Literature DB >> 22058793

2-{(1S,2S,4aR,8R,8aR)-8-Hy-droxy-4a,8-dimethyl-1-[(2E)-2-methyl-but-2-eno-yl-oxy]perhydro-naphthalen-2-yl}acrylic acid from Sclerorhachis platyrachis.

Rasool Kheyrabadi, Zohreh Habibi, Seik Weng Ng.   

Abstract

The eudesmane-type terpenoid, C(20)H(30)O(5), isolated from Sclerorhachis platyrachis, has a deca-lin skeleton whose six-membered rings adopt chair conformations. The two methyl substituents occupy axial positions, whereas the other three substituents occupy equatorial positions. The hy-droxy group is an intra-molecular hydrogen-bond donor to the single-bond ester O atom; adjacent mol-ecules are linked through the carb-oxy-lic acid interacting with the hydroxyl group, forming a hydrogen-bonded chain running along the c axis.

Entities:  

Year:  2011        PMID: 22058793      PMCID: PMC3201322          DOI: 10.1107/S1600536811037640

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


Related literature

For the crystal structure of epiilic acid, see: Daniewski et al. (1986 ▶). For a review of eudesmane-type sesquiterpenoids, see: Wu et al. (2006 ▶).

Experimental

Crystal data

C20H30O5 M = 350.44 Monoclinic, a = 6.2718 (1) Å b = 19.0285 (3) Å c = 8.4530 (2) Å β = 110.184 (2)° V = 946.85 (3) Å3 Z = 2 Cu Kα radiation μ = 0.71 mm−1 T = 100 K 0.20 × 0.20 × 0.20 mm

Data collection

Agilent SuperNova Dual diffractometer with an Atlas detector Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010 ▶) T min = 0.872, T max = 0.872 5962 measured reflections 3663 independent reflections 3635 reflections with I > 2σ(I) R int = 0.015

