Literature DB >> 21579077

Dimethyl cis-4-hydroxy-methyl-piperidine-2,6-dicarboxyl-ate.

Jens Hartung1, Georg Stapf, Uwe Bergsträsser.   

Abstract

The heterocyclic core of the title compound, C(10)H(17)NO(5), adopts a chair conformation with its three C substituents positioned equatorially. In the crystal, inter-molecular O-H⋯n class="Chemical">N hydrogen bonds between neighbouring mol-ecules lead to chains along b. These chains are connected by hydro-phobic inter-actions, forming infinite layers and N-H⋯O=C contacts between mol-ecules of adjacent layers give rise to a three-dimensional structure.

Entities:  

Year:  2010        PMID: 21579077      PMCID: PMC2979220          DOI: 10.1107/S1600536810010925

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


Related literature

For structures of related N-heterocyclic compounds, see: Parkin et al. (2004 ▶). For the synthetic procedure, see: Tang et al. (2006 ▶).

Experimental

Crystal data

C10H17NO5 M = 231.25 Monoclinic, a = 9.1403 (4) Å b = 7.9153 (3) Å c = 16.0199 (6) Å β = 90.503 (4)° V = 1158.97 (8) Å3 Z = 4 Mo Kα radiation μ = 0.11 mm−1 T = 150 K 0.35 × 0.25 × 0.20 mm

Data collection

Oxford Diffraction Xcalibur diffractometer with a Sapphire CCD detector 9123 measured reflections 3542 independent reflections 1862 reflections with I > 2σ(I) R int = 0.045

