Supporting information
Crystallographic Information File (CIF) https://doi.org/10.1107/S2053229616005441/fp3028sup1.cif | |
Structure factor file (CIF format) https://doi.org/10.1107/S2053229616005441/fp3028Isup2.hkl | |
Portable Document Format (PDF) file https://doi.org/10.1107/S2053229616005441/fp3028sup3.pdf |
CCDC reference: 1471646
Biotransformation or biocatalysis is the structural modification of compounds using enzymes as the catalysts (Mahato & Garai, 1997). Biotransformation using whole-cell cultures of microorganisms is an efficient method for the production of libraries of structurally diverse molecules, starting from a single substrate (Mahato & Garai, 1997; Ahmad et al., 2014; Khan et al., 2014; Zafar et al., 2012; Leon et al., 1998; Holland, 1999). This methodology has been applied for the synthesis of bioactive molecules of varying nature (Choudhary et al., 2012; Monagas et al., 2010; Liu & Yu, 2010; Cao et al., 2015; Wang, 2015). Biotransformation has found its applications in organic synthesis as well. Due to the specific nature of enzymes, the reactions take place with high stereo- and regioselectivity (Wang et al., 2000; Wang, 2015; Palomo & Filice, 2015). Therefore, biotransformation plays a key role in the synthesis of pharmaceutically important compounds.
The chemical properties of the molecule depend on the charge density distribution (Coppens, 1998; Jayatilaka et al., 2012). A detailed knowledge of the structural parameters, stereochemistry, planarity and the mutual arrangement of the molecule is required to better understand the structure–activity relationships. In addition, knowledge of the intra- and intermolecular interactions is important for the design of new drugs and modelling the interactions with proteins. The commonly used independent atom model (IAM) does not give all the information about the intermolecular interactions and is likely to produce severe systematic errors in the refined atomic parameters (Ruysink & Vos, 1974). Experimental electron-density analysis is carried out by X-ray diffraction of monocrystals at ultra high resolution (Coppens, 1998). However, the difficult part is the separation of the anisotropic atomic mean-square displacements from the static molecular electron distribution (Hirshfeld, 1976). Proper experimental deconvolution requires diffraction data measured at ultra high resolution. However, effective thermal displacement deconvolution and meaningful electron-density distributions can be achieved even at lower resolutions by transferring the parameters from an electron-density database (Pichon-Pesme et al., 1995; Jelsch et al., 1998; Dittrich et al., 2004, 2005, 2007; Ahmed et al., 2011). Transferring electron-density parameters is comparable to constraining the atomic coordinates at their most likely values. The transferability of atomic electron densities was tested for the first time by Brock et al. (1991) who applied atomic charge-density parameters from an accurate low-temperature study of perylene to diffraction data collected at several temperatures on naphthalene and anthracene crystals.
The ELMAM database (Zarychta et al., 2007) has been extended to ELMAM2 (Domagała et al., 2012) from protein atom types to common organic molecules, and is based on optimal local coordinate systems (Domagała & Jelsch, 2008). An automatic transfer procedure of the ELMAM2 database is now available in the MoPro software (Guillot et al., 2001; Jelsch et al., 2005). Different atom types in a molecule are recognized according to the nature and number of their neighbors. For most atoms, only the first shell of neighbours is analysed, while for H and O atoms, the second and third shells are investigated, respectively (Domagała & Jelsch, 2008; Domagała et al., 2012). Using the transferability principle, a multipolar model is applied for the molecule, and only the structural parameters (scale factor, atomic coordinates and displacement parameters) are refined. The Fourier residual maps are improved, notably on the covalent bonds due to the proper electron-density modelling.
During the current study, 17α-methyl-10β,17β-dihydroxyestr-4-en-3-one (Scheme 1) was obtained from the fungal biotransformation of methyloestrenolone, a contraceptive agent (Zafar et al., 2013; Yousuf et al., 2010). The substrate belongs to the estrane class of compounds, steroids without the C-19 methyl group (Mason, 1948). Its structure has been investigated by single-crystal X-ray diffraction analysis and its molecular properties have been investigated by using the electron-density parameters from the ELMAM2 library.
Aspergillus niger (ATCC 10549) was cultured in liquid media, prepared by dissolving glucose (10.0 g), peptone (5.0 g), yeast extract (3.0 g), KH2PO4 (5.0 g), glycerol (10.0 ml) and NaCl (5.0 g) per litre of distilled water. The media was sterilized followed by inoculation of the fungal spores. After optimum growth, methyloestrenolone (1.0 g) was transferred to the culture in the form of solution in acetone (Zafar et al., 2013).
Incubation of methyloestrenolone was carried out for 14 d. The biomass was then separated by filtration and the filtrate was extracted with dichloromethane. The extract was subjected to column chromatography and size exclusion HPLC (GS-320, MeOH, retention time = 33 min) to obtain 10β,17α-dihydroxy-17α-methylestr-4-en-3-one as a pure white crystalline solid. The yield of the reaction was only 0.08%.
Structure refinement details for the transferred model are summarized in Table 1. The structure was solved in the orthorhombic space group P212121 using SIR92 (Altomare et al., 1993) available in the WinGX package (Farrugia, 2012). An Initial IAM refinement was carried out using SHELXL2013(Sheldrick, 2015). Most of the H atoms were located in difference Fourier maps. However, H atoms on O atoms could not be ascertained in the difference Fourier maps, hence a riding model was used as was done for C atoms. After the initial cycles of refinement, the model was imported to MoPro (Jelsch et al., 2005). A I/σ cut-off of 3 was applied throughout the MoPro refinements. The bond lengths for H atoms were constrained to standard neutron distances from the International Tables of Crystallography (Allen & Bruno, 2010).
A full-matrix least-squares refinement was carried out against intensity data using MoPro (Jelsch et al., 2005). A SHELX-type weighting scheme was adopted with w = 1/[\s2(Fo2)+(aP)2+bP] where P = (Fo2+2Fc2)/3), a = 0.1 and b = 0.01 in order to have a goodness-of-fit close to unity. The MoPro software provides an easy way to modify the weighting scheme. The normal probability plots (Zhurov et al., 2008) are shown in the Supporting information (Fig. S1). Initially, only the scale factor was refined. Subsequently, the positions and displacement parameters were refined. The refinement was carried out until convergence. The anisotropic thermal displacement parameters for H atoms were constrained to the estimated values using the SHADE server (Madsen, 2006). The residual electron-density maps after the IAM refinement have been shown in Fig. S2(a) (see Supporting information). It can be seen from the residual maps that the electron-density peaks reside on the covalent bonds and there are no significant residual density peaks on the atoms. At the end of the IAM refinement, the crystallographic R factor R[F2 > 2σ(F2)] was 6.0%, the weighted R factor wR(F2) was 14.9% while the goodness-of-fit was 1.05. The minimum and the maximum electron-density peaks after IAM refinement were -0.35 and 0.41 e Å-3, respectively.
The electron-density multipolar parameters of Hansen and Coppen's model (Hansen & Coppens, 1978) were transferred from the ELMAM2 library (Domagała et al., 2012) using the built-in option in the MoPro software (Jelsch et al., 2005). The molecule was neutralized electrically after the transfer. The electron-density parameters were kept fixed during the ELMAM2 refinement and only the scale factor, position and displacement parameters were refined until convergence. The anisotropic thermal displacement parameters for H atoms were kept constrained to the estimated values as explained previously. The ELMAM2 refinement revealed a noticeable improvement in the refinement statistics with the crystallographic R factor R[F2 > 2σ(F2)] was 4.8 %, the weighted R factor wR(F2) was 11.6%, while the goodness-of-fit was 0.95. The minimum and the maximum electron-density peaks had values of -0.26 and 0.35 e Å-3, respectively.
