Literature DB >> 23723799

(3R,4S,5R)-Methyl 3,5-bis-[(tert-butyl-dimethyl-sil-yl)-oxy]-4-meth-oxy-cyclo-hex-1-ene-carboxyl-ate.

Ri Liu1, Yu Shi, Chun-Xiu Xu, Yi-Liang Li.   

Abstract

The title compound, C21H42O5Si2, was synthesized from (3R,4S,5R)-methyl 3,5-bis-[(tert-butyl-dimethyl-sil-yl)-oxy]-4-hy-droxy-cyclo-hex-1-ene-carboxyl-ate by an esterification reaction. The cyclo-hexene ring adopts a half-chair conformation. In the crystal, mol-ecules are linked via C-H⋯O hydrogen bonds, forming helical chains propagating along [010].

Entities:  

Year:  2013        PMID: 23723799      PMCID: PMC3647833          DOI: 10.1107/S1600536813007551

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


Related literature

The title compound is an inter­mediate in the synthesis of vandetanib {systematic name: N-(4-bromo-2-fluoro­phen­yl)-6-meth­oxy-7-[(1-methyl-4-piperidin­yl)meth­oxy]-4-quinazolinamine} derivatives. For vandetanib as a tyrosine kinase inhib­itor, see: Heymach (2005 ▶); Morabito et al. (2009 ▶); Wells et al. (2010 ▶); Natale et al. (2009 ▶).

Experimental

Crystal data

C21H42O5Si2 M = 430.72 Monoclinic, a = 10.760 (5) Å b = 8.321 (4) Å c = 14.601 (7) Å β = 98.997 (9)° V = 1291.3 (10) Å3 Z = 2 Mo Kα radiation μ = 0.16 mm−1 T = 113 K 0.20 × 0.18 × 0.12 mm

Data collection

Rigaku Saturn724 CCD diffractometer Absorption correction: multi-scan (CrystalClear; Rigaku, 2007 ▶) T min = 0.968, T max = 0.981 13589 measured reflections 6015 independent reflections 4456 reflections with I > 2σ(I) R int = 0.058