Refinement

R[F 2 > 2σ(F 2)] = 0.044 wR(F 2) = 0.146 S = 0.89 3542 reflections 149 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.41 e Å−3 Δρmin = −0.40 e Å−3 Data collection: CrysAlis CCD (Oxford Diffraction, 2007 ▶); cell refinement: CrysAlis CCD; data reduction: CrysAlis n class="Disease">RED (Oxford Diffraction, 2007 ▶); 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: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810010925/im2176sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810010925/im2176Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C10H17NO5F(000) = 496
Mr = 231.25Dx = 1.325 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 2439 reflections
a = 9.1403 (4) Åθ = 3.6–31.2°
b = 7.9153 (3) ŵ = 0.11 mm1
c = 16.0199 (6) ÅT = 150 K
β = 90.503 (4)°Prism, colourless
V = 1158.97 (8) Å30.35 × 0.25 × 0.20 mm
Z = 4
Oxford Diffraction Xcalibur diffractometer with a Sapphire CCD detector1862 reflections with I > 2σ(I)
Radiation source: Enhance (Mo) X-ray SourceRint = 0.045
graphiteθmax = 31.1°, θmin = 3.6°
Detector resolution: 16.1399 pixels mm-1h = −13→13
Rotation method data acquisition using ω and phi scansk = −11→11
9123 measured reflectionsl = −23→23
3542 independent reflections
Refinement on F20 restraints
Least-squares matrix: fullH atoms treated by a mixture of independent and constrained refinement
R[F2 > 2σ(F2)] = 0.044w = 1/[σ2(Fo2) + (0.0827P)2] where P = (Fo2 + 2Fc2)/3
wR(F2) = 0.146(Δ/σ)max < 0.001
S = 0.89Δρmax = 0.41 e Å3
3542 reflectionsΔρmin = −0.40 e Å3
149 parameters
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.
xyzUiso*/Ueq
N10.74419 (16)0.02707 (16)0.01230 (8)0.0237 (3)
C20.64855 (17)0.13614 (18)0.06151 (9)0.0220 (3)
H20.55070.1330.03610.026*
O40.94904 (13)−0.11150 (15)−0.09219 (7)0.0312 (3)
C80.85668 (18)−0.01946 (19)−0.12238 (10)0.0249 (3)
C70.63717 (18)0.0686 (2)0.14932 (9)0.0255 (3)
O10.51869 (14)0.13296 (16)0.18655 (7)0.0320 (3)
C50.80958 (17)0.27664 (19)−0.07663 (10)0.0241 (3)
H5A0.90910.2831−0.05540.029*
H5B0.80930.3154−0.13410.029*
C40.71060 (17)0.39036 (18)−0.02456 (9)0.0223 (3)
H40.61260.3887−0.04980.027*
O910.67225 (15)0.67327 (15)0.02363 (8)0.0405 (3)
H910.70150.77120.02310.061*
O30.72305 (16)−0.02473 (18)0.18282 (8)0.0434 (4)
C60.75608 (17)0.09224 (19)−0.07327 (9)0.0226 (3)
H60.65880.0873−0.09940.027*
C30.69913 (18)0.32103 (19)0.06401 (9)0.0244 (3)
H3A0.62980.3880.09540.029*
H3B0.79360.32840.09180.029*
O20.83440 (15)−0.00053 (17)−0.20437 (7)0.0370 (3)
C90.7656 (2)0.5714 (2)−0.02568 (11)0.0312 (4)
H9A0.86470.576−0.00360.037*
H9B0.76670.6132−0.08260.037*
C100.4996 (2)0.0889 (3)0.27333 (10)0.0396 (5)
H10A0.41180.14060.29370.059*
H10B0.5820.12850.30530.059*
H10C0.4921−0.03160.27860.059*
C110.9277 (2)−0.1006 (3)−0.25831 (11)0.0452 (5)
H11A0.903−0.0782−0.31560.068*
H11B0.9136−0.2184−0.24670.068*
H11C1.0282−0.0712−0.24820.068*
H10.844 (2)0.032 (2)0.0344 (10)0.029 (5)*
U11U22U33U12U13U23
N10.0317 (7)0.0181 (6)0.0214 (6)−0.0003 (5)0.0046 (5)0.0005 (5)
C20.0248 (7)0.0212 (7)0.0200 (7)0.0011 (6)0.0032 (5)0.0000 (6)
O40.0339 (7)0.0266 (6)0.0333 (6)0.0032 (5)0.0035 (5)−0.0026 (5)
C80.0287 (8)0.0208 (7)0.0251 (7)−0.0036 (6)0.0040 (6)−0.0041 (6)