The asymmetric unit of the title compound, (I) (Fig. 1), consists of one parent moiety along with two water molecules of crystallization, whereas the unit cell contains four molecules along with eight water molecules. The compound possesses the typical core structure of steroids having three six-membered rings and a five-membered ring. The cyclohexene ring (A) is not planer in shape and adopts a half-chair conformation. Atoms C2, C3, C4 and C5 lie in the same plane. However, atom C1 deviates from the mean C2—C3—C4—C5 plane by 0.713 Å, whereas atom C10 deviates by 0.218 Å. The two central cyclohexane rings (B and C) both adopt a typical chair conformation, whereas cyclopentane ring D adopts a 13β,17α-envelope conformation (Cremer & Pople, 1975). The A/B ring junction is quasi-trans, whereas the B/C and C/D ring junctions both have a trans conformation (Bartcourt, 1974). The torsion angle of the opposing methyl groups is -161.83°, as measured on C18—C13—C17—C20. All the bond lengths and angles are within the normal range for similar structures (Galdecki et al., 1990; Vasuki et al., 2002; Thamotharan et al., 2004; Shen et al., 2011).
The molecular assembly is stabilized by strong intermolecular hydrogen bonds (Table 2) which are reinforced by a number of lateral weak H···H interactions. The primary aggregation motif is the O—H···O hydrogen bond between the C17 hydroxy donor and O3 ketone acceptor (Duax & Norton, 1975), with an H···O distance of 1.77Å and a D—H···A angle of 167°. This motif is typical of steroidal assemblies and results in the P21 or P212121 space group. The two water molecules serve to bridge the molecular chains along three dimensions through strong intermolecular hydrogen bonding (Fig. 2). The O1W water molecule forms three strong O—H···O hydrogen bonds. Firstly, it donates its H3W atom to the O2 atom of the C17 hyroxy group at a distance of 1.92 Å and a D—H···A angle of 179°. Secondly, it accepts the H3 atom of the C10 hydroxy group at a distance of 1.80 Å and a D—H···A angle of 172°. Thirdly, it donates atom H1W to the O2W atom of the other water molecule, with an H···O distance of 1.84 Å and a D—H···A angle of 176°. The O2W water molecule further links with two other neighbouring molecules by donating its H atoms to the O2 and O3 atoms of the C17 and C10 hydroxy groups, with H···O distances of 2.07 and 1.82 Å and D—H···A angles of 161 and 171°, respectively.
The Hirshfeld surface emerged from an attempt to define the space occupied by a molecule in a crystal for the purpose of partitioning the crystal electron density into molecular fragments (Spackman & Byrom, 1997). First function of distance explored for mapping on surface is the distances from the Hirshfeld surface to the adjacent nucleus inside the surface (or internal, di) and outside the surface (or external, de). The informative use of these quantities one can find combination of di and de in the form of a two-dimensional fingerprint plot. Due to the difficulty of representation in two-dimensional format (printed page or computer monitor) fingerprint plot was invented. Two different but potentially useful distance measures each mapped on a three-dimensional molecular surface were invented. Surface features characteristic of different types of intermolecular interactions can be identified and such features can be exposed by color coding distances from the surface to the nearest atom exterior or interior to surface. In this study de and di properties are calculated separately and also proposed a contact distance, dnorm , that combines both de and di, each normalized by the van der Waals radius for the particular atoms involved in the close contact to the surface. Using a red–white– blue colouring scheme to distinguish it from the red–green–blue schemes for de and di, contacts shorter than van der Waals separations show up as red spots on a largely blue surface. And because the definition of dnorm is symmetric in both de and di, close intermolecular contacts appear as three identical red spots (but not necessarily on the same molecule if there is more than one molecule in the asymmetric unit.
Crystal Explorer 3.1 (Wolff et al., 2012) was used to generate Hirshfeld surfaces mapped over dnorm property of the molecule. It is seen that hydrogen bond between carbonyl atom O1 and water atom H2W is associated with large red spots, while the alcohol groups present on the ring making intermolecular contacts are shown by the regions coloured in red (Fig. 3).
The fingerprint plots (Fig. 4) of structure supports the intermolecular interactions. Three types of interactions are found in crystal packing: H···H interactions account for 76.5%, O···H 21.4% and C···H 2.1%. Calculation of the enrichment ratio (ER) (Jelsch et al., 2014) shows that the H···H contacts are relatively more favoured, with an ER value of 1.13, over O···H and C···H interactions, whose ER values are 0.566 and 0.565, respectively.
The presence of possible electrostatic interactions around the molecule can be described qualitatively by the electrostatic potential map (ESP) on the electron-density isosurface. The electrostatic potential can be calculated directly from the electron density (Su & Coppens, 1992). The electrostatic potential mapped on the isosurface of electron density had a value of 0.01 e Å-3; Fig. 5 shows two views of the three-dimensional electron-density surface coloured according to the electrostatic potential. Fig. 5(a) shows a projection of the molecule with the hydroxy groups projected towards the viewer, whereas in Fig. 5(b), the molecule was rotated to show it downwards. The maps show that around all the three O atoms there is an accumulation of the electron density. Atom H2 of the hydroxy group has a strong positive region. The carbonyl O1 atom has the greatest concentration of negative charge. In fact, this is the reason behind the polar nature of the compound, as evident from relatively high dipole moment value (10.09 Debye) of the molecule (Fig. 6). The dipole moment was calculated for an electrically neutralized molecule using MoProViewer (Guillot, 2011), with the origin at the coordinate centre, and is the sum of the dipolar contributions only. The polar nature of the molecule also results in the typical head-to-tail arrangement in the crystal structures. During the process of biotransformation, the H atom on C10 is replaced by the O3 hydroxy group, which has an accumulation of the negative charge. Since electrostatic forces are long-range forces, the molecules can recognize each other from a distance. These negative electrostatic regions can be potential binding sites for hydrogen bonds and for attack by the electrophilic species. It can be said with confidence that the binding mode of the biotransformed product will certainly be different from that of its parent molecule methyloestrenolone.
The topography of the electrostatic potential in the molecule under study is significantly different from that of the estrone molecule (Zhurova et al., 2006) due to opposite locations of the carbonyl O atom and the hydroxy group in two molecules. The addition of the O3 hydroxy group in the current study renders the syn sides of rings A, B and C significantly negative or neutral, whereas the anti sides of the rings are electrostatically more positive. Ring D has the greatest concentration of positive potential. The same has been indicated by the direction of the dipole moment vector.
A quantitative analysis of the intermolecular interactions of the title molecule was carried out on the basis of topological analysis using the Bader quantum theory of atoms in molecules (Bader, 1990). The literature reports the successful use of the transferability principle to precisely quantify the electron-density-derived properties for the crystals which diffract to ordinary resolutions (Domagała et al. 2011; Bibila Mayaya Bisseyou et al. 2012; Dadda et al., 2012). All the three O atoms of the parent moiety are involved in the formation of some O—H···O type hydrogen-bond interactions at very short distances of less than 2 Å. The electron-density values at the critical points are significantly higher than other types of interactions. Moreover, the presence of 3,-1-type bond-critical points and a positive Laplacian values establish that they are strong hydrogen bonds. Table S1 (see Supporting information) gives the topological parameters of the intermolecular interactions.
This paper reports the crystal structure and charge–density properties of a molecule which was obtained as a biotransformation product of the steroid drug methylestrenolone. The structure is stabilized by a number of O—H···O and C—H···O hydrogen bonds which are assisted by a number H···H interactions. Even though the diffraction data were limited to ordinary resolution, the charge–density properties, electrostatic potential, dipole moment and topology of intermolecular interactions could be estimated using the transferred parameters from the ELMAM2 database. The results show that the ELMAM2 model is better. The procedure is very rapid and simplified in the MoPro software although it may require some manual intervention. The method is very suitable for high throughput screening of diverse targets, especially biologically active molecules, if diffraction data is available.
Biotransformation or biocatalysis is the structural modification of compounds using enzymes as the catalysts (Mahato & Garai, 1997). Biotransformation using whole-cell cultures of microorganisms is an efficient method for the production of libraries of structurally diverse molecules, starting from a single substrate (Mahato & Garai, 1997; Ahmad et al., 2014; Khan et al., 2014; Zafar et al., 2012; Leon et al., 1998; Holland, 1999). This methodology has been applied for the synthesis of bioactive molecules of varying nature (Choudhary et al., 2012; Monagas et al., 2010; Liu & Yu, 2010; Cao et al., 2015; Wang, 2015). Biotransformation has found its applications in organic synthesis as well. Due to the specific nature of enzymes, the reactions take place with high stereo- and regioselectivity (Wang et al., 2000; Wang, 2015; Palomo & Filice, 2015). Therefore, biotransformation plays a key role in the synthesis of pharmaceutically important compounds.
