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Acta Crystallographica Section E: Crystallographic Communications logoLink to Acta Crystallographica Section E: Crystallographic Communications
. 2019 Jul 2;75(Pt 8):1096–1101. doi: 10.1107/S2056989019009253

Multicentered hydrogen bonding in 1-[(1-de­oxy-β-d-fructo­pyranos-1-yl)aza­nium­yl]cyclo­pentane­carboxyl­ate (‘d-fructose-cyclo­leucine’)

Valeri V Mossine a,*, Charles L Barnes b, Thomas P Mawhinney c
PMCID: PMC6690447  PMID: 31417772

The mol­ecule is a zwitterion and features a strong multicentered intra­molecular hydrogen bonding involving the carboxyl, amino, and anomeric hydroxyl groups. It adopts the 2 C 5 β-pyran­ose conformation, which also the dominant form present in its solution.

Keywords: crystal structure, fructosamine, Amadori rearrangement, cyclo­leucine, hydrogen bonding, Hirshfeld surface analysis

Abstract

The title compound, C12H21NO7, (I), is conformationally unstable; the predominant form present in its solution is the β-pyran­ose form (74.3%), followed by the β- and α-furan­oses (12.1 and 10.2%, respectively), α-pyran­ose (3.4%), and traces of the acyclic carbohydrate tautomer. In the crystalline state, the carbohydrate part of (I) adopts the 2 C 5 β-pyran­ose conformation, and the amino acid portion exists as a zwitterion, with the side chain cyclo­pentane ring assuming the E 9 envelope conformation. All heteroatoms are involved in hydrogen bonding that forms a system of anti­parallel infinite chains of fused R 3 3(6) and R 3 3(8) rings. The mol­ecule features extensive intra­molecular hydrogen bonding, which is uniquely multicentered and involves the carboxyl­ate, ammonium and carbohydrate hy­droxy groups. In contrast, the contribution of inter­molecular O⋯H/H⋯O contacts to the Hirshfeld surface is relatively low (38.4%), as compared to structures of other d-fructose-amino acids. The 1H NMR data suggest a slow rotation around the C1—C2 bond in (I), indicating that the intra­molecular heteroatom contacts survive in aqueous solution of the mol­ecule as well.

Chemical context  

d-Fructosamine derivatives are products of non-enzymatic condensation reactions between d-glucose and biomolecules containing free aliphatic amino groups, such as amino acids, proteins, amino­phospho­lipids, or biogenic amines (Mossine & Mawhinney, 2010). d-Fructosamines are thus present in all living systems and in foods. For instance, in healthy humans, about 5% of plasma proteins are decorated with fructosamine residues, while dietary intake of d-fructosamines, primarily in the form of N -(1-de­oxy-d-fructos-1-yl)-l-lysine, has been estimated at 1 g per day. Although the normal physiological functions of d-fructosamines are not understood, a number of bacterial, fungal, and mammalian carbohydrate-processing enzymes (Wu & Monnier, 2003; Van Schaftingen et al., 2012), transporters (Marty et al., 2016), and lectins (Mossine et al., 2008) can recognize d-fructosamine, thus implying the participation of this structure in metabolic and signaling processes. Biomedical research has suggested the involvement of d-fructosamines in the development of diabetic complications (Wu & Monnier, 2003), bacterial infections (Ali et al., 2014), and cancer (Malmström et al., 2016). We and others (Mossine et al., 2010; Rabinovich et al., 2006) have demonstrated the efficacy of synthetic d-fructosamine derivatives as blockers of galectins, a family of tumor-associated lectins. In this context, several structure determinations of biologically active fructosamines have previously been undertaken (Mossine et al., 2007a ,b , 2009, 2018).graphic file with name e-75-01096-scheme1.jpg

As a part of our search for efficient blockers of galectins-1, −3 and −4, we have prepared d-fructose-cyclo­leucine (I), a structural analog of the galectin inhibitor d-fructose-l-leucine (Mossine et al., 2008). Here we report on the mol­ecular and crystal structures of (I), with an emphasis on the hydrogen-bonding patterns in the structure.

