Home Crystal structure of (2-(1-hydroxyheptyl)octahydro-8aH-chromene-5,8,8a-triol), C16H30O5
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Crystal structure of (2-(1-hydroxyheptyl)octahydro-8aH-chromene-5,8,8a-triol), C16H30O5

  • Guangdi Wang ORCID logo , Shihao Qian , Sun Yan and Tingchi Wen ORCID logo EMAIL logo
Published/Copyright: April 20, 2022

Abstract

C16H30O5, monoclinic, P21 (no. 4), a = 5.6814(5) Å, b = 13.0181(12) Å, c = 22.833(2) Å, β = 96.473(2)°, V = 1677.9(3) Å3, Z = 4, R gt (F) = 0.0508, wRref (F 2) = 0.1346, T = 296(2) K.

CCDC no.: 2117133

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal: Colorless block
Size: 0.20 × 0.20 × 0.20 mm
Wavelength: Mo Kα radiation (0.71073 Å)
μ: 0.09 mm−1
Diffractometer, scan mode:  CCD, φ and ω
θ max, completeness: 25.0°, >99%
N(hkl)measured, N(hkl)unique, R int: 35,545, 5903, 0.084
Criterion for I obs, N(hkl)gt: I obs > 2 σ(I obs), 4005
N(param)refined: 381
Programs: SHELX [1], [2], [3], [4], Diamond [5]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