The chemical properties of the molecule depend on the charge density distribution (Coppens, 1998; Jayatilaka et al., 2012). A detailed knowledge of the structural parameters, stereochemistry, planarity and the mutual arrangement of the molecule is required to better understand the structure–activity relationships. In addition, knowledge of the intra- and intermolecular interactions is important for the design of new drugs and modelling the interactions with proteins. The commonly used independent atom model (IAM) does not give all the information about the intermolecular interactions and is likely to produce severe systematic errors in the refined atomic parameters (Ruysink & Vos, 1974). Experimental electron-density analysis is carried out by X-ray diffraction of monocrystals at ultra high resolution (Coppens, 1998). However, the difficult part is the separation of the anisotropic atomic mean-square displacements from the static molecular electron distribution (Hirshfeld, 1976). Proper experimental deconvolution requires diffraction data measured at ultra high resolution. However, effective thermal displacement deconvolution and meaningful electron-density distributions can be achieved even at lower resolutions by transferring the parameters from an electron-density database (Pichon-Pesme et al., 1995; Jelsch et al., 1998; Dittrich et al., 2004, 2005, 2007; Ahmed et al., 2011). Transferring electron-density parameters is comparable to constraining the atomic coordinates at their most likely values. The transferability of atomic electron densities was tested for the first time by Brock et al. (1991) who applied atomic charge-density parameters from an accurate low-temperature study of perylene to diffraction data collected at several temperatures on naphthalene and anthracene crystals.
The ELMAM database (Zarychta et al., 2007) has been extended to ELMAM2 (Domagała et al., 2012) from protein atom types to common organic molecules, and is based on optimal local coordinate systems (Domagała & Jelsch, 2008). An automatic transfer procedure of the ELMAM2 database is now available in the MoPro software (Guillot et al., 2001; Jelsch et al., 2005). Different atom types in a molecule are recognized according to the nature and number of their neighbors. For most atoms, only the first shell of neighbours is analysed, while for H and O atoms, the second and third shells are investigated, respectively (Domagała & Jelsch, 2008; Domagała et al., 2012). Using the transferability principle, a multipolar model is applied for the molecule, and only the structural parameters (scale factor, atomic coordinates and displacement parameters) are refined. The Fourier residual maps are improved, notably on the covalent bonds due to the proper electron-density modelling.
During the current study, 17α-methyl-10β,17β-dihydroxyestr-4-en-3-one (Scheme 1) was obtained from the fungal biotransformation of methyloestrenolone, a contraceptive agent (Zafar et al., 2013; Yousuf et al., 2010). The substrate belongs to the estrane class of compounds, steroids without the C-19 methyl group (Mason, 1948). Its structure has been investigated by single-crystal X-ray diffraction analysis and its molecular properties have been investigated by using the electron-density parameters from the ELMAM2 library.
Aspergillus niger (ATCC 10549) was cultured in liquid media, prepared by dissolving glucose (10.0 g), peptone (5.0 g), yeast extract (3.0 g), KH2PO4 (5.0 g), glycerol (10.0 ml) and NaCl (5.0 g) per litre of distilled water. The media was sterilized followed by inoculation of the fungal spores. After optimum growth, methyloestrenolone (1.0 g) was transferred to the culture in the form of solution in acetone (Zafar et al., 2013).
The asymmetric unit of the title compound, (I) (Fig. 1), consists of one parent moiety along with two water molecules of crystallization, whereas the unit cell contains four molecules along with eight water molecules. The compound possesses the typical core structure of steroids having three six-membered rings and a five-membered ring. The cyclohexene ring (A) is not planer in shape and adopts a half-chair conformation. Atoms C2, C3, C4 and C5 lie in the same plane. However, atom C1 deviates from the mean C2—C3—C4—C5 plane by 0.713 Å, whereas atom C10 deviates by 0.218 Å. The two central cyclohexane rings (B and C) both adopt a typical chair conformation, whereas cyclopentane ring D adopts a 13β,17α-envelope conformation (Cremer & Pople, 1975). The A/B ring junction is quasi-trans, whereas the B/C and C/D ring junctions both have a trans conformation (Bartcourt, 1974). The torsion angle of the opposing methyl groups is -161.83°, as measured on C18—C13—C17—C20. All the bond lengths and angles are within the normal range for similar structures (Galdecki et al., 1990; Vasuki et al., 2002; Thamotharan et al., 2004; Shen et al., 2011).
The molecular assembly is stabilized by strong intermolecular hydrogen bonds (Table 2) which are reinforced by a number of lateral weak H···H interactions. The primary aggregation motif is the O—H···O hydrogen bond between the C17 hydroxy donor and O3 ketone acceptor (Duax & Norton, 1975), with an H···O distance of 1.77Å and a D—H···A angle of 167°. This motif is typical of steroidal assemblies and results in the P21 or P212121 space group. The two water molecules serve to bridge the molecular chains along three dimensions through strong intermolecular hydrogen bonding (Fig. 2). The O1W water molecule forms three strong O—H···O hydrogen bonds. Firstly, it donates its H3W atom to the O2 atom of the C17 hyroxy group at a distance of 1.92 Å and a D—H···A angle of 179°. Secondly, it accepts the H3 atom of the C10 hydroxy group at a distance of 1.80 Å and a D—H···A angle of 172°. Thirdly, it donates atom H1W to the O2W atom of the other water molecule, with an H···O distance of 1.84 Å and a D—H···A angle of 176°. The O2W water molecule further links with two other neighbouring molecules by donating its H atoms to the O2 and O3 atoms of the C17 and C10 hydroxy groups, with H···O distances of 2.07 and 1.82 Å and D—H···A angles of 161 and 171°, respectively.
The Hirshfeld surface emerged from an attempt to define the space occupied by a molecule in a crystal for the purpose of partitioning the crystal electron density into molecular fragments (Spackman & Byrom, 1997). First function of distance explored for mapping on surface is the distances from the Hirshfeld surface to the adjacent nucleus inside the surface (or internal, di) and outside the surface (or external, de). The informative use of these quantities one can find combination of di and de in the form of a two-dimensional fingerprint plot. Due to the difficulty of representation in two-dimensional format (printed page or computer monitor) fingerprint plot was invented. Two different but potentially useful distance measures each mapped on a three-dimensional molecular surface were invented. Surface features characteristic of different types of intermolecular interactions can be identified and such features can be exposed by color coding distances from the surface to the nearest atom exterior or interior to surface. In this study de and di properties are calculated separately and also proposed a contact distance, dnorm , that combines both de and di, each normalized by the van der Waals radius for the particular atoms involved in the close contact to the surface. Using a red–white– blue colouring scheme to distinguish it from the red–green–blue schemes for de and di, contacts shorter than van der Waals separations show up as red spots on a largely blue surface. And because the definition of dnorm is symmetric in both de and di, close intermolecular contacts appear as three identical red spots (but not necessarily on the same molecule if there is more than one molecule in the asymmetric unit.
Crystal Explorer 3.1 (Wolff et al., 2012) was used to generate Hirshfeld surfaces mapped over dnorm property of the molecule. It is seen that hydrogen bond between carbonyl atom O1 and water atom H2W is associated with large red spots, while the alcohol groups present on the ring making intermolecular contacts are shown by the regions coloured in red (Fig. 3).
The fingerprint plots (Fig. 4) of structure supports the intermolecular interactions. Three types of interactions are found in crystal packing: H···H interactions account for 76.5%, O···H 21.4% and C···H 2.1%. Calculation of the enrichment ratio (ER) (Jelsch et al., 2014) shows that the H···H contacts are relatively more favoured, with an ER value of 1.13, over O···H and C···H interactions, whose ER values are 0.566 and 0.565, respectively.