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.073 S = 0.98 6015 reflections 265 parameters 1 restraint H-atom parameters constrained Δρmax = 0.21 e Å−3 Δρmin = −0.29 e Å−3 Absolute structure: Flack (1983 ▶), 2745 Friedel pairs Flack parameter: −0.04 (9) Data collection: CrystalClear (Rigaku, 2007 ▶); cell refinement: CrystalClear; data reduction: CrystalClear; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: CrystalStructure (Rigaku/MSC, 2006 ▶). Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536813007551/vm2187sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813007551/vm2187Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813007551/vm2187Isup4.cdx Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C21H42O5Si2F(000) = 472
Mr = 430.72Dx = 1.108 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.71073 Å
a = 10.760 (5) ÅCell parameters from 4632 reflections
b = 8.321 (4) Åθ = 1.9–27.9°
c = 14.601 (7) ŵ = 0.16 mm1
β = 98.997 (9)°T = 113 K
V = 1291.3 (10) Å3Prism, colourless
Z = 20.20 × 0.18 × 0.12 mm
Rigaku Saturn724 CCD diffractometer6015 independent reflections
Radiation source: rotating anode4456 reflections with I > 2σ(I)
Multilayer monochromatorRint = 0.058
Detector resolution: 14.22 pixels mm-1θmax = 27.9°, θmin = 1.9°
ω and φ scansh = −14→14
Absorption correction: multi-scan (CrystalClear; Rigaku, 2007)k = −10→10
Tmin = 0.968, Tmax = 0.981l = −19→19
13589 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)] = 0.048H-atom parameters constrained
wR(F2) = 0.073w = 1/[σ2(Fo2) + (0.010P)2] where P = (Fo2 + 2Fc2)/3
S = 0.98(Δ/σ)max = 0.001
6015 reflectionsΔρmax = 0.21 e Å3
265 parametersΔρmin = −0.29 e Å3
1 restraintAbsolute structure: Flack (1983), 2745 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: −0.04 (9)
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
Si10.43693 (6)0.59832 (8)0.75544 (5)0.02755 (16)
Si20.93837 (6)0.92816 (8)0.82849 (4)0.02554 (16)
O10.55081 (13)0.59788 (19)0.69212 (10)0.0277 (4)
O20.66743 (13)0.92780 (19)0.57018 (10)0.0307 (4)
O30.75863 (16)0.3984 (2)0.44370 (12)0.0421 (5)
O40.93371 (15)0.4208 (2)0.54942 (11)0.0367 (4)
O50.86351 (13)0.89726 (17)0.72306 (10)0.0246 (4)
C10.5623 (2)0.7011 (3)0.61583 (16)0.0274 (6)
H10.47770.74360.58850.033*
C20.61777 (19)0.6039 (3)0.54295 (15)0.0290 (5)
H2A0.57170.50110.53190.035*
H2B0.60660.66440.48380.035*
C30.7562 (2)0.5697 (3)0.57327 (15)0.0250 (5)
C40.8238 (2)0.6447 (3)0.64413 (15)0.0238 (5)
H40.91010.61670.65980.029*
C50.7728 (2)0.7704 (3)0.70088 (15)0.0242 (5)
H50.75640.72020.76010.029*
C60.6494 (2)0.8400 (3)0.65060 (15)0.0266 (6)
H60.60930.90980.69350.032*
C70.6928 (2)1.0957 (3)0.58602 (16)0.0488 (7)
H7A0.62651.14340.61630.073*
H7B0.69501.14960.52660.073*
H7C0.77431.10860.62600.073*
C80.4174 (2)0.8026 (3)0.80365 (17)0.0441 (7)
H8A0.49490.83350.84440.066*
H8B0.34730.80160.83920.066*
H8C0.39980.88010.75270.066*
C90.2855 (2)0.5375 (3)0.68386 (17)0.0412 (7)
H9A0.25370.62590.64230.062*
H9B0.22390.51220.72460.062*
H9C0.29920.44260.64700.062*
C100.4906 (2)0.4488 (3)0.84924 (16)0.0327 (6)