Atom x y z U iso*/U eq
C1 −0.1136 (7) 0.0479 (3) 0.75195 (19) 0.0367 (11)
H1 −0.0908 −0.0106 0.7790 0.044*
C2 −0.0993 (8) 0.0069 (3) 0.6903 (2) 0.0454 (12)
H2A −0.2378 −0.0351 0.6786 0.054*
H2B 0.0395 −0.0366 0.6906 0.054*
C3 −0.0855 (8) 0.0929 (4) 0.64492 (19) 0.0404 (11)
H3A −0.0645 0.0633 0.6069 0.049*
H3B −0.2326 0.1315 0.6408 0.049*
C4 0.1175 (7) 0.1640 (3) 0.66384 (17) 0.0318 (11)
H4 0.2659 0.1251 0.6658 0.038*
C5 0.0925 (7) 0.2083 (3) 0.72393 (18) 0.0299 (10)
C6 0.0856 (7) 0.1237 (3) 0.76975 (18) 0.0321 (10)
H6 0.2339 0.0853 0.7698 0.039*
C7 0.0889 (8) 0.1710 (3) 0.83109 (18) 0.0386 (11)
H7A −0.0593 0.2067 0.8340 0.046*
H7B 0.1042 0.1170 0.8605 0.046*
C8 0.2949 (8) 0.2462 (4) 0.84296 (19) 0.0414 (11)
H8A 0.4433 0.2087 0.8460 0.050*
H8B 0.2846 0.2808 0.8802 0.050*
C9 0.2914 (8) 0.3259 (3) 0.79368 (18) 0.0336 (11)
H9 0.1455 0.3663 0.7928 0.040*
C10 0.5011 (8) 0.3990 (3) 0.79911 (17) 0.0342 (11)
H10 0.6465 0.3580 0.8015 0.041*
C11 0.5095 (8) 0.4641 (4) 0.8543 (2) 0.0420 (12)
H11A 0.3653 0.5045 0.8522 0.050*
H11B 0.5103 0.4186 0.8880 0.050*
C12 0.7189 (8) 0.5364 (4) 0.8653 (2) 0.0456 (12)
H12A 0.8643 0.4975 0.8651 0.055*
H12B 0.7122 0.5863 0.8336 0.055*
C13 0.7233 (9) 0.5926 (4) 0.9235 (2) 0.0518 (13)
H13A 0.5775 0.6315 0.9231 0.062*
H13B 0.7246 0.5419 0.9547 0.062*
C14 0.9286 (9) 0.6649 (4) 0.9387 (2) 0.0549 (14)
H14A 0.9272 0.7166 0.9081 0.066*
H14B 1.0753 0.6266 0.9394 0.066*
C15 0.9228 (10) 0.7176 (5) 0.9974 (2) 0.0668 (17)
H15A 0.7758 0.7558 0.9964 0.080*
H15B 0.9215 0.6654 1.0277 0.080*
C16 1.1256 (13) 0.7900 (6) 1.0149 (3) 0.102 (3)
H16A 1.2729 0.7549 1.0126 0.153*
H16B 1.1180 0.8134 1.0545 0.153*
H16C 1.1151 0.8478 0.9886 0.153*
C17 −0.3180 (8) 0.5036 (4) 0.4719 (2) 0.0434 (12)
H17 −0.3572 0.5537 0.4403 0.052*
C18 −0.5337 (8) 0.4342 (5) 0.4738 (2) 0.0548 (14)
H18A −0.5517 0.3914 0.4388 0.066*
H18B −0.6744 0.4766 0.4733 0.066*
C19 −0.5144 (8) 0.3654 (4) 0.52838 (19) 0.0452 (12)
H19A −0.6612 0.3277 0.5293 0.054*
H19B −0.3879 0.3160 0.5262 0.054*
C20 −0.4650 (7) 0.4281 (4) 0.58418 (18) 0.0359 (11)
H20 −0.5985 0.4748 0.5870 0.043*
C21 −0.2427 (7) 0.4916 (3) 0.58211 (19) 0.0335 (11)
C22 −0.2662 (7) 0.5634 (3) 0.52925 (18) 0.0374 (11)
H22 −0.4060 0.6061 0.5328 0.045*
C23 −0.0549 (8) 0.6369 (4) 0.5323 (2) 0.0451 (12)
H23A 0.0874 0.5987 0.5267 0.054*
H23B −0.0812 0.6873 0.5009 0.054*
C24 −0.0216 (10) 0.6914 (4) 0.5915 (2) 0.0531 (14)
H24A 0.1204 0.7333 0.5941 0.064*
H24B −0.1556 0.7362 0.5951 0.064*
C25 −0.0007 (8) 0.6131 (3) 0.64125 (19) 0.0400 (12)
H25 0.1398 0.5707 0.6380 0.048*
C26 0.0117 (8) 0.6542 (4) 0.7037 (2) 0.0434 (12)
H26 −0.1327 0.6936 0.7076 0.052*
C27 0.2246 (9) 0.7224 (4) 0.7214 (2) 0.0497 (13)
H27A 0.3681 0.6833 0.7186 0.060*
H27B 0.2230 0.7794 0.6940 0.060*
C28 0.2296 (9) 0.7644 (4) 0.7835 (2) 0.0555 (14)
H28A 0.0836 0.8019 0.7862 0.067*
H28B 0.2327 0.7070 0.8106 0.067*
C29 0.4351 (9) 0.8343 (4) 0.8033 (2) 0.0559 (14)
H29A 0.4370 0.8906 0.7755 0.067*
H29B 0.5817 0.7963 0.8028 0.067*
C30 0.4248 (10) 0.8779 (5) 0.8644 (2) 0.0618 (15)
H30A 0.2769 0.9151 0.8646 0.074*
H30B 0.4222 0.8211 0.8918 0.074*
C31 0.6232 (11) 0.9479 (5) 0.8862 (3) 0.0713 (17)
H31A 0.6306 1.0033 0.8581 0.086*
H31B 0.7709 0.9101 0.8880 0.086*
C32 0.6017 (14) 0.9936 (6) 0.9461 (3) 0.094 (2)
H32A 0.4631 1.0362 0.9441 0.141*
H32B 0.7396 1.0343 0.9583 0.141*
H32C 0.5888 0.9394 0.9741 0.141*
O1 −0.3429 (5) 0.0896 (2) 0.75762 (13) 0.0463 (8)
H1A −0.3465 0.1501 0.7476 0.069*
O2 0.1230 (5) 0.2441 (2) 0.62126 (11) 0.0357 (7)
H2 0.2453 0.2774 0.6284 0.054*
O3 −0.1206 (5) 0.2655 (2) 0.72367 (12) 0.0343 (7)
H3 −0.1512 0.2936 0.6916 0.051*
O4 0.2920 (5) 0.2739 (2) 0.73800 (11) 0.0308 (7)
O5 0.4909 (6) 0.4626 (2) 0.74689 (12) 0.0438 (8)
H5 0.6027 0.5028 0.7506 0.066*
O7 −0.1194 (5) 0.4453 (3) 0.45705 (14) 0.0514 (9)
H7 −0.0573 0.4156 0.4865 0.077*
O8 −0.0430 (4) 0.4282 (2) 0.57679 (12) 0.0375 (8)
H8 −0.0502 0.3768 0.5973 0.056*
O9 −0.2074 (5) 0.5470 (2) 0.63589 (12) 0.0390 (8)
O10 0.0225 (6) 0.5695 (3) 0.74382 (13) 0.0530 (9)
H10A 0.1055 0.5240 0.7321 0.079*
O6 −0.4460 (5) 0.3606 (2) 0.63424 (12) 0.0386 (7)
H6A −0.4306 0.3948 0.6646 0.058*