The presence of possible electrostatic interactions around the molecule can be described qualitatively by the electrostatic potential map (ESP) on the electron-density isosurface. The electrostatic potential can be calculated directly from the electron density (Su & Coppens, 1992). The electrostatic potential mapped on the isosurface of electron density had a value of 0.01 e Å-3; Fig. 5 shows two views of the three-dimensional electron-density surface coloured according to the electrostatic potential. Fig. 5(a) shows a projection of the molecule with the hydroxy groups projected towards the viewer, whereas in Fig. 5(b), the molecule was rotated to show it downwards. The maps show that around all the three O atoms there is an accumulation of the electron density. Atom H2 of the hydroxy group has a strong positive region. The carbonyl O1 atom has the greatest concentration of negative charge. In fact, this is the reason behind the polar nature of the compound, as evident from relatively high dipole moment value (10.09 Debye) of the molecule (Fig. 6). The dipole moment was calculated for an electrically neutralized molecule using MoProViewer (Guillot, 2011), with the origin at the coordinate centre, and is the sum of the dipolar contributions only. The polar nature of the molecule also results in the typical head-to-tail arrangement in the crystal structures. During the process of biotransformation, the H atom on C10 is replaced by the O3 hydroxy group, which has an accumulation of the negative charge. Since electrostatic forces are long-range forces, the molecules can recognize each other from a distance. These negative electrostatic regions can be potential binding sites for hydrogen bonds and for attack by the electrophilic species. It can be said with confidence that the binding mode of the biotransformed product will certainly be different from that of its parent molecule methyloestrenolone.
The topography of the electrostatic potential in the molecule under study is significantly different from that of the estrone molecule (Zhurova et al., 2006) due to opposite locations of the carbonyl O atom and the hydroxy group in two molecules. The addition of the O3 hydroxy group in the current study renders the syn sides of rings A, B and C significantly negative or neutral, whereas the anti sides of the rings are electrostatically more positive. Ring D has the greatest concentration of positive potential. The same has been indicated by the direction of the dipole moment vector.
A quantitative analysis of the intermolecular interactions of the title molecule was carried out on the basis of topological analysis using the Bader quantum theory of atoms in molecules (Bader, 1990). The literature reports the successful use of the transferability principle to precisely quantify the electron-density-derived properties for the crystals which diffract to ordinary resolutions (Domagała et al. 2011; Bibila Mayaya Bisseyou et al. 2012; Dadda et al., 2012). All the three O atoms of the parent moiety are involved in the formation of some O—H···O type hydrogen-bond interactions at very short distances of less than 2 Å. The electron-density values at the critical points are significantly higher than other types of interactions. Moreover, the presence of 3,-1-type bond-critical points and a positive Laplacian values establish that they are strong hydrogen bonds. Table S1 (see Supporting information) gives the topological parameters of the intermolecular interactions.
This paper reports the crystal structure and charge–density properties of a molecule which was obtained as a biotransformation product of the steroid drug methylestrenolone. The structure is stabilized by a number of O—H···O and C—H···O hydrogen bonds which are assisted by a number H···H interactions. Even though the diffraction data were limited to ordinary resolution, the charge–density properties, electrostatic potential, dipole moment and topology of intermolecular interactions could be estimated using the transferred parameters from the ELMAM2 database. The results show that the ELMAM2 model is better. The procedure is very rapid and simplified in the MoPro software although it may require some manual intervention. The method is very suitable for high throughput screening of diverse targets, especially biologically active molecules, if diffraction data is available.
Incubation of methyloestrenolone was carried out for 14 d. The biomass was then separated by filtration and the filtrate was extracted with dichloromethane. The extract was subjected to column chromatography and size exclusion HPLC (GS-320, MeOH, retention time = 33 min) to obtain 10β,17α-dihydroxy-17α-methylestr-4-en-3-one as a pure white crystalline solid. The yield of the reaction was only 0.08%.
Structure refinement details for the transferred model are summarized in Table 1. The structure was solved in the orthorhombic space group P212121 using SIR92 (Altomare et al., 1993) available in the WinGX package (Farrugia, 2012). An Initial IAM refinement was carried out using SHELXL2013(Sheldrick, 2015). Most of the H atoms were located in difference Fourier maps. However, H atoms on O atoms could not be ascertained in the difference Fourier maps, hence a riding model was used as was done for C atoms. After the initial cycles of refinement, the model was imported to MoPro (Jelsch et al., 2005). A I/σ cut-off of 3 was applied throughout the MoPro refinements. The bond lengths for H atoms were constrained to standard neutron distances from the International Tables of Crystallography (Allen & Bruno, 2010).
A full-matrix least-squares refinement was carried out against intensity data using MoPro (Jelsch et al., 2005). A SHELX-type weighting scheme was adopted with w = 1/[\s2(Fo2)+(aP)2+bP] where P = (Fo2+2Fc2)/3), a = 0.1 and b = 0.01 in order to have a goodness-of-fit close to unity. The MoPro software provides an easy way to modify the weighting scheme. The normal probability plots (Zhurov et al., 2008) are shown in the Supporting information (Fig. S1). Initially, only the scale factor was refined. Subsequently, the positions and displacement parameters were refined. The refinement was carried out until convergence. The anisotropic thermal displacement parameters for H atoms were constrained to the estimated values using the SHADE server (Madsen, 2006). The residual electron-density maps after the IAM refinement have been shown in Fig. S2(a) (see Supporting information). It can be seen from the residual maps that the electron-density peaks reside on the covalent bonds and there are no significant residual density peaks on the atoms. At the end of the IAM refinement, the crystallographic R factor R[F2 > 2σ(F2)] was 6.0%, the weighted R factor wR(F2) was 14.9% while the goodness-of-fit was 1.05. The minimum and the maximum electron-density peaks after IAM refinement were -0.35 and 0.41 e Å-3, respectively.
The electron-density multipolar parameters of Hansen and Coppen's model (Hansen & Coppens, 1978) were transferred from the ELMAM2 library (Domagała et al., 2012) using the built-in option in the MoPro software (Jelsch et al., 2005). The molecule was neutralized electrically after the transfer. The electron-density parameters were kept fixed during the ELMAM2 refinement and only the scale factor, position and displacement parameters were refined until convergence. The anisotropic thermal displacement parameters for H atoms were kept constrained to the estimated values as explained previously. The ELMAM2 refinement revealed a noticeable improvement in the refinement statistics with the crystallographic R factor R[F2 > 2σ(F2)] was 4.8 %, the weighted R factor wR(F2) was 11.6%, while the goodness-of-fit was 0.95. The minimum and the maximum electron-density peaks had values of -0.26 and 0.35 e Å-3, respectively.
Data collection: SMART (Bruker, 2000); cell refinement: SAINT (Bruker, 2000); data reduction: SAINT (Bruker, 2000); program(s) used to solve structure: SIR92 (Altomare et al., 1993); program(s) used to refine structure: MoPro (Jelsch et al., 2005); molecular graphics: Mercury (Macrae et al., 2006) and MoProViewer (Guillot, 2011); software used to prepare material for publication: pubCIF (Westrip, 2010).