C110.4060 (3)0.4598 (3)0.92525 (17)0.0537 (8)
H11A0.43290.37940.97330.081*
H11B0.31840.43960.89780.081*
H11C0.41310.56730.95290.081*
C120.4852 (3)0.2784 (3)0.80998 (19)0.0501 (8)
H12A0.53570.27270.75980.075*
H12B0.39770.25050.78580.075*
H12C0.51860.20280.85910.075*
C130.6274 (2)0.4848 (3)0.89552 (17)0.0515 (8)
H13A0.65190.40940.94670.077*
H13B0.63250.59500.91940.077*
H13C0.68420.47270.84960.077*
C140.8129 (2)0.4543 (3)0.51520 (17)0.0299 (6)
C150.9983 (3)0.3166 (3)0.49216 (19)0.0448 (7)
H15A0.95610.21190.48530.067*
H15B1.08580.30220.52160.067*
H15C0.99640.36560.43090.067*
C161.0379 (2)0.7499 (3)0.86556 (17)0.0409 (7)
H16A0.98430.65490.86640.061*
H16B1.08470.76840.92780.061*
H16C1.09730.73240.82200.061*
C170.8227 (2)0.9581 (3)0.90962 (15)0.0384 (7)
H17A0.76331.04300.88570.058*
H17B0.86740.98930.97070.058*
H17C0.77680.85780.91510.058*
C181.0368 (2)1.1119 (3)0.81908 (16)0.0314 (6)
C191.1006 (2)1.1013 (3)0.73279 (15)0.0429 (7)
H19A1.15971.19080.73260.064*
H19B1.03671.10690.67710.064*
H19C1.14620.99930.73330.064*
C201.1383 (2)1.1213 (4)0.90549 (17)0.0510 (8)
H20A1.19891.03390.90390.076*
H20B1.09881.11130.96130.076*
H20C1.18201.22480.90640.076*
C210.9558 (3)1.2647 (3)0.8138 (2)0.0521 (9)
H21A0.91371.27100.86850.078*
H21B0.89241.26130.75770.078*
H21C1.00951.35930.81160.078*
U11U22U33U12U13U23
Si10.0247 (4)0.0286 (4)0.0307 (4)−0.0038 (3)0.0084 (3)0.0005 (3)
Si20.0258 (4)0.0250 (3)0.0258 (4)−0.0017 (3)0.0038 (3)−0.0023 (3)
O10.0305 (9)0.0244 (8)0.0305 (9)−0.0039 (8)0.0118 (7)0.0027 (8)
O20.0330 (10)0.0296 (9)0.0293 (9)−0.0063 (9)0.0039 (8)0.0070 (8)
O30.0526 (12)0.0404 (11)0.0344 (10)−0.0022 (10)0.0103 (9)−0.0126 (9)
O40.0402 (11)0.0333 (9)0.0389 (10)0.0074 (10)0.0137 (9)−0.0083 (9)
O50.0239 (9)0.0259 (9)0.0238 (8)−0.0070 (7)0.0027 (7)0.0000 (7)
C10.0271 (15)0.0303 (13)0.0261 (13)−0.0032 (11)0.0076 (12)0.0023 (11)
C20.0293 (14)0.0325 (13)0.0261 (13)−0.0070 (13)0.0071 (11)−0.0070 (13)
C30.0284 (13)0.0223 (13)0.0269 (13)−0.0053 (10)0.0121 (11)−0.0011 (10)
C40.0228 (13)0.0242 (13)0.0258 (13)−0.0020 (10)0.0081 (11)0.0010 (10)
C50.0263 (14)0.0243 (12)0.0228 (13)−0.0053 (11)0.0060 (11)0.0002 (10)
C60.0297 (15)0.0285 (13)0.0223 (13)−0.0015 (11)0.0065 (11)0.0026 (11)
C70.0525 (17)0.0375 (15)0.0521 (18)−0.0128 (16)−0.0055 (14)0.0143 (16)
C80.0436 (18)0.0375 (15)0.057 (2)0.0024 (14)0.0250 (16)−0.0008 (14)
C90.0345 (16)0.0421 (16)0.0460 (17)−0.0101 (12)0.0030 (13)0.0066 (14)
C100.0306 (15)0.0356 (15)0.0330 (14)−0.0086 (12)0.0089 (12)0.0021 (12)
C110.065 (2)0.057 (2)0.0444 (18)−0.0087 (16)0.0247 (16)0.0125 (16)
C120.055 (2)0.0378 (17)0.058 (2)−0.0007 (15)0.0082 (17)0.0078 (15)
C130.0412 (18)0.062 (2)0.0471 (18)−0.0091 (15)−0.0064 (14)0.0198 (16)
C140.0361 (16)0.0248 (14)0.0320 (14)−0.0073 (12)0.0146 (12)−0.0002 (11)
C150.0537 (18)0.0387 (16)0.0472 (17)0.0135 (15)0.0241 (15)−0.0056 (14)
C160.0421 (17)0.0359 (16)0.0429 (17)0.0046 (13)0.0008 (14)0.0045 (14)
C170.0428 (17)0.0393 (17)0.0353 (15)−0.0083 (13)0.0136 (13)−0.0057 (13)
C180.0321 (14)0.0280 (13)0.0344 (14)−0.0053 (13)0.0065 (12)−0.0077 (13)