Structural commentary  

The mol­ecular structure and atomic numbering are shown in Fig. 1. The title compound, (I), crystallizes in the monoclinic space group P21, with two equivalent mol­ecules per unit cell. The mol­ecule may be considered as a conjugate of a carbohydrate, 1-amino-1-de­oxy-d-fructose, and an amino acid, 1-amino­cyclo­pentane-1-carb­oxy­lic acid, which are joined through the common amino group. The β-d-pyran­ose ring of the carbohydrate portion exists in the 2 C 5 or 1C(D) chair conformation, with puckering parameters Q = 0.5763 Å, θ = 172.71°, and φ = 248.80°. These parameters correspond to a conformation with the lowest energy possible for fructose (French et al., 1997). The bond distances and the valence angles are close to the average values for a number of crystalline pyran­ose structures (Jeffrey & Taylor, 1980). In an aqueous solution of (I), the β-d-pyran­ose anomer dominates the tautomeric equilibrium (Fig. 2), at 74.3%, as follows from its 13C NMR spectrum (Table 1). The acyclic forms are not readily detectable because of their low populations; their presence is suggested based on literature evidence available for other fructosamine derivatives (Table 1). In the 1H NMR spectrum of the major anomer, the vicinal proton–proton coupling constants J 3,4 = 9.8 Hz and J 4,5 = 3.4 Hz indicate that atom H4 is in a trans disposition to H3 and in a gauche disposition to H5. Hence, the predominant conformation of d-fructose-cyclo­leucine in solution is also 2 C 5 β-d-fructo­pyran­ose.

Figure 1.

Figure 1

The title compound (I) with the atomic numbering and displacement ellipsoids drawn at the 50% probability level. Intra­molecular N—H⋯O and O—H⋯O inter­actions are shown as dotted lines.

Figure 2.

Figure 2

Tautomeric equilibrium in aqueous solution of d-fructose-cyclo­leucine at 293 K and pH 6, as determined by 13C NMR.

Table 1. Chemical shifts (p.p.m.) in the 13C NMR spectrum of (I) and the anomeric distribution of D-fructose-cyclo­leucine and structurally related mol­ecules in D2O at 293 K.

Carbon α-pyran­ose β-pyran­ose α-furan­ose β-furan­ose acyclic
C1 52.61 52.89 51.12 52.51  
C2 99.11 98.34 104.69 101.84  
C3 73.12 72.20 85.18 80.58  
C4 74.75 72.33 78.71 77.12  
C5 68.73 71.80 85.32 83.73  
C6 65.78 66.66 63.63 64.76  
75.99 76.30 76.14 76.24  
           
% for (I) 3.4 74.3 10.2 12.1 < 0.5
% for fructosea 2.1 68.6 5.7 23.0 0.5
% for FruLeub 4 72 12 12 < 1
% for FruAibc 3.0 75.6 10.1 10.4 < 0.7
% for FruProa 4.2 64.8 12.9 16.9 1.2

Notes: (a) Kaufmann et al. (2016); (b) Glinsky et al. (1996); (c) Mossine et al. (2018).

The amino acid portion of the mol­ecule is in the zwitterionic form, with a positively charged tetra­hedral secondary ammonium nitro­gen atom and a negatively charged deprotonated carboxyl group. The side-chain cyclo­pentane ring is, by the atom numbering in Fig. 1, in the E 9 (envelope on C9) or Cs—Cγ-exo conformation, with puckering parameters Q = 0.4220 Å, φ = 254.94°, and pseudorotational parameters (Rao et al., 1981) P = 56.9° and τ = 43.7° for the C7—C8 bond.

The ammonium group and all but one (O8) oxygen atoms are involved in intra­molecular hydrogen bonding (Table 2). At the centre of this system are heteroatom contacts between the conjugated carbohydrate and the amino acid portions of the mol­ecule, which involve the carboxyl­ate atom O7, the ammonium atom H1A, the pyran­ose ring atom O5, and the anomeric hydroxyl group O1—H1O (Fig. 1). Although the value of N1—H1A⋯O7 angle is 99.4°, the distance N1⋯O7 is 2.702 (2) Å, short enough for this heteroatom contact to qualify as a strong hydrogen bond. Then the central motif of the intra­molecular hydrogen-bonded structure can be described in terms of a compact ring S 22(4) pattern represented by the four-atom O7⋯H1A⋯O1—H1O⋯O7 cycle. In the 1H NMR spectrum of (I), two protons, H1C and H1D, which are attached to C1, produce two distinct signals at 3.332 and 3.199 ppm, with J 1C,1D = −12.8 Hz (Fig. 3). The non-equivalence of these protons indicates restricted rotation around the C1—C2 and C1—N1 bonds, thus suggesting the intra­molecular hydrogen bonding retains this structure in solution.