C19H28O3·2H2O | F(000) = 744 |
Mr = 340.44 | Dx = 1.215 Mg m−3 |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 507 reflections |
a = 6.9028 (6) Å | θ = 2.0–28.3° |
b = 11.0334 (10) Å | µ = 0.09 mm−1 |
c = 24.451 (2) Å | T = 100 K |
V = 1862.2 (3) Å3 | Block, colorless |
Z = 4 | 0.27 × 0.10 × 0.07 mm |
Bruker SMART CCD detector diffractometer | 2792 independent reflections |
Radiation source: fine-focus sealed tube | 2792 reflections with > 2.0σ(I) |
Graphite monochromator | Rint = 0.052 |
ω and phi scan | θmax = 28.3°, θmin = 2.0° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = 0→9 |
Tmin = 0.977, Tmax = 0.994 | k = 0→14 |
13666 measured reflections | l = −31→32 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.048 | Hydrogen site location: difference Fourier map |
wR(F2) = 0.116 | H-atom parameters constrained |
S = 0.95 | w = 1/[σ2(Fo2) + (0.08P)2 + 0.01P] where P = (Fo2 + 2Fc2)/3 |
2792 reflections | (Δ/σ)max = 0.029 |
217 parameters | Δρmax = 0.35 e Å−3 |
0 restraints | Δρmin = −0.26 e Å−3 |
C19H28O3·2H2O | V = 1862.2 (3) Å3 |
Mr = 340.44 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 6.9028 (6) Å | µ = 0.09 mm−1 |
b = 11.0334 (10) Å | T = 100 K |
c = 24.451 (2) Å | 0.27 × 0.10 × 0.07 mm |
Bruker SMART CCD detector diffractometer | 2792 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | 2792 reflections with > 2.0σ(I) |
Tmin = 0.977, Tmax = 0.994 | Rint = 0.052 |
13666 measured reflections |
R[F2 > 2σ(F2)] = 0.048 | 0 restraints |
wR(F2) = 0.116 | H-atom parameters constrained |
S = 0.95 | Δρmax = 0.35 e Å−3 |
2792 reflections | Δρmin = −0.26 e Å−3 |
217 parameters |
Refinement. Refinement of F2 against reflections. The threshold expression of F2 > 2sigma(F2) is used for calculating R-factors(gt) 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. |
x | y | z | Uiso*/Ueq | ||
O2 | 0.8602 (3) | 0.00169 (19) | 0.10105 (8) | 0.0423 (3) | |
O3 | 0.5688 (3) | 0.60762 (16) | 0.06832 (8) | 0.0372 (3) | |
C9 | 0.5046 (4) | 0.4361 (2) | 0.12707 (11) | 0.0256 (4) | |
H9A | 0.41191 | 0.40931 | 0.16156 | 0.04780 | |
C14 | 0.7637 (4) | 0.2990 (2) | 0.16183 (11) | 0.0294 (4) | |
H14A | 0.66047 | 0.27174 | 0.19375 | 0.05083 | |
C5 | 0.4790 (4) | 0.6495 (3) | 0.16041 (11) | 0.0307 (4) | |
C8 | 0.7149 (4) | 0.4297 (3) | 0.14791 (11) | 0.0284 (4) | |
H8A | 0.81266 | 0.46121 | 0.11542 | 0.04817 | |
C11 | 0.4658 (5) | 0.3443 (3) | 0.08087 (12) | 0.0331 (4) | |
H11A | 0.31178 | 0.34602 | 0.07072 | 0.05949 | |
H11B | 0.54685 | 0.37136 | 0.04450 | 0.05485 | |
C10 | 0.4443 (4) | 0.5670 (2) | 0.11168 (11) | 0.0281 (4) | |
C7 | 0.7392 (5) | 0.5118 (3) | 0.19804 (12) | 0.0416 (5) | |
H7A | 0.65417 | 0.47503 | 0.23184 | 0.06419 | |
H7B | 0.89122 | 0.51245 | 0.21040 | 0.06902 | |
C13 | 0.7357 (4) | 0.2086 (2) | 0.11473 (10) | 0.0264 (4) | |
C18 | 0.8680 (5) | 0.2376 (3) | 0.06591 (12) | 0.0406 (5) | |
H18A | 1.01710 | 0.23352 | 0.07871 | 0.06905 | |
H18B | 0.84316 | 0.17249 | 0.03384 | 0.07116 | |
H18C | 0.83579 | 0.32719 | 0.05098 | 0.06451 | |
C12 | 0.5237 (4) | 0.2144 (3) | 0.09678 (13) | 0.0342 (4) | |
H12A | 0.43130 | 0.18307 | 0.13014 | 0.05931 | |
H12B | 0.50184 | 0.15422 | 0.06188 | 0.06311 | |
O1 | 0.0599 (4) | 0.8371 (2) | 0.16287 (11) | 0.0586 (4) | |
C17 | 0.8069 (5) | 0.0905 (3) | 0.14221 (12) | 0.0335 (4) | |
C1 | 0.2322 (5) | 0.5695 (3) | 0.09338 (13) | 0.0383 (4) | |
H1A | 0.22059 | 0.53019 | 0.05251 | 0.06126 | |
H1B | 0.14759 | 0.51247 | 0.12100 | 0.06175 | |
C15 | 0.9659 (5) | 0.2692 (3) | 0.18443 (13) | 0.0415 (4) | |
H15A | 0.97576 | 0.29139 | 0.22786 | 0.07100 | |
H15B | 1.07860 | 0.31790 | 0.16212 | 0.06733 | |
C4 | 0.3475 (5) | 0.7313 (3) | 0.17698 (12) | 0.0373 (5) | |
H4A | 0.38181 | 0.78734 | 0.21204 | 0.06920 | |
C6 | 0.6738 (5) | 0.6412 (3) | 0.18718 (13) | 0.0398 (5) | |
H6A | 0.66908 | 0.68972 | 0.22609 | 0.07267 | |
H6B | 0.78006 | 0.68447 | 0.16047 | 0.06481 | |
C3 | 0.1726 (5) | 0.7590 (3) | 0.14602 (13) | 0.0415 (5) | |
C2 | 0.1439 (5) | 0.6959 (3) | 0.09252 (13) | 0.0422 (5) | |
H2B | 0.21031 | 0.74961 | 0.06003 | 0.06146 | |
H2C | −0.01102 | 0.68996 | 0.08388 | 0.07212 | |
C20 | 0.6574 (6) | 0.0294 (3) | 0.17962 (15) | 0.0538 (6) | |
H20A | 0.61344 | 0.09206 | 0.21101 | 0.07347 | |
H20B | 0.53306 | 0.00390 | 0.15564 | 0.07587 | |
H20C | 0.72042 | −0.05018 | 0.19795 | 0.07833 | |
C16 | 0.9857 (5) | 0.1317 (3) | 0.17549 (14) | 0.0492 (6) | |
H16A | 0.99000 | 0.08430 | 0.21468 | 0.06984 | |
H16B | 1.11854 | 0.11132 | 0.15304 | 0.06804 | |
O2W | 0.2174 (4) | 0.9836 (2) | 0.02964 (10) | 0.0615 (4) | |
O1W | 0.5632 (4) | 0.8548 (2) | 0.04914 (11) | 0.0612 (4) | |
H3W | 0.65624 | 0.91064 | 0.06619 | 0.07568 | |
H2W | 0.16287 | 0.96002 | −0.00594 | 0.08736 | |
H1W | 0.45287 | 0.90897 | 0.04218 | 0.07005 | |
H4W | 0.10077 | 0.99330 | 0.05231 | 0.07847 | |