Source of material

Stilbella buquetii was cultured on slants of potato dextrose agar (PDA) at 25 °C for 15 days. Agar plugs were cut into small pieces (about 0.5 × 0.5 × 0.5 cm3) under aseptic conditions and 15 of these pieces were used to inoculate in three Erlenmeyer flasks (1 L), each containing 400 mL of media (1% protein, 4% glucose) [6]; 15 flasks of the inoculated media were incubated at 25 °C on a rotary shaker at 170 rpm for five days to prepare the seed culture. Fermentation was carried out in 500 Fernbach flasks (500 mL), each containing 2 g of protein, 8 g of glucose. Distilled H2O (200 mL) was added to each flask, and autoclaving at 15 psi for 30 min. After cooling to room temperature, each flask was inoculated with 5 mL of the spore inoculum and incubated at 25 °C for 60 days. The culture was filtered to separate the residue (mycelia) and the filtrate (broth). The broth was extracted with EtOAc (3 × 10 L) and concentrated to a brown gum (33 g; extract A). The mycelium was macerated in EtOAc (1.5 L, rt, three days) and filtered. The filtrate was partially concentrated to a brown gum (130 g; Extract B). Combine extract A and extract B, and perform column chromatography on silica gel (10 × 150 cm), using PE/EtOAc as the eluent (gradient from 100:0 to 0:100) to obtain 11 fractions. Fraction 6 (8 g) was repeatedly ODS (manually assembled C18 reverse column chromatography) column using a step gradient elution with hexane/EtOAc (from 100:0 to 60:40) to obtain nine fractions. The product (2-(1-hydroxyheptyl)octahydro-8aH-chromene-5,8,8a-triol) (33 mg) was obtained using ethyl acetate and methyl alcohol recrystallization in the fraction 6–6.

Experimental details

Carbon-bound H atoms were placed in calculated positions (C–H = 0.97 Å (methylene), C–H = 0.96 Å, (methyl), and O–H = 0.82 Å(–OH)). The absolute configuration was derived from the configuration of the educts.

Comment

A series of complex pyranones discovered from Trichoderma corning are called koninginin. The main types of koninginin discovered so far are koninginin A–E and Koninginin G [7], [8], [9]. Koninginin G is also named (2S,4aR,5R,8S, 8aS)-2-((S)-1-hydroxyheptyl)octahydro-2H-chromene-5. Although its molecular structure has been discovered [10], its crystal structure has not yet been reported. It should be noted that 1,4,5,6-tetra-epi-koninginin G was extracted from Stilbella buquetii for the first time.

The structure solution shows that the title compound is a derivative of koninginin A. There are two crystallographically independent molecules in the asymmetric unit. The bond length in both molecules are within the expected range.

We speculate that the C7–O–C10 position of koninginin A is hydrolyzed by hydrolase to form two hydroxyl groups to form koninginin G (C5–OH, C10–OH).


Corresponding author: Tingchi Wen, College of Pharmacy, Guizhou University, Guiyang 550025, G. P, China, E-mail:

Funding source: The Science and Technology Foundation of Guizhou Province

Award Identifier / Grant number: No. [2019]2451-3 & No. [2019]2333

  1. Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.

  2. Research funding: This work was financed by The Science and Technology Foundation of Guizhou Province (No. [2019]2451-3 & No. [2019]2333).

  3. Conflict of interest statement: The authors declare no conflicts of interest regarding this article.

References

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Received: 2022-02-23
Accepted: 2022-03-29
Published Online: 2022-04-20
Published in Print: 2022-08-26

© 2022 Guangdi Wang et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 International License.