C190.0434 (16)0.0476 (15)0.0392 (16)−0.0200 (16)0.0110 (13)−0.0045 (15)
C200.0497 (18)0.0577 (19)0.0436 (18)−0.0243 (17)0.0011 (15)−0.0130 (16)
C210.059 (2)0.0201 (14)0.078 (2)−0.0042 (14)0.0140 (19)−0.0030 (15)
Si1—O11.6464 (15)C9—H9B0.9800
Si1—C91.863 (2)C9—H9C0.9800
Si1—C81.864 (3)C10—C121.527 (3)
Si1—C101.874 (3)C10—C111.544 (3)
Si2—O51.6421 (16)C10—C131.549 (3)
Si2—C161.860 (2)C11—H11A0.9800
Si2—C171.864 (2)C11—H11B0.9800
Si2—C181.877 (3)C11—H11C0.9800
O1—C11.427 (2)C12—H12A0.9800
O2—C61.422 (2)C12—H12B0.9800
O2—C71.435 (3)C12—H12C0.9800
O3—C141.207 (3)C13—H13A0.9800
O4—C141.347 (3)C13—H13B0.9800
O4—C151.454 (3)C13—H13C0.9800
O5—C51.440 (2)C15—H15A0.9800
C1—C61.523 (3)C15—H15B0.9800
C1—C21.530 (3)C15—H15C0.9800
C1—H11.0000C16—H16A0.9800
C2—C31.513 (3)C16—H16B0.9800
C2—H2A0.9900C16—H16C0.9800
C2—H2B0.9900C17—H17A0.9800
C3—C41.324 (3)C17—H17B0.9800
C3—C141.475 (3)C17—H17C0.9800
C4—C51.492 (3)C18—C191.529 (3)
C4—H40.9500C18—C201.536 (3)
C5—C61.527 (3)C18—C211.537 (3)
C5—H51.0000C19—H19A0.9800
C6—H61.0000C19—H19B0.9800
C7—H7A0.9800C19—H19C0.9800
C7—H7B0.9800C20—H20A0.9800
C7—H7C0.9800C20—H20B0.9800
C8—H8A0.9800C20—H20C0.9800
C8—H8B0.9800C21—H21A0.9800
C8—H8C0.9800C21—H21B0.9800
C9—H9A0.9800C21—H21C0.9800
O1—Si1—C9110.29 (10)C12—C10—Si1110.67 (18)
O1—Si1—C8110.58 (10)C11—C10—Si1109.69 (17)
C9—Si1—C8108.63 (12)C13—C10—Si1110.70 (16)
O1—Si1—C10103.74 (10)C10—C11—H11A109.5
C9—Si1—C10111.85 (11)C10—C11—H11B109.5
C8—Si1—C10111.69 (12)H11A—C11—H11B109.5
O5—Si2—C16108.88 (10)C10—C11—H11C109.5
O5—Si2—C17109.77 (10)H11A—C11—H11C109.5
C16—Si2—C17109.45 (12)H11B—C11—H11C109.5
O5—Si2—C18104.99 (10)C10—C12—H12A109.5
C16—Si2—C18111.41 (12)C10—C12—H12B109.5
C17—Si2—C18112.21 (11)H12A—C12—H12B109.5
C1—O1—Si1126.87 (15)C10—C12—H12C109.5
C6—O2—C7114.49 (18)H12A—C12—H12C109.5
C14—O4—C15115.5 (2)H12B—C12—H12C109.5
C5—O5—Si2122.79 (13)C10—C13—H13A109.5
O1—C1—C6108.68 (18)C10—C13—H13B109.5
O1—C1—C2108.40 (18)H13A—C13—H13B109.5
C6—C1—C2110.27 (18)C10—C13—H13C109.5
O1—C1—H1109.8H13A—C13—H13C109.5
C6—C1—H1109.8H13B—C13—H13C109.5
C2—C1—H1109.8O3—C14—O4123.3 (2)
C3—C2—C1111.65 (19)O3—C14—C3124.1 (2)
C3—C2—H2A109.3O4—C14—C3112.5 (2)
C1—C2—H2A109.3O4—C15—H15A109.5
C3—C2—H2B109.3O4—C15—H15B109.5
C1—C2—H2B109.3H15A—C15—H15B109.5
H2A—C2—H2B108.0O4—C15—H15C109.5
C4—C3—C14122.0 (2)H15A—C15—H15C109.5
C4—C3—C2122.4 (2)H15B—C15—H15C109.5
C14—C3—C2115.5 (2)Si2—C16—H16A109.5
C3—C4—C5124.0 (2)Si2—C16—H16B109.5
C3—C4—H4118.0H16A—C16—H16B109.5
C5—C4—H4118.0Si2—C16—H16C109.5
O5—C5—C4110.08 (18)H16A—C16—H16C109.5
O5—C5—C6109.77 (18)H16B—C16—H16C109.5
C4—C5—C6111.52 (19)Si2—C17—H17A109.5
O5—C5—H5108.5Si2—C17—H17B109.5
C4—C5—H5108.5H17A—C17—H17B109.5
C6—C5—H5108.5Si2—C17—H17C109.5
O2—C6—C1105.72 (18)H17A—C17—H17C109.5
O2—C6—C5111.78 (18)H17B—C17—H17C109.5
C1—C6—C5108.40 (19)C19—C18—C20109.1 (2)
O2—C6—H6110.3C19—C18—C21109.3 (2)
C1—C6—H6110.3C20—C18—C21108.9 (2)
C5—C6—H6110.3C19—C18—Si2110.14 (17)
O2—C7—H7A109.5C20—C18—Si2108.56 (18)
O2—C7—H7B109.5C21—C18—Si2110.82 (16)
H7A—C7—H7B109.5C18—C19—H19A109.5
O2—C7—H7C109.5C18—C19—H19B109.5
H7A—C7—H7C109.5H19A—C19—H19B109.5