H2 | 0.91659 | −0.06430 | 0.12264 | 0.06365 | |
H3 | 0.55537 | 0.69538 | 0.06344 | 0.05217 |
U11 | U22 | U33 | U12 | U13 | U23 | |
O2 | 0.0494 (14) | 0.0297 (10) | 0.0477 (12) | 0.0106 (10) | −0.0023 (11) | −0.0037 (10) |
O3 | 0.0495 (13) | 0.0286 (10) | 0.0335 (10) | 0.0054 (9) | 0.0103 (10) | 0.0027 (9) |
C9 | 0.0251 (14) | 0.0208 (13) | 0.0310 (13) | 0.0023 (11) | −0.0025 (12) | 0.0023 (11) |
H9A | 0.04670 | 0.04902 | 0.04769 | 0.00082 | 0.01143 | 0.00489 |
C14 | 0.0318 (15) | 0.0293 (15) | 0.0271 (13) | 0.0026 (12) | −0.0014 (13) | −0.0015 (12) |
H14A | 0.05833 | 0.05167 | 0.04248 | 0.00608 | 0.00709 | 0.00416 |
C5 | 0.0324 (15) | 0.0295 (14) | 0.0302 (14) | 0.0019 (13) | 0.0011 (13) | −0.0017 (12) |
C8 | 0.0258 (15) | 0.0297 (14) | 0.0298 (13) | 0.0016 (12) | −0.0043 (13) | −0.0050 (12) |
H8A | 0.04245 | 0.04858 | 0.05347 | −0.00291 | 0.00583 | 0.00180 |
C11 | 0.0363 (17) | 0.0274 (14) | 0.0354 (15) | 0.0027 (13) | −0.0138 (14) | −0.0047 (12) |
H11A | 0.04853 | 0.05005 | 0.07988 | 0.00065 | −0.01864 | −0.00748 |
H11B | 0.07035 | 0.05036 | 0.04386 | 0.00319 | 0.00206 | −0.00255 |
C10 | 0.0280 (15) | 0.0282 (14) | 0.0280 (13) | 0.0042 (13) | −0.0018 (12) | −0.0013 (12) |
C7 | 0.047 (2) | 0.0402 (17) | 0.0380 (16) | 0.0112 (16) | −0.0182 (16) | −0.0155 (14) |
H7A | 0.08819 | 0.05911 | 0.04526 | 0.01453 | −0.00217 | −0.00440 |
H7B | 0.06547 | 0.05982 | 0.08177 | 0.01011 | −0.03232 | −0.01591 |
C13 | 0.0279 (15) | 0.0260 (14) | 0.0254 (13) | 0.0023 (12) | −0.0006 (12) | −0.0006 (11) |
C18 | 0.0470 (19) | 0.0396 (17) | 0.0351 (15) | 0.0078 (15) | 0.0107 (15) | 0.0018 (14) |
H18A | 0.05183 | 0.08156 | 0.07376 | 0.01050 | 0.01130 | 0.00585 |
H18B | 0.09546 | 0.06445 | 0.05357 | 0.00781 | 0.01251 | −0.01428 |
H18C | 0.07743 | 0.05273 | 0.06337 | 0.01619 | 0.02049 | 0.00983 |
C12 | 0.0330 (16) | 0.0255 (14) | 0.0441 (17) | −0.0008 (13) | −0.0098 (14) | −0.0035 (13) |
H12A | 0.05198 | 0.05114 | 0.07481 | −0.00202 | 0.00570 | 0.00851 |
H12B | 0.07347 | 0.04768 | 0.06819 | 0.00511 | −0.01940 | −0.01524 |
O1 | 0.0635 (16) | 0.0445 (13) | 0.0679 (15) | 0.0312 (12) | 0.0027 (14) | −0.0031 (12) |
C17 | 0.0392 (17) | 0.0268 (14) | 0.0345 (14) | 0.0059 (13) | 0.0000 (14) | 0.0005 (12) |
C1 | 0.0348 (17) | 0.0327 (16) | 0.0475 (17) | 0.0057 (15) | −0.0096 (16) | −0.0017 (14) |
H1A | 0.06418 | 0.05552 | 0.06409 | 0.00766 | −0.02065 | −0.01060 |
H1B | 0.04541 | 0.05408 | 0.08575 | 0.00055 | 0.00393 | 0.00879 |
C15 | 0.0399 (17) | 0.0381 (16) | 0.0465 (17) | 0.0102 (15) | −0.0190 (16) | −0.0064 (15) |
H15A | 0.08518 | 0.06620 | 0.06163 | 0.02104 | −0.02708 | −0.01164 |
H15B | 0.04933 | 0.05954 | 0.09310 | 0.00426 | −0.00746 | 0.00014 |
C4 | 0.0448 (19) | 0.0311 (15) | 0.0359 (16) | 0.0092 (15) | −0.0003 (15) | −0.0048 (13) |
H4A | 0.09336 | 0.06189 | 0.05236 | 0.02363 | −0.00845 | −0.01741 |
C6 | 0.0430 (18) | 0.0276 (14) | 0.0488 (17) | 0.0035 (14) | −0.0079 (16) | −0.0134 (14) |
H6A | 0.09630 | 0.05963 | 0.06208 | 0.01900 | −0.02904 | −0.02275 |
H6B | 0.05807 | 0.05270 | 0.08365 | −0.00254 | −0.01302 | −0.00184 |
C3 | 0.0444 (18) | 0.0332 (16) | 0.0468 (18) | 0.0137 (15) | 0.0036 (16) | 0.0044 (15) |
C2 | 0.0424 (19) | 0.0380 (17) | 0.0463 (19) | 0.0111 (15) | −0.0049 (16) | 0.0007 (15) |
H2B | 0.07258 | 0.04982 | 0.06200 | 0.00514 | −0.00692 | 0.00162 |
H2C | 0.04959 | 0.06202 | 0.10476 | 0.00974 | −0.01822 | −0.00654 |
C20 | 0.069 (2) | 0.0359 (18) | 0.057 (2) | 0.0068 (17) | 0.016 (2) | 0.0145 (16) |
H20A | 0.09266 | 0.05593 | 0.07182 | 0.00811 | 0.02421 | 0.00423 |
H20B | 0.06954 | 0.06561 | 0.09246 | −0.00867 | −0.00135 | 0.01070 |
H20C | 0.08983 | 0.05419 | 0.09097 | 0.01843 | 0.01026 | 0.02473 |
C16 | 0.056 (2) | 0.0384 (17) | 0.0535 (19) | 0.0143 (16) | −0.0180 (18) | 0.0025 (16) |
H16A | 0.08864 | 0.06098 | 0.05989 | 0.01685 | −0.01541 | 0.00370 |
H16B | 0.05549 | 0.06438 | 0.08425 | 0.01446 | −0.00074 | −0.00796 |
O2W | 0.0669 (18) | 0.0622 (16) | 0.0553 (14) | 0.0038 (14) | −0.0199 (13) | −0.0031 (13) |
O1W | 0.0709 (17) | 0.0379 (12) | 0.0749 (16) | −0.0040 (13) | −0.0093 (15) | 0.0007 (12) |
H3W | 0.07694 | 0.04788 | 0.10221 | −0.00752 | 0.00251 | 0.00962 |
H2W | 0.12730 | 0.06475 | 0.07003 | 0.02179 | −0.02287 | 0.00288 |
H1W | 0.08313 | 0.04872 | 0.07831 | 0.00997 | −0.00116 | 0.01020 |
H4W | 0.09507 | 0.05961 | 0.08073 | 0.01899 | −0.01069 | −0.00002 |
H2 | 0.07789 | 0.04661 | 0.06645 | 0.01823 | −0.00426 | −0.00233 |
H3 | 0.06254 | 0.04085 | 0.05312 | 0.00376 | 0.00532 | 0.00679 |
O2—C17 | 1.4520 (12) | C18—H18B | 1.0770 |
O2—H2 | 0.9800 | C12—H12B | 1.0920 |
O3—C10 | 1.4364 (12) | C12—H12A | 1.0920 |
O3—H3 | 0.9800 | O1—C3 | 1.2325 (15) |
C9—C10 | 1.5493 (12) | C17—C16 | 1.5462 (15) |
C9—C8 | 1.5400 (12) | C17—C20 | 1.5354 (15) |
C9—C11 | 1.5407 (12) | C1—C2 | 1.5226 (14) |
C9—H9A | 1.0990 | C1—H1A | 1.0920 |