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  59. Crystal structure of 2-(2-hydroxy-5-nitrophenyl)-5-methyl-1,3-dioxane-5-carboxylic acid, C12H13N1O7
  60. The crystal structure of 1,2-bis(pyridinium-4-yl)ethane diperchlorate, C12H14N2·2ClO4 – a second polymorph
  61. The crystal structure of [(1,10-phenantroline-κ2N,N′)-bis(6-phenylpyridine-2-carboxylato-κ2N,O)manganese(II)] monohydrate, C36H26N4O5Mn
  62. Crystal structure of 1,2-bis(2,2,3,3,5,5,5-heptamethyl-1,1,4,4- tetrakis(trimethylsilyl)pentasilan-1-yl)ditellane, C38H114Si18Te2
  63. Crystal structure of 1,2-bis(2,4-dinitro-1H-imidazol-1-yl)ethane – dimethylformamide (1/1), C11H13N9O9
  64. Crystal structure of (Z)-3-((tert-butylamino) methylene)-2-(2-hydroxynaphthalen-1-yl) chroman-4-one, C24H23NO3
  65. Synthesis and crystal structure of (E)-1-(4-(((E)-3-(tert-butyl)-2-hydroxybenzylidene)amino)phenyl)ethan-1-one O-ethyl oxime, C21H26N2O2
  66. Crystal structure of the double salt bis(5-amino-1,2,4-triazol-4-ium-3-yl)methane hydrogen oxalate hemioxalate, C8H11N8O6
  67. Hydrothermal synthesis and crystal structure of catena-poly[diaqua-bis(μ2-4-[(4-pyridinylmethyl)amino]benzoato-κ2N:O)cobalt(II)]–1,2bi(4-pyridyl)ethene–water (1/1/1), C50H50N8O8Co
  68. Crystal structure of 3-(3-bromophenyl)-1′,3′-dimethyl-2′H,3H,4H-spiro[furo[3, 2-c]chromene-2,5′-pyrimidine]-2′,4,4′,6′(1′H,3′H) tetraone, C22H15BrN2O6
  69. The crystal structure of poly[aqua-(μ2-4,4′- bis(imidazolyl)biphenyl-κ2N:N′)-(μ2-3-nitrobenzene-1,2-dicarboxylato-κ2O:O′)]copper (II) hydrate, C26H21N5O8Cu
  70. The crystal structure of bis(4-(6-carboxy-8-ethyl-3-fluoro-5-oxo-5,8-dihydro-1,8-naphthyridin-2- yl)piperazin-1-ium) adipate tetrahydrate, C36H52F2N8O14
  71. Synthesis and crystal structure of poly[aqua(μ4-(1R,2S,4R)-4-hydroxy-1-((7-hydroxy-3-(4-hydroxy-3-sulfonatophenyl)-4-oxo-4H-chromen-8-yl)methyl)pyrrolidin-1-ium-2-carboxylate-κ4O:O′:O″:O‴)sodium(I)] monohydrate, C21H22NNaO12S
  72. Crystal structure of chlorido-(η6-toluene)(2,2′-bipyridine-κ2N,N′)ruthenium(II) hexafluorophosphate, C17H16ClN2RuPF6
  73. The crystal structure of (R)-6-hydroxy-8-methoxy-3-methylisochroman-1-one, C11H12O4
  74. Crystal structure of catena-poly[(5,5,7,12,12,14-hexamethyl -1,4,8,11-tetraazacyclotetradecane- κ4N,N′,Nʺ,N‴)nickel(II)-(μ2-perchlorato-κ2O:O′)] 3,5-dicarboxybenzoate – methanol (1/2), C27H49ClN4NiO12
  75. The crystal structure of 4-(chloromethyl)benzonitrile, C8H6ClN
  76. The crystal structure of dimethylammonium 8-[(7,9-dioxo-6,10-dioxaspiro[4.5]decan-8-ylidene)methyl]-9-oxo-6,10-dioxaspiro[4.5]dec-7-en-7-olate, C19H25NO8
  77. Crystal structure of (2R,3S,4S,5R,6S)-2-(acetoxymethyl)-6-((1-acetyl-5-bromo-4-chloro-1H-indol-3-yl)oxy)tetrahydro-2H-pyran-3,4,5-triyl triacetate hemihydrate C24H25BrClNO11
  78. The crystal structure of the co-crystal tetrakis[2-(tris(4-methoxyphenyl)stannyl)ethyl]silane – tetrahydrofuran – toluene – tetrahydrofurane (1/1/1), C103H116O13SiSn4
  79. Crystal structure of methyl 3-(1,3-dioxo-1H-benzo[de]isoquinolin-2(3H)-yl)propanoate, C16H13NO4
  80. Crystal structure of ethyl (Z)-3-amino-2-cyano-3-(2-oxo-2H-chromen-3-yl)acrylate, C15H12N2O4
  81. Crystal structure of methyl 2-(1,3-dioxo-1H-benzo[de]isoquinolin-2(3H)-yl)acetate, C15H11NO4
  82. Crystal structure of catena-poly[diaqua-bis(μ2-1,3-di(1H-imidazol-1-yl)propane-κ2N:N′)cobalt(II)] tetrafluoroterephthalate, C26H28N8O6F4Co
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