Table 2. Hydrogen-bond geometry (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A
N1—H1B⋯O8i 0.91 1.80 2.704 (2) 174
N1—H1A⋯O3ii 0.91 2.00 2.784 (2) 143
N1—H1A⋯O1 0.91 2.59 2.980 (2) 107
O4—H4O⋯O3 0.85 (3) 2.41 (3) 2.746 (2) 105 (2)
O4—H4O⋯O7iii 0.85 (3) 2.09 (3) 2.845 (2) 149 (3)
O1—H1O⋯O7 0.80 (4) 1.97 (4) 2.769 (2) 178 (3)
O3—H3O⋯O7iv 0.84 (4) 1.99 (4) 2.796 (2) 162 (3)
O2—H2O⋯O4v 0.81 (3) 2.00 (3) 2.765 (2) 159 (3)

Symmetry codes: (i) Inline graphic; (ii) Inline graphic; (iii) Inline graphic; (iv) Inline graphic; (v) Inline graphic.

Figure 3.

Figure 3

A portion of the 1H NMR spectrum of d-fructose-cyclo­leucine in D2O at 293 K containing four sets of signals for methyl­ene protons H1C and H1D. The labeled set of two doublets belongs to the dominant β-d-fructo­pyran­ose anomer of (I). The smaller, unlabeled peaks are unresolved signals of H1C and H1D belonging to the α-pyran­ose, α- and β-furan­ose conformations of (I).

Supra­molecular features  

The crystal packing of (I) features infinite chains of anti­parallel hydrogen bonds running along the a-axis direction (Fig. 4). The basic hydrogen-bonding patterns are depicted in Fig. 5 and include two rings, R 33(6) and R 33(8), and a small finite chain D 22(4). Alternatively, the fused rings pattern can be described in terms of two chains, C 22(4) and C 33(8). The ammonium proton H1A is involved in a rare five-centered hydrogen bond, involving three weakly directional intra­molecular contacts with O1, O5, and O7 (at distances of 2.59, 2.43, and 2.40 Å, respectively) and one inter­molecular, shorter (2.00 Å distance) bond with O3. The carboxyl atom O7 is also involved in an unusual multicenter hydrogen bond, by coord­inating four surrounding protons at reasonably short distances, 1.97–2.40 Å (Tables 2 and 3). This multicentered character of the short heteroatom contacts implies a significant contribution of the electrostatic component (Tao et al., 2017) to the inter­action, apparently between the positively charged ammonium group and the negatively charged carboxyl atom O7 (Fig. 6). Indeed, the C12—O7 bond [1.269 (3) Å] is significantly longer than the C12—O8 distance [1.243 (3) Å], suggesting a more polarized character of the former. This may be a consequence of highly differing heteroatom arrangements around the two carboxyl­ate oxygen atoms in the crystal. One, O7, is surrounded by four heteroatoms (O1, O3, O4, N1) at distances qualifying for hydrogen bonds, while O8 has only one heteroatom, N1, located at a short distance.

Figure 4.

Figure 4

The mol­ecular packing in (I). A view of the unit-cell contents shown in projection down the a axis. Color code for crystallographic axes: red − a, green − b, blue − c. Hydrogen bonds are shown as cyan dotted lines.

Figure 5.

Figure 5

Hydrogen-bonding patterns in the crystal structure of (I), as viewed down the c axis. Weakly directional intra­molecular hydrogen bonds are excluded from the figure.

Table 3. Suspected hydrogen bonds and short C—H⋯A contacts (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A Symmetry code
N1—H1A⋯O7 0.91 2.40 2.702 (2) 99  
N1—H1A⋯O5 0.91 2.43 2.698 (2) 97  
O2—H2O⋯O1 0.81 (3) 2.60 (4) 2.845 (2) 99  
C8—H8A⋯O8 0.99 2.47 2.810 (3) 100  
C9—H9B⋯O1 0.99 2.66 3.618 (3) 162 x, y, z − 1
C11—H11A⋯O3 0.99 2.65 3.416 (3) 134 x + 2, y − Inline graphic, −z + 1
C4—H4⋯O4 1.00 2.69 3.364 (3) 124 x − 1, y, z
C6—H6A⋯O1 0.99 2.67 3.430 (3) 134 x + 1, y, z

Figure 6.

