092 (7)
O40.0545 (9)0.0480 (8)0.0532 (9)−0.0020 (7)0.0173 (7)−0.0050 (7)
C10.0693 (18)0.124 (3)0.091 (2)0.0066 (17)−0.0051 (15)0.058 (2)
C20.0501 (13)0.0510 (12)0.0534 (13)−0.0031 (10)0.0046 (10)0.0037 (10)
C30.0473 (12)0.0519 (12)0.0462 (12)−0.0021 (10)0.0027 (9)0.0016 (9)
C40.0619 (14)0.0484 (12)0.0420 (12)−0.0078 (11)−0.0028 (10)−0.0022 (10)
C50.0555 (13)0.0459 (11)0.0363 (10)−0.0072 (9)0.0093 (9)−0.0032 (9)
C60.0563 (14)0.0519 (12)0.0470 (12)0.0013 (11)0.0122 (10)−0.0102 (10)
C70.0668 (15)0.0436 (11)0.0505 (12)0.0114 (11)0.0099 (10)−0.0018 (10)
C80.0569 (14)0.0598 (14)0.0460 (13)0.0079 (11)0.0021 (11)−0.0017 (10)
C90.0495 (12)0.0448 (11)0.0382 (11)0.0015 (9)0.0059 (9)−0.0069 (9)
C100.0726 (16)0.0437 (12)0.0539 (14)−0.0049 (11)0.0158 (12)0.0010 (10)
N1—O31.452 (2)C4—H50.93 (2)
N1—C91.453 (2)C4—H60.94 (3)
N1—C51.473 (2)C5—C61.532 (3)
O1—C21.311 (3)C5—H70.95 (2)
O1—C11.446 (3)C6—C71.526 (3)
O2—C21.197 (3)C6—H80.95 (2)
O3—C31.429 (3)C6—H90.94 (2)
O4—C91.439 (2)C7—C101.509 (3)
O4—C101.449 (3)C7—C81.525 (3)
C1—H1A0.9600C7—H100.96 (2)
C1—H1B0.9600C8—C91.518 (3)
C1—H1C0.9600C8—H110.98 (2)
C2—C31.517 (3)C8—H121.01 (3)
C3—C41.518 (3)C9—H130.976 (19)
C3—H40.95 (2)C10—H140.97 (3)
C4—C51.525 (3)C10—H150.99 (2)
O3—N1—C9108.55 (14)C6—C5—H7107.9 (12)
O3—N1—C5104.91 (14)C7—C6—C5113.74 (17)
C9—N1—C5114.04 (16)C7—C6—H8107.9 (14)
C2—O1—C1116.43 (19)C5—C6—H8108.0 (13)
C3—O3—N1110.24 (14)C7—C6—H9110.1 (13)
C9—O4—C10107.76 (15)C5—C6—H9106.8 (13)
O1—C1—H1A109.5H8—C6—H9110.3 (19)
O1—C1—H1B109.5C10—C7—C8100.20 (18)
H1A—C1—H1B109.5C10—C7—C6113.9 (2)
O1—C1—H1C109.5C8—C7—C6108.17 (19)
H1A—C1—H1C109.5C10—C7—H10110.8 (13)
H1B—C1—H1C109.5C8—C7—H10112.4 (14)
O2—C2—O1123.6 (2)C6—C7—H10110.9 (13)
O2—C2—C3124.9 (2)C9—C8—C797.78 (18)
O1—C2—C3111.22 (19)C9—C8—H11111.8 (14)
O3—C3—C2107.94 (18)C7—C8—H11113.3 (13)
O3—C3—C4107.17 (17)C9—C8—H12110.2 (14)
C2—C3—C4110.81 (18)C7—C8—H12110.5 (15)
O3—C3—H4110.3 (13)H11—C8—H12112 (2)
C2—C3—H4110.7 (13)O4—C9—N1114.92 (16)
C4—C3—H4109.9 (13)O4—C9—C8104.39 (17)
C3—C4—C5102.07 (17)N1—C9—C8106.81 (17)
C3—C4—H5108.5 (13)O4—C9—H13108.0 (11)
C5—C4—H5113.0 (13)N1—C9—H13106.1 (11)
C3—C4—H6110.0 (15)C8—C9—H13117.0 (11)
C5—C4—H6113.8 (15)O4—C10—C7105.13 (18)
H5—C4—H6109 (2)O4—C10—H14110.0 (15)
N1—C5—C4105.22 (16)C7—C10—H14112.6 (15)
N1—C5—C6112.30 (17)O4—C10—H15108.9 (13)
C4—C5—C6116.70 (19)C7—C10—H15112.1 (13)
N1—C5—H7106.4 (12)H14—C10—H15108 (2)
C4—C5—H7107.7 (13)
  4 in total

1.  SB-219383, a novel tyrosyl tRNA synthetase inhibitor from a Micromonospora sp. II. Structure determination.

Authors:  C S Houge-Frydrych; S A Readshaw; D J Bell
Journal:  J Antibiot (Tokyo)       Date:  2000-04       Impact factor: 2.649

2.  SB-219383, a novel tyrosyl tRNA synthetase inhibitor from a Micromonospora sp. I. Fermentation, isolation and properties.

Authors:  A L Stefanska; N J Coates; L M Mensah; A J Pope; S J Ready; S R Warr
Journal:  J Antibiot (Tokyo)       Date:  2000-04       Impact factor: 2.649

3.  A short history of SHELX.

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

4.  Structures of piperazine, piperidine and morpholine.

Authors:  Andrew Parkin; Iain D H Oswald; Simon Parsons
Journal:  Acta Crystallogr B       Date:  2004-03-18
  4 in total

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