C14—C13 | 1.5360 (12) | C1—H1B | 1.0920 |
C14—C8 | 1.5192 (13) | C15—C16 | 1.5387 (15) |
C14—C15 | 1.5364 (14) | C15—H15A | 1.0920 |
C14—H14A | 1.0990 | C15—H15B | 1.0920 |
C5—C10 | 1.5181 (13) | C4—C3 | 1.4572 (16) |
C5—C6 | 1.4979 (14) | C4—H4A | 1.0830 |
C5—C4 | 1.3433 (15) | C6—H6A | 1.0920 |
C8—C7 | 1.5335 (13) | C6—H6B | 1.0920 |
C8—H8A | 1.0990 | C3—C2 | 1.4950 (15) |
C11—C12 | 1.5380 (13) | C2—H2B | 1.0920 |
C11—H11A | 1.0920 | C2—H2C | 1.0920 |
C11—H11B | 1.0920 | C20—H20A | 1.0770 |
C10—C1 | 1.5314 (14) | C20—H20C | 1.0770 |
C7—C6 | 1.5210 (14) | C20—H20B | 1.0770 |
C7—H7A | 1.0920 | C16—H16A | 1.0920 |
C7—H7B | 1.0920 | C16—H16B | 1.0920 |
C13—C17 | 1.5459 (12) | O2W—H4W | 0.9830 |
C13—C12 | 1.5289 (14) | O2W—H2W | 0.9830 |
C13—C18 | 1.5366 (13) | O1W—H1W | 0.9830 |
C18—H18A | 1.0770 | O1W—H3W | 0.9830 |
C18—H18C | 1.0770 | ||
C17—O2—H2 | 103.235 | C17—C13—C12 | 117.7 (10) |
C10—O3—H3 | 109.961 | C17—C13—C18 | 108.9 (9) |
C10—C9—C8 | 112.1 (9) | C12—C13—C18 | 109.7 (10) |
C10—C9—C11 | 112.8 (9) | H18A—C18—H18C | 109.504 |
C10—C9—H9A | 106.331 | H18A—C18—H18B | 109.624 |
C8—C9—C11 | 112.1 (9) | H18C—C18—H18B | 109.438 |
C8—C9—H9A | 106.400 | H12B—C12—H12A | 108.064 |
C11—C9—H9A | 106.529 | C16—C17—C20 | 111 (1) |
C13—C14—C8 | 114.9 (9) | C2—C1—H1A | 108.756 |
C13—C14—C15 | 104.2 (9) | C2—C1—H1B | 108.792 |
C13—C14—H14A | 105.832 | H1A—C1—H1B | 107.362 |
C8—C14—C15 | 119.1 (10) | C16—C15—H15A | 110.737 |
C8—C14—H14A | 105.953 | C16—C15—H15B | 110.551 |
C15—C14—H14A | 105.958 | H15A—C15—H15B | 109.310 |
C10—C5—C6 | 116.6 (10) | C3—C4—C5 | 123 (1) |
C10—C5—C4 | 122 (1) | C3—C4—H4A | 118.236 |
C6—C5—C4 | 121 (1) | H6A—C6—H6B | 109.074 |
C7—C8—H8A | 108.869 | C2—C3—C4 | 118 (1) |
C12—C11—H11A | 109.041 | H2B—C2—H2C | 107.637 |
C12—C11—H11B | 109.094 | H20A—C20—H20C | 109.926 |
H11A—C11—H11B | 108.011 | H20A—C20—H20B | 109.307 |
C6—C7—H7A | 108.739 | H20C—C20—H20B | 109.621 |
C6—C7—H7B | 109.115 | H16A—C16—H16B | 108.643 |
H7A—C7—H7B | 108.026 | H4W—O2W—H2W | 102.395 |
C17—C13—C14 | 100.4 (8) | H1W—O1W—H3W | 101.439 |
O2—C17—C13—C14 | −159.4 (5) | H8A—C8—C7—H7B | −56.03 |
O2—C17—C13—C12 | 83.8 (2) | C11—C9—C10—C1 | 54.5 (2) |
O2—C17—C13—C18 | −41.8 (2) | C11—C9—C8—C7 | −173.4 (2) |
O2—C17—C16—C15 | 139.8 (4) | C11—C12—C13—C17 | 168.8 (2) |
O2—C17—C16—H16A | −100.15 | C11—C12—C13—C18 | −66.0 (2) |
O2—C17—C16—H16B | 19.66 | H11A—C11—C9—C10 | −58.29 |
O2—C17—C20—H20A | 179.95 | H11A—C11—C12—C13 | −176.56 |
O2—C17—C20—H20C | 59.39 | H11A—C11—C12—H12B | 62.55 |
O2—C17—C20—H20B | −60.58 | H11A—C11—C12—H12A | −55.70 |
O3—C10—C9—C8 | 61.4 (2) | H11B—C11—C9—C10 | 59.47 |
O3—C10—C9—C11 | −66.3 (2) | H11B—C11—C12—C13 | 65.69 |
O3—C10—C9—H9A | 177.29 | H11B—C11—C12—H12B | −55.20 |
O3—C10—C5—C6 | −67.3 (2) | H11B—C11—C12—H12A | −173.45 |
O3—C10—C5—C4 | 108.7 (2) | C10—C9—C8—C7 | 58.5 (2) |
O3—C10—C1—C2 | −76.7 (2) | C10—C9—C11—C12 | −179.3 (2) |
O3—C10—C1—H1A | 45.09 | C10—C5—C6—C7 | −47.1 (2) |
O3—C10—C1—H1B | 161.98 | C10—C5—C6—H6A | −168.08 |
C9—C10—O3—H3 | −166.84 | C10—C5—C6—H6B | 73.38 |
C9—C10—C5—C6 | 49.4 (2) | C10—C5—C4—C3 | −8.00 (19) |
C9—C10—C5—C4 | −134.6 (3) | C10—C5—C4—H4A | −179.92 |
C9—C10—C1—C2 | 164.1 (2) | C10—C1—C2—C3 | −52.5 (2) |
C9—C10—C1—H1A | −74.19 | C10—C1—C2—H2B | 68.47 |
C9—C10—C1—H1B | 42.70 | C10—C1—C2—H2C | −173.32 |
C9—C8—C14—C13 | 56.4 (2) | C7—C8—C14—C13 | 177.6 (2) |
C9—C8—C14—C15 | −179.1 (2) | C7—C8—C14—C15 | −57.9 (2) |
C9—C8—C14—H14A | −60.03 | C7—C6—C5—C4 | 136.9 (4) |
C9—C8—C7—C6 | −53.9 (2) | H7A—C7—C6—H6A | 48.50 |
C9—C8—C7—H7A | 66.79 | H7A—C7—C6—H6B | 166.79 |
C9—C8—C7—H7B | −175.31 | H7B—C7—C6—H6A | −69.11 |
C9—C11—C12—C13 | −55.6 (2) | H7B—C7—C6—H6B | 49.18 |
C9—C11—C12—H12B | −176.51 | C13—C17—O2—H2 | 173.56 |
C9—C11—C12—H12A | 65.24 | C13—C17—C16—C15 | 21.2 (4) |
H9A—C9—C10—C5 | 60.97 | C13—C17—C16—H16A | 141.31 |
H9A—C9—C10—C1 | −61.91 | C13—C17—C16—H16B | −98.88 |
H9A—C9—C8—C14 | 64.47 | C13—C17—C20—H20A | −57.64 |
H9A—C9—C8—C7 | −57.37 | C13—C17—C20—H20C | −178.20 |
H9A—C9—C8—H8A | −176.59 | C13—C17—C20—H20B | 61.83 |
H9A—C9—C11—C12 | −62.98 | C13—C14—C15—C16 | −32.4 (3) |
H9A—C9—C11—H11A | 58.02 | C13—C14—C15—H15A | −151.46 |
H9A—C9—C11—H11B | 175.77 | C13—C14—C15—H15B | 86.60 |
C14—C13—C17—C16 | −40.3 (3) | C18—C13—C17—C16 | 77.3 (2) |
C14—C13—C17—C20 | 80.2 (2) | C18—C13—C17—C20 | −162.2 (2) |
C14—C13—C12—C11 | 56.1 (2) | C18—C13—C14—C15 | −70.1 (2) |
C14—C13—C12—H12B | 177.12 | C18—C13—C12—H12B | 55.00 |
C14—C13—C12—H12A | −64.75 | C18—C13—C12—H12A | 173.13 |
C14—C13—C18—H18A | 60.14 | H18A—C18—C13—C17 | −49.98 |
C14—C13—C18—H18C | −59.84 | H18A—C18—C13—C12 | 179.91 |
C14—C13—C18—H18B | −179.71 | H18B—C18—C13—C17 | 70.17 |
C14—C8—C9—C10 | −179.7 (2) | H18B—C18—C13—C12 | −59.94 |
C14—C8—C9—C11 | −51.6 (2) | H18C—C18—C13—C17 | −169.96 |