Figure 6

Views of the Hirshfeld surface for (I) mapped over: (a) the electrostatic potential in the range −0.156 to +0.261 a.u. with the red and blue colors representing the distribution of the negative and positive electrostatic potential, respectively; (b) the d e function, in the range 0.674 to 2.424 Å, calculated for the external contact atoms in the crystal. The mol­ecular fragments involved in short C—H⋯O inter­actions are shown; these allegedly stabilize the cyclo­pentane ring conformation in crystalline (I).

The Hirshfeld surface analysis (Spackman & Jayatilaka, 2009) revealed that a major proportion of the inter­molecular contacts in crystal structure of (I) is provided by non- or low-polar H⋯H inter­actions (Fig. 7). Of note, there are three short inter­atomic contacts of the C—H⋯O type (Table 3, Fig. 6) that involve the cyclo­pentane ring and which may be responsible for conformational stabilization of the ring. In contrast, a number of published cyclo­leucine structures feature disordered conformations as a result of the ring pucker pseudorotation (Mallikarjunan et al., 1972; Varughese & Chacko, 1978; Santini et al. 1988).

Figure 7.

Figure 7

(a) The full two-dimensional fingerprint plot for (I) and those delineated into specific contacts: (b) O⋯H/H⋯O (38.5% contribution to the Hirshfeld surface); (c) H⋯H (60.9%); (d) O⋯O (0.6%).

Database survey  

Searches of SciFinder (2018) and the Cambridge Structural Database (2019 CSD release; Groom et al., 2016) by both structure and chemical names returned no previous structural description of N-(1-de­oxy-β-d-fructo­pyranos-1-yl)-1′-amino­cyclo­pentane-1′-carb­oxy­lic acid or d-fructose-cyclo­leucine; thus the compound appears to be novel. Since the conformational instability of the d-fructosamine moiety determines the chemical reactivities and biological activities of d-fructosamine derivatives (Mossine & Mawhinney, 2010), we compared the structure of (I) with solved structures of other d-fructose-amino acids. The most closely related structures are d-fructose-2-amino­isobutyric acid (CCDC 1583254; Mossine et al., 2018), d-fructose-glycine (CCDC 1307697; Mossine, Glinsky et al., 1995), d-fructose-l-proline [CCDC 628806 and 628807 (Tarnawski et al., 2007), 631528 (Mossine et al., 2007a )], and d-fructose-l-histidine (CCDC 622419; Mossine et al., 2007b ). Although some fructosamine derivatives can crystallize as the β-furan­ose, spiro-bicyclic hemiketal, or acyclic keto tautomers (Mossine, Barnes et al., 1995, 2009), all of the above-listed d-fructose-amino acids adopt the 2 C 5 β-pyran­ose conformation and exist as zwitterions, with the intra­molecular hydrogen-bonding central pattern localized around the ammonium group and involving the carboxyl­ate and one hydroxyl group donated by the carbohydrate moiety. This hydrogen-bonded conjugation between the amino acid zwitterion bridge and the β-pyran­ose provides for conformational stability around the C1—C2 bond in solutions of d-fructose-amino acids. The staggered gauche–trans conformation of the N1—C1—C2—O5 torsion, such as in (I), has also been observed in CCDC 1583254 (mol­ecule A; Mossine et al., 2018), CCDC 631528 (Mossine et al., 2007a ), and CCDC 622419 (Mossine et al., 2007b ), while the trans–gauche conformation was observed in four other structures of d-fructose-amino acids (Table 4). However, none of these structures, except (I), features the cyclic motif of intra­molecular multicentered hydrogen bonding (Fig. 1), which is supported by a unique direct inter­action between the carbohydrate anomeric hydroxyl donor, O1—H1O, and the carboxyl­ate acceptor, O7. In total, there are six intra­molecular short heteroatom contacts in the structure of (I), more than in any other d-fructose-amino acid structure known to date. Such effect of the ‘inter­nalization’ of hydrogen bonding in (I) is also revealed in a comparative analysis of the fingerprint plots (Fig. 7) that are based on the calculations of Hirshfeld surfaces (Spackman & Jayatilaka, 2009) and delineated into the O⋯H/H⋯O inter­molecular contacts in the crystal structure of (I). The relative abundance of these contacts in structures of d-fructose-amino acids decreases with an increase in the number of intra­molecular hydrogen bonds; this trend is clearly revealed by the data presented in Table 4. The significant difference between the carboxyl­ate C—O lengths of 0.026 Å in (I) is comparable to the respective bond-length differences noted in other fructose-amino acid structures, including CCDC 1583254 (0.022 Å in mol­ecule B; Mossine et al., 2018) and CCDC 622419 (0.021 Å; Mossine et al., 2007b ). In the latter two structures, the carboxyl­ate oxygen atoms are involved in close heteroatom contacts unequally, although not to the extent observed in (I).