Refinement

R[F 2 > 2σ(F 2)] = 0.028 wR(F 2) = 0.076 S = 1.03 3663 reflections 238 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.19 e Å−3 Δρmin = −0.13 e Å−3 Absolute structure: Flack (1983 ▶), 1705 Friedel pairs Flack parameter: 0.08 (11) Data collection: CrysAlis PRO (Agilent, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: X-SEED (Barbour, 2001 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811037640/jh2330sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811037640/jh2330Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811037640/jh2330Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H30O5F(000) = 380
Mr = 350.44Dx = 1.229 Mg m3
Monoclinic, P21Cu Kα radiation, λ = 1.54184 Å
Hall symbol: P 2ybCell parameters from 4968 reflections
a = 6.2718 (1) Åθ = 5.6–74.1°
b = 19.0285 (3) ŵ = 0.71 mm1
c = 8.4530 (2) ÅT = 100 K
β = 110.184 (2)°Prism, colourless
V = 946.85 (3) Å30.20 × 0.20 × 0.20 mm
Z = 2
Agilent SuperNova Dual diffractometer with an Atlas detector3663 independent reflections
Radiation source: SuperNova (Cu) X-ray Source3635 reflections with I > 2σ(I)
MirrorRint = 0.015
Detector resolution: 10.4041 pixels mm-1θmax = 74.2°, θmin = 5.6°
ω scansh = −6→7
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010)k = −23→22
Tmin = 0.872, Tmax = 0.872l = −10→10
5962 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)] = 0.028H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.076w = 1/[σ2(Fo2) + (0.0493P)2 + 0.1079P] where P = (Fo2 + 2Fc2)/3
S = 1.03(Δ/σ)max = 0.001
3663 reflectionsΔρmax = 0.19 e Å3
238 parametersΔρmin = −0.13 e Å3
1 restraintAbsolute structure: Flack (1983), 1705 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: 0.08 (11)
xyzUiso*/Ueq
O10.94364 (17)0.50094 (5)0.32350 (12)0.0229 (2)
O21.0317 (2)0.39226 (6)0.42340 (14)0.0337 (2)
O30.88724 (14)0.44178 (4)−0.13924 (11)0.01664 (18)
O40.64080 (17)0.41443 (5)−0.00727 (13)0.0264 (2)
O50.76555 (15)0.51072 (5)−0.43525 (11)0.01914 (19)
C11.0458 (2)0.43922 (7)0.33077 (16)0.0212 (3)
C21.1838 (2)0.43410 (7)0.21712 (15)0.0190 (2)
C31.3138 (3)0.37790 (8)0.2342 (2)0.0305 (3)
H3A1.31670.34310.31550.037*
H3B1.40420.37230.16510.037*
C41.1868 (2)0.49268 (6)0.09608 (15)0.0170 (2)
H41.29010.47660.03580.020*
C51.2922 (2)0.56070 (7)0.19001 (15)0.0200 (3)
H5A1.20690.57520.26360.024*
H5B1.45120.55140.26260.024*
C61.2884 (2)0.62031 (7)0.06860 (16)0.0199 (3)
H6A1.39280.60860.00730.024*
H6B1.34540.66370.13420.024*
C71.0501 (2)0.63443 (6)−0.06021 (15)0.0167 (2)
C80.8926 (2)0.65941 (7)0.03410 (16)0.0205 (3)
H8A0.95910.70080.10240.031*
H8B0.87510.62170.10750.031*
H8C0.74350.6717−0.04770.031*
C91.0683 (2)0.69343 (7)−0.17927 (17)0.0198 (3)
H9A1.10130.7383−0.11620.024*
H9B1.19680.6832−0.21820.024*
C100.8522 (2)0.70175 (7)−0.33205 (16)0.0205 (3)
H10A0.72380.7141−0.29460.025*
H10B0.87200.7402−0.40470.025*
C110.8004 (2)0.63328 (7)−0.43153 (15)0.0196 (3)
H11A0.92680.6226−0.47260.023*
H11B0.66110.6396−0.53130.023*
C120.7668 (2)0.57076 (7)−0.32876 (14)0.0165 (2)
C130.5355 (2)0.57294 (7)−0.30647 (15)0.0210 (3)
H13A0.52340.5336−0.23530.031*
H13B0.41510.5693−0.41690.031*
H13C0.51960.6173−0.25290.031*
C140.97307 (19)0.56460 (6)−0.16172 (14)0.0150 (2)
H141.10380.5505−0.19680.018*
C150.95518 (19)0.50674 (6)−0.04079 (14)0.0144 (2)
H150.84020.51980.01180.017*
C160.7264 (2)0.40082 (6)−0.11125 (15)0.0178 (2)
C170.6621 (2)0.33936 (6)−0.22701 (15)0.0172 (2)