C14—C8—C7—C6 | −174.7 (2) | H18C—C18—C13—C12 | 59.92 |
C14—C8—C7—H7A | −53.95 | C12—C13—C17—C16 | −157.2 (5) |
C14—C8—C7—H7B | 63.95 | C12—C13—C17—C20 | −36.6 (3) |
C14—C15—C16—C17 | 6.6 (2) | C12—C13—C14—C15 | 169.2 (2) |
C14—C15—C16—H16A | −113.24 | H12A—C12—C13—C17 | 47.93 |
C14—C15—C16—H16B | 126.57 | H12B—C12—C13—C17 | −70.20 |
H14A—C14—C13—C17 | −66.16 | O1—C3—C2—C1 | −152.1 (5) |
H14A—C14—C13—C12 | 57.67 | O1—C3—C2—H2B | 86.61 |
H14A—C14—C13—C18 | 178.44 | O1—C3—C2—H2C | −30.76 |
H14A—C14—C8—C7 | 61.18 | O1—C3—C4—H4A | −6.40 |
H14A—C14—C8—H8A | −178.94 | C17—C13—C14—C15 | 45.3 (3) |
H14A—C14—C15—C16 | 79.03 | C17—C16—C15—H15A | 125.86 |
H14A—C14—C15—H15A | −40.05 | C17—C16—C15—H15B | −112.84 |
H14A—C14—C15—H15B | −161.99 | C1—C10—O3—H3 | 72.62 |
C5—C10—O3—H3 | −49.44 | C1—C10—C5—C6 | 171.3 (2) |
C5—C10—C9—C8 | −54.9 (2) | C1—C10—C5—C4 | −12.7 (2) |
C5—C10—C9—C11 | 177.4 (2) | C1—C2—C3—C4 | 32.0 (3) |
C5—C10—C1—C2 | 42.8 (3) | H1A—C1—C2—C3 | −174.53 |
C5—C10—C1—H1A | 164.55 | H1A—C1—C2—H2B | −53.58 |
C5—C10—C1—H1B | −78.56 | H1A—C1—C2—H2C | 64.62 |
C5—C6—C7—C8 | 48.2 (2) | H1B—C1—C2—C3 | 68.83 |
C5—C6—C7—H7A | −72.75 | H1B—C1—C2—H2B | −170.23 |
C5—C6—C7—H7B | 169.65 | H1B—C1—C2—H2C | −52.02 |
C5—C4—C3—O1 | −178.33 (16) | C15—C16—C17—C20 | −102.0 (3) |
C5—C4—C3—C2 | −2.3 (2) | H15A—C15—C16—H16A | 6.03 |
C8—C14—C13—C17 | 177.3 (2) | H15A—C15—C16—H16B | −114.16 |
C8—C14—C13—C12 | −58.8 (2) | H15B—C15—C16—H16A | 127.33 |
C8—C14—C13—C18 | 61.9 (2) | H15B—C15—C16—H16B | 7.14 |
C8—C14—C15—C16 | −161.9 (2) | C4—C3—C2—H2B | −89.33 |
C8—C14—C15—H15A | 79.02 | C4—C3—C2—H2C | 153.30 |
C8—C14—C15—H15B | −42.92 | C4—C5—C6—H6A | 15.88 |
C8—C9—C10—C1 | −177.8 (2) | C4—C5—C6—H6B | −102.65 |
C8—C9—C11—C12 | 53.0 (2) | H4A—C4—C3—C2 | 169.65 |
C8—C9—C11—H11A | 174.00 | H4A—C4—C5—C6 | −4.11 |
C8—C9—C11—H11B | −68.24 | C6—C5—C4—C3 | 167.8 (2) |
C8—C7—C6—H6A | 169.42 | C20—C17—O2—H2 | −61.44 |
C8—C7—C6—H6B | −72.29 | C20—C17—C16—H16A | 18.10 |
H8A—C8—C14—C13 | −62.51 | C20—C17—C16—H16B | 137.91 |
H8A—C8—C14—C15 | 61.98 | H20A—C20—C17—C16 | 58.97 |
H8A—C8—C9—C10 | −60.73 | H20B—C20—C17—C16 | 178.44 |
H8A—C8—C9—C11 | 67.35 | H20C—C20—C17—C16 | −61.59 |
H8A—C8—C7—C6 | 65.34 | C16—C17—O2—H2 | 59.18 |
H8A—C8—C7—H7A | −173.92 |
D—H···A | D—H | H···A | D···A | D—H···A |
O2W—H4W···O2i | 0.98 | 2.05 | 3.0279 (7) | 176 |
O2W—H2W···O3ii | 0.98 | 1.82 | 2.7933 (6) | 171 |
C14—H14A···C20 | 1.10 | 2.70 | 3.0951 (7) | 101 |
C11—H11A···C1 | 1.09 | 2.59 | 2.9771 (8) | 100 |
C18—H18A···C16 | 1.08 | 2.63 | 3.0340 (8) | 102 |
C12—H12A···C20 | 1.09 | 2.60 | 3.0209 (8) | 102 |
C2—H2B···O2W | 1.09 | 2.69 | 3.5634 (7) | 137 |
O1W—H1W···O2W | 0.98 | 1.85 | 2.8189 (7) | 169 |
O3—H3···O1W | 0.98 | 1.79 | 2.7672 (6) | 172 |
O1W—H3W···O2iii | 0.98 | 1.93 | 2.9053 (6) | 172 |
O2—H2···O1iv | 0.98 | 1.77 | 2.7352 (6) | 168 |
C6—H6B···O1v | 1.09 | 2.56 | 3.4828 (7) | 141 |
Symmetry codes: (i) x−1, y+1, z; (ii) x−1/2, −y+3/2, −z; (iii) x, y+1, z; (iv) x+1, y−1, z; (v) x+1, y, z. |
Experimental details
Crystal data | |
Chemical formula | C19H28O3·2H2O |
Mr | 340.44 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 100 |
a, b, c (Å) | 6.9028 (6), 11.0334 (10), 24.451 (2) |
V (Å3) | 1862.2 (3) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.09 |
Crystal size (mm) | 0.27 × 0.10 × 0.07 |
Data collection | |
Diffractometer | Bruker SMART CCD detector |
Absorption correction | Multi-scan (SADABS; Bruker, 2000) |
Tmin, Tmax | 0.977, 0.994 |
No. of measured, independent and observed [ > 2.0σ(I)] reflections | 13666, 2792, 2792 |
Rint | 0.052 |
(sin θ/λ)max (Å−1) | 0.667 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.048, 0.116, 0.95 |
No. of reflections | 2792 |
No. of parameters | 217 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.35, −0.26 |
Computer programs: SMART (Bruker, 2000), SAINT (Bruker, 2000), SIR92 (Altomare et al., 1993), MoPro (Jelsch et al., 2005), Mercury (Macrae et al., 2006) and MoProViewer (Guillot, 2011), pubCIF (Westrip, 2010).
D—H···A | D—H | H···A | D···A | D—H···A |
O2W—H4W···O2i | 0.983 | 2.046 | 3.0279 (7) | 176.19 |
O2W—H2W···O3ii | 0.983 | 1.818 | 2.7933 (6) | 171.12 |
C14—H14A···C20 | 1.099 | 2.697 | 3.0951 (7) | 100.70 |
C11—H11A···C1 | 1.092 | 2.586 | 2.9771 (8) | 100.04 |
C18—H18A···C16 | 1.077 | 2.628 | 3.0340 (8) | 101.58 |
C12—H12A···C20 | 1.092 | 2.603 | 3.0209 (8) | 101.73 |
C2—H2B···O2W | 1.092 | 2.687 | 3.5634 (7) | 136.90 |
O1W—H1W···O2W | 0.983 | 1.848 | 2.8189 (7) | 168.88 |
O3—H3···O1W | 0.980 | 1.794 | 2.7672 (6) | 171.71 |
O1W—H3W···O2iii | 0.983 | 1.928 | 2.9053 (6) | 172.44 |
O2—H2···O1iv | 0.980 | 1.769 | 2.7352 (6) | 168.11 |
C6—H6B···O1v | 1.092 | 2.564 | 3.4828 (7) | 141.23 |
Symmetry codes: (i) x−1, y+1, z; (ii) x−1/2, −y+3/2, −z; (iii) x, y+1, z; (iv) x+1, y−1, z; (v) x+1, y, z. |