Table 4. Conformation, intra­molecular hydrogen bonding around the amino group, and contributions of the inter­molecular O⋯H/H⋯O contacts to the Hirshfeld surfaces in N-(β-D-fructo­pyranos-1-yl)-amino acids.

Hydrogen-bond selection criteria: DA < 3.0 Å; H⋯D < 2.7 Å; D—H⋯A > 95°.

Structure N—C1—C2—O5 torsion (°), conformation Intra­molecular hydrogen bonds around the amino group No. of intra/intermol­ecular hydrogen bonds O⋯H/H⋯O contacts on Hirshfeld surface (%)
Fru-cycloLeu, (I) +53.3 gt N1—H1A⋯O1 (106°); N1—H1A⋯O5 (97°); N1—H1A⋯O7 (99°); O1—H1O⋯O7 (178°) 6/5 38.5
FruGlya +165.5 tg N1—H1A⋯O2 (140°); N1—H1A⋯O7 (104°) 2/6 51.6
FruAib (mol­ecule A)b +64.7 gt N1—H1B⋯O5 (110°); N1—H1B⋯O7 (107°) 3/5 44.0
FruAib (mol­ecule B)b +176.8 tg N1—H1A⋯O2 (145°); N1—H1A⋯O7 (100°) 3/5 45.9
FruPro·H2Od +75.8 gt N1—H1⋯O1 (109°); N1—H1⋯O7 (125°) 3/6 49.2
FruPro·2H2Od +176.8 tg N1—H1⋯O2 (140°); N1—H1⋯O7 (113°) 3/6 49.3
FruPro·MeOHd +174.4 tg N1—H1⋯O2 (139°); N1—H1⋯O7 (114°) 4/5 40.2
FruHis·H2Oe +60.7 gt N1—H1B⋯O5 (100°); N1—H1B⋯O7 (102°); N1—H1A⋯O1 (108°) 5/7 41.2

Notes: (a) Mossine, Glinsky et al. (1995); (b) Mossine et al. (2018); (c) Mossine et al. (2007a ); (d) Tarnawski et al. (2007); (e) Mossine et al. (2007b ).

Synthesis and crystallization  

Cyclo­leucine (2.6 g, 0.02 mol), d-glucose (9 g, 0.05 mol), and sodium acetate (0.82 g, 0.01 mol) were dissolved in 100 mL of a methanol/glycerol (3:1) mixture and refluxed for 3 h. The reaction progress was monitored by TLC on silica. The reaction mixture was diluted with 900 mL of water and passed through a column charged with 80 mL of Amberlite IRN-77 (H+-form). The target compound was then eluted with 0.2 M pyridine, and fractions containing pure (I) were pooled and evaporated. The residue was redissolved in 100 mL of water, decolorized with 0.5 g of charcoal and evaporated to a syrup. The latter was dissolved in 30 mL of ethanol and made nearly cloudy with the dropwise addition of acetone. Crystallization occurred within a week at room temperature. Yield 3.4 g (58%, based on the starting cyclo­leucine).

Major β-pyran­ose tautomer peaks (ppm) in 13C NMR spectrum in D2O: 179.82 (C12); 98.34 (C2); 76.30 (C7); 72.33 (C4); 72.20 (C3); 71.80 (C5); 66.66 (C6); 52.89 (C1); 37.44, 37.40 (C8, C11); 28.00, 27.98 (C9, C10). See Table 1 for minor peaks assignments in the spectrum. Major signals (ppm) and resolved coupling constants (Hz) in the 1H NMR spectrum: 4.035 (dd, H6B); 4.017 (m, H5); 3.896 (dd, H4); 3.774 (d, H3); 3.771 (dd, H6A); 3.332 (d, H1D); 3.199 (d, H1C); 2