C180.7910 (2)0.32087 (7)−0.31761 (16)0.0196 (3)
H180.92270.3486−0.30210.024*
C190.7516 (2)0.26166 (7)−0.44010 (17)0.0249 (3)
H19A0.88320.2301−0.40530.037*
H19B0.73010.2804−0.55260.037*
H19C0.61560.2356−0.44290.037*
C200.4449 (2)0.30420 (7)−0.23055 (18)0.0249 (3)
H20A0.42100.2614−0.29900.037*
H20B0.31700.3364−0.27950.037*
H20C0.45560.2920−0.11540.037*
H10.881 (4)0.5016 (12)0.399 (3)0.053 (6)*
H50.787 (4)0.4729 (12)−0.379 (3)0.041 (5)*
U11U22U33U12U13U23
O10.0310 (5)0.0223 (5)0.0201 (4)0.0048 (4)0.0150 (4)0.0010 (4)
O20.0468 (6)0.0291 (5)0.0353 (6)0.0089 (5)0.0270 (5)0.0130 (5)
O30.0187 (4)0.0162 (4)0.0172 (4)−0.0033 (3)0.0090 (3)−0.0039 (3)
O40.0302 (5)0.0262 (5)0.0305 (5)−0.0080 (4)0.0205 (4)−0.0073 (4)
O50.0248 (5)0.0190 (5)0.0144 (4)0.0004 (4)0.0078 (3)−0.0025 (4)
C10.0245 (6)0.0220 (6)0.0178 (6)0.0016 (5)0.0082 (5)0.0016 (5)
C20.0211 (5)0.0192 (6)0.0170 (5)−0.0002 (5)0.0069 (4)0.0022 (5)
C30.0377 (8)0.0240 (7)0.0382 (8)0.0084 (6)0.0238 (7)0.0095 (6)
C40.0175 (6)0.0182 (6)0.0162 (5)−0.0002 (4)0.0069 (5)0.0005 (5)
C50.0199 (6)0.0217 (7)0.0153 (5)−0.0035 (5)0.0019 (4)0.0003 (5)
C60.0185 (6)0.0209 (6)0.0194 (6)−0.0042 (5)0.0053 (5)0.0000 (5)
C70.0186 (6)0.0156 (6)0.0159 (5)−0.0025 (4)0.0058 (5)−0.0017 (4)
C80.0244 (6)0.0189 (6)0.0193 (6)−0.0004 (5)0.0090 (5)−0.0041 (5)
C90.0218 (6)0.0169 (6)0.0214 (6)−0.0017 (4)0.0083 (5)0.0003 (4)
C100.0252 (6)0.0161 (6)0.0207 (6)0.0034 (5)0.0084 (5)0.0027 (5)
C110.0220 (6)0.0212 (6)0.0150 (6)0.0017 (5)0.0057 (5)0.0010 (5)
C120.0184 (6)0.0170 (6)0.0147 (5)0.0011 (5)0.0063 (4)−0.0024 (5)
C130.0166 (6)0.0269 (7)0.0189 (6)0.0014 (5)0.0054 (5)−0.0025 (5)
C140.0147 (5)0.0168 (6)0.0147 (5)−0.0004 (4)0.0067 (4)−0.0020 (5)
C150.0167 (6)0.0133 (5)0.0141 (5)−0.0008 (4)0.0065 (4)−0.0027 (4)
C160.0161 (5)0.0196 (6)0.0186 (6)−0.0007 (4)0.0072 (4)0.0017 (5)
C170.0166 (5)0.0157 (6)0.0182 (5)−0.0002 (4)0.0045 (4)0.0013 (4)
C180.0186 (6)0.0196 (6)0.0197 (6)−0.0010 (5)0.0054 (5)−0.0006 (5)
C190.0265 (6)0.0251 (7)0.0232 (7)−0.0012 (5)0.0088 (5)−0.0056 (5)
C200.0199 (6)0.0232 (7)0.0333 (7)−0.0044 (5)0.0113 (5)−0.0041 (5)
O1—C11.3290 (16)C9—C101.5236 (18)
O1—H10.85 (2)C9—H9A0.9900
O2—C11.2113 (16)C9—H9B0.9900
O3—C161.3586 (15)C10—C111.5237 (18)
O3—C151.4689 (13)C10—H10A0.9900
O4—C161.2056 (16)C10—H10B0.9900
O5—C121.4530 (14)C11—C121.5297 (17)
O5—H50.85 (2)C11—H11A0.9900
C1—C21.5021 (17)C11—H11B0.9900
C2—C31.322 (2)C12—C131.5265 (16)
C2—C41.5175 (16)C12—C141.5559 (15)
C3—H3A0.9500C13—H13A0.9800
C3—H3B0.9500C13—H13B0.9800
C4—C151.5365 (15)C13—H13C0.9800
C4—C51.5429 (17)C14—C151.5325 (16)
C4—H41.0000C14—H141.0000
C5—C61.5245 (17)C15—H151.0000
C5—H5A0.9900C16—C171.4885 (16)
C5—H5B0.9900C17—C181.3388 (18)
C6—C71.5394 (17)C17—C201.5083 (17)
C6—H6A0.9900C18—C191.4920 (17)
C6—H6B0.9900C18—H180.9500
C7—C91.5380 (17)C19—H19A0.9800
C7—C81.5428 (17)C19—H19B0.9800
C7—C141.5650 (16)C19—H19C0.9800
C8—H8A0.9800C20—H20A0.9800
C8—H8B0.9800C20—H20B0.9800
C8—H8C0.9800C20—H20C0.9800
C1—O1—H1108.4 (15)H10A—C10—H10B108.2
C16—O3—C15118.15 (9)C10—C11—C12113.36 (10)
C12—O5—H5110.5 (14)C10—C11—H11A108.9
O2—C1—O1122.71 (12)C12—C11—H11A108.9
O2—C1—C2123.53 (12)C10—C11—H11B108.9
O1—C1—C2113.74 (11)C12—C11—H11B108.9
C3—C2—C1116.90 (12)H11A—C11—H11B107.7
C3—C2—C4121.14 (12)O5—C12—C13107.20 (10)
C1—C2—C4121.84 (11)O5—C12—C11103.42 (9)
C2—C3—H3A120.0C13—C12—C11111.83 (11)
C2—C3—H3B120.0O5—C12—C14109.15 (9)