C70.0321 (8)0.0213 (7)0.0232 (7)−0.0057 (7)0.0031 (6)0.0016 (6)
O10.0380 (7)0.0373 (7)0.0207 (5)−0.0014 (5)0.0079 (5)0.0013 (5)
C50.0274 (8)0.0190 (7)0.0259 (7)−0.0013 (6)0.0064 (6)0.0014 (6)
C40.0253 (7)0.0184 (7)0.0231 (7)−0.0027 (6)0.0043 (6)0.0002 (6)
O910.0442 (8)0.0196 (5)0.0581 (8)0.0000 (5)0.0194 (6)−0.0033 (6)
O30.0477 (8)0.0485 (8)0.0339 (7)0.0122 (7)0.0056 (6)0.0150 (6)
C60.0251 (7)0.0217 (7)0.0212 (7)−0.0027 (6)0.0033 (5)−0.0021 (6)
C30.0313 (9)0.0189 (7)0.0230 (7)−0.0006 (6)0.0033 (6)−0.0009 (6)
O20.0438 (7)0.0435 (7)0.0237 (6)0.0123 (6)0.0059 (5)−0.0065 (5)
C90.0373 (9)0.0213 (7)0.0352 (9)−0.0015 (7)0.0100 (7)0.0010 (7)
C100.0503 (11)0.0494 (11)0.0193 (7)−0.0053 (9)0.0072 (7)0.0037 (8)
C110.0501 (12)0.0546 (12)0.0312 (9)0.0183 (10)0.0096 (8)−0.0111 (9)
N1—C21.4640 (19)C4—C31.526 (2)
N1—C61.4696 (19)C4—H40.98
N1—H10.98 (2)O91—C91.420 (2)
C2—C71.509 (2)O91—H910.82
C2—C31.535 (2)C6—H60.98
C2—H20.98C3—H3A0.97
O4—C81.212 (2)C3—H3B0.97
C8—O21.3358 (19)O2—C111.454 (2)
C8—C61.503 (2)C9—H9A0.97
C7—O31.201 (2)C9—H9B0.97
C7—O11.341 (2)C10—H10A0.96
O1—C101.4452 (18)C10—H10B0.96
C5—C41.529 (2)C10—H10C0.96
C5—C61.540 (2)C11—H11A0.96
C5—H5A0.97C11—H11B0.96
C5—H5B0.97C11—H11C0.96
C4—C91.519 (2)
C2—N1—C6110.16 (12)N1—C6—C5113.04 (12)
C2—N1—H1110.1 (10)C8—C6—C5110.08 (12)
C6—N1—H1104.3 (10)N1—C6—H6108.1
N1—C2—C7109.83 (12)C8—C6—H6108.1
N1—C2—C3113.27 (12)C5—C6—H6108.1
C7—C2—C3109.67 (12)C4—C3—C2109.98 (12)
N1—C2—H2108C4—C3—H3A109.7
C7—C2—H2108C2—C3—H3A109.7
C3—C2—H2108C4—C3—H3B109.7
O4—C8—O2124.00 (14)C2—C3—H3B109.7
O4—C8—C6124.87 (14)H3A—C3—H3B108.2
O2—C8—C6111.10 (14)C8—O2—C11115.98 (14)
O3—C7—O1124.19 (14)O91—C9—C4109.19 (13)
O3—C7—C2125.75 (15)O91—C9—H9A109.8
O1—C7—C2110.01 (13)C4—C9—H9A109.8
C7—O1—C10116.17 (14)O91—C9—H9B109.8
C4—C5—C6110.44 (12)C4—C9—H9B109.8
C4—C5—H5A109.6H9A—C9—H9B108.3
C6—C5—H5A109.6O1—C10—H10A109.5
C4—C5—H5B109.6O1—C10—H10B109.5
C6—C5—H5B109.6H10A—C10—H10B109.5
H5A—C5—H5B108.1O1—C10—H10C109.5
C9—C4—C3112.07 (13)H10A—C10—H10C109.5
C9—C4—C5110.57 (13)H10B—C10—H10C109.5
C3—C4—C5109.96 (13)O2—C11—H11A109.5
C9—C4—H4108O2—C11—H11B109.5
C3—C4—H4108H11A—C11—H11B109.5
C5—C4—H4108O2—C11—H11C109.5
C9—O91—H91109.5H11A—C11—H11C109.5
N1—C6—C8109.41 (13)H11B—C11—H11C109.5
C6—N1—C2—C7−179.88 (13)O2—C8—C6—N1159.66 (13)
C6—N1—C2—C3−56.88 (17)O4—C8—C6—C5102.51 (18)
N1—C2—C7—O321.3 (2)O2—C8—C6—C5−75.56 (17)
C3—C2—C7—O3−103.81 (18)C4—C5—C6—N1−55.54 (18)
N1—C2—C7—O1−160.97 (13)C4—C5—C6—C8−178.22 (13)
C3—C2—C7—O173.94 (16)C9—C4—C3—C2−177.93 (13)
O3—C7—O1—C102.2 (2)C5—C4—C3—C2−54.53 (17)
C2—C7—O1—C10−175.62 (14)N1—C2—C3—C457.03 (17)
C6—C5—C4—C9178.34 (13)C7—C2—C3—C4−179.89 (13)
C6—C5—C4—C354.06 (17)O4—C8—O2—C110.9 (2)
C2—N1—C6—C8179.01 (13)C6—C8—O2—C11178.96 (15)
C2—N1—C6—C555.96 (17)C3—C4—C9—O91−56.50 (19)
O4—C8—C6—N1−22.3 (2)C5—C4—C9—O91−179.57 (13)
D—H···AD—HH···AD···AD—H···A
O91—H91···N1i0.822.072.883 (2)171
N1—H1···O4ii0.98 (2)2.19 (2)3.144 (2)165 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O91—H91⋯N1i0.822.072.883 (2)171
N1—H1⋯O4ii0.98 (2)2.19 (2)3.144 (2)165 (2)

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.  Structures of piperazine, piperidine and morpholine.

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