H7B—C7—H7C109.5C18—C19—H19C109.5
Si1—C8—H8A109.5H19A—C19—H19C109.5
Si1—C8—H8B109.5H19B—C19—H19C109.5
H8A—C8—H8B109.5C18—C20—H20A109.5
Si1—C8—H8C109.5C18—C20—H20B109.5
H8A—C8—H8C109.5H20A—C20—H20B109.5
H8B—C8—H8C109.5C18—C20—H20C109.5
Si1—C9—H9A109.5H20A—C20—H20C109.5
Si1—C9—H9B109.5H20B—C20—H20C109.5
H9A—C9—H9B109.5C18—C21—H21A109.5
Si1—C9—H9C109.5C18—C21—H21B109.5
H9A—C9—H9C109.5H21A—C21—H21B109.5
H9B—C9—H9C109.5C18—C21—H21C109.5
C12—C10—C11109.4 (2)H21A—C21—H21C109.5
C12—C10—C13108.7 (2)H21B—C21—H21C109.5
C11—C10—C13107.5 (2)
C9—Si1—O1—C165.82 (19)O5—C5—C6—C1171.87 (16)
C8—Si1—O1—C1−54.4 (2)C4—C5—C6—C149.6 (2)
C10—Si1—O1—C1−174.24 (17)O1—Si1—C10—C12−70.14 (19)
C16—Si2—O5—C563.48 (18)C9—Si1—C10—C1248.7 (2)
C17—Si2—O5—C5−56.31 (18)C8—Si1—C10—C12170.72 (18)
C18—Si2—O5—C5−177.12 (16)O1—Si1—C10—C11169.01 (16)
Si1—O1—C1—C697.0 (2)C9—Si1—C10—C11−72.1 (2)
Si1—O1—C1—C2−143.19 (15)C8—Si1—C10—C1149.9 (2)
O1—C1—C2—C3−73.1 (2)O1—Si1—C10—C1350.48 (19)
C6—C1—C2—C345.8 (3)C9—Si1—C10—C13169.35 (17)
C1—C2—C3—C4−13.4 (3)C8—Si1—C10—C13−68.6 (2)
C1—C2—C3—C14170.15 (18)C15—O4—C14—O32.6 (3)
C14—C3—C4—C5175.70 (19)C15—O4—C14—C3−175.76 (18)
C2—C3—C4—C5−0.5 (3)C4—C3—C14—O3−170.6 (2)
Si2—O5—C5—C4−110.40 (18)C2—C3—C14—O35.9 (3)
Si2—O5—C5—C6126.48 (16)C4—C3—C14—O47.8 (3)
C3—C4—C5—O5−140.3 (2)C2—C3—C14—O4−175.7 (2)
C3—C4—C5—C6−18.3 (3)O5—Si2—C18—C19−43.92 (18)
C7—O2—C6—C1151.68 (18)C16—Si2—C18—C1973.8 (2)
C7—O2—C6—C5−90.6 (2)C17—Si2—C18—C19−163.11 (17)
O1—C1—C6—O2173.92 (17)O5—Si2—C18—C20−163.30 (16)
C2—C1—C6—O255.2 (2)C16—Si2—C18—C20−45.6 (2)
O1—C1—C6—C553.9 (2)C17—Si2—C18—C2077.52 (19)
C2—C1—C6—C5−64.8 (2)O5—Si2—C18—C2177.13 (18)
O5—C5—C6—O255.7 (2)C16—Si2—C18—C21−165.17 (17)
C4—C5—C6—O2−66.5 (2)C17—Si2—C18—C21−42.1 (2)
D—H···AD—HH···AD···AD—H···A
C7—H7B···O3i0.982.553.410 (3)147
C9—H9A···O3ii0.982.593.527 (3)161
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
C7—H7B⋯O3i 0.982.553.410 (3)147
C9—H9A⋯O3ii 0.982.593.527 (3)161

Symmetry codes: (i) ; (ii) .

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1.  A short history of SHELX.

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

Review 2.  ZD6474--clinical experience to date.

Authors:  J V Heymach
Journal:  Br J Cancer       Date:  2005-06       Impact factor: 7.640

3.  Vandetanib for the treatment of patients with locally advanced or metastatic hereditary medullary thyroid cancer.

Authors:  Samuel A Wells; Jessica E Gosnell; Robert F Gagel; Jeffrey Moley; David Pfister; Julie A Sosa; Michael Skinner; Annetta Krebs; James Vasselli; Martin Schlumberger
Journal:  J Clin Oncol       Date:  2010-01-11       Impact factor: 44.544

Review 4.  Vandetanib (ZD6474), a dual inhibitor of vascular endothelial growth factor receptor (VEGFR) and epidermal growth factor receptor (EGFR) tyrosine kinases: current status and future directions.

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1.  A script for automated 3-dimentional structure generation and conformer search from 2- dimentional chemical drawing.

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