H3A—C3—H3B120.0C13—C12—C14114.71 (9)
C2—C4—C15114.03 (10)C11—C12—C14109.86 (10)
C2—C4—C5111.84 (10)C12—C13—H13A109.5
C15—C4—C5111.54 (10)C12—C13—H13B109.5
C2—C4—H4106.3H13A—C13—H13B109.5
C15—C4—H4106.3C12—C13—H13C109.5
C5—C4—H4106.3H13A—C13—H13C109.5
C6—C5—C4111.93 (10)H13B—C13—H13C109.5
C6—C5—H5A109.2C15—C14—C12115.48 (9)
C4—C5—H5A109.2C15—C14—C7108.91 (9)
C6—C5—H5B109.2C12—C14—C7115.86 (10)
C4—C5—H5B109.2C15—C14—H14105.1
H5A—C5—H5B107.9C12—C14—H14105.1
C5—C6—C7113.06 (10)C7—C14—H14105.1
C5—C6—H6A109.0O3—C15—C14107.48 (8)
C7—C6—H6A109.0O3—C15—C4107.10 (9)
C5—C6—H6B109.0C14—C15—C4111.08 (9)
C7—C6—H6B109.0O3—C15—H15110.4
H6A—C6—H6B107.8C14—C15—H15110.4
C6—C7—C9108.48 (10)C4—C15—H15110.4
C6—C7—C8109.08 (10)O4—C16—O3123.23 (11)
C9—C7—C8108.57 (10)O4—C16—C17124.06 (11)
C6—C7—C14106.28 (10)O3—C16—C17112.67 (10)
C9—C7—C14109.85 (9)C18—C17—C16120.16 (11)
C8—C7—C14114.42 (10)C18—C17—C20126.28 (12)
C7—C8—H8A109.5C16—C17—C20113.55 (11)
C7—C8—H8B109.5C17—C18—C19127.40 (12)
H8A—C8—H8B109.5C17—C18—H18116.3
C7—C8—H8C109.5C19—C18—H18116.3
H8A—C8—H8C109.5C18—C19—H19A109.5
H8B—C8—H8C109.5C18—C19—H19B109.5
C10—C9—C7112.67 (10)H19A—C19—H19B109.5
C10—C9—H9A109.1C18—C19—H19C109.5
C7—C9—H9A109.1H19A—C19—H19C109.5
C10—C9—H9B109.1H19B—C19—H19C109.5
C7—C9—H9B109.1C17—C20—H20A109.5
H9A—C9—H9B107.8C17—C20—H20B109.5
C11—C10—C9109.70 (10)H20A—C20—H20B109.5
C11—C10—H10A109.7C17—C20—H20C109.5
C9—C10—H10A109.7H20A—C20—H20C109.5
C11—C10—H10B109.7H20B—C20—H20C109.5
C9—C10—H10B109.7
O2—C1—C2—C3−7.2 (2)C13—C12—C14—C7−79.68 (14)
O1—C1—C2—C3171.30 (13)C11—C12—C14—C747.30 (13)
O2—C1—C2—C4176.65 (13)C6—C7—C14—C1563.08 (12)
O1—C1—C2—C4−4.81 (17)C9—C7—C14—C15−179.76 (9)
C3—C2—C4—C15120.75 (14)C8—C7—C14—C15−57.36 (13)
C1—C2—C4—C15−63.31 (15)C6—C7—C14—C12−164.75 (10)
C3—C2—C4—C5−111.53 (15)C9—C7—C14—C12−47.59 (13)
C1—C2—C4—C564.41 (15)C8—C7—C14—C1274.81 (13)
C2—C4—C5—C6−178.17 (10)C16—O3—C15—C14−137.12 (10)
C15—C4—C5—C6−49.13 (14)C16—O3—C15—C4103.46 (11)
C4—C5—C6—C753.90 (14)C12—C14—C15—O348.75 (12)
C5—C6—C7—C9−178.02 (10)C7—C14—C15—O3−178.88 (8)
C5—C6—C7—C863.89 (13)C12—C14—C15—C4165.60 (9)
C5—C6—C7—C14−59.95 (13)C7—C14—C15—C4−62.02 (12)
C6—C7—C9—C10168.69 (10)C2—C4—C15—O3−60.90 (12)
C8—C7—C9—C10−72.89 (13)C5—C4—C15—O3171.23 (9)
C14—C7—C9—C1052.92 (13)C2—C4—C15—C14−177.99 (10)
C7—C9—C10—C11−59.35 (14)C5—C4—C15—C1454.14 (12)
C9—C10—C11—C1259.45 (14)C15—O3—C16—O4−1.68 (17)
C10—C11—C12—O5−169.09 (10)C15—O3—C16—C17176.10 (9)
C10—C11—C12—C1375.89 (13)O4—C16—C17—C18−168.19 (13)
C10—C11—C12—C14−52.68 (13)O3—C16—C17—C1814.06 (16)
O5—C12—C14—C15−70.92 (12)O4—C16—C17—C2012.88 (18)
C13—C12—C14—C1549.37 (14)O3—C16—C17—C20−164.88 (11)
C11—C12—C14—C15176.34 (9)C16—C17—C18—C19−179.39 (12)
O5—C12—C14—C7160.04 (9)C20—C17—C18—C19−0.6 (2)
D—H···AD—HH···AD···AD—H···A
O1—H1···O5i0.85 (2)1.80 (2)2.648 (1)174 (2)
O5—H5···O30.85 (2)1.99 (2)2.692 (1)139 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1⋯O5i0.85 (2)1.80 (2)2.648 (1)174 (2)
O5—H5⋯O30.85 (2)1.99 (2)2.692 (1)139 (2)

Symmetry code: (i) .

  2 in total

Review 1.  Eudesmane sesquiterpenoids from the Asteraceae family.

Authors:  Quan-Xiang Wu; Yan-Ping Shi; Zhong-Jian Jia
Journal:  Nat Prod Rep       Date:  2006-08-07       Impact factor: 13.423

2.  A short history of SHELX.

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

  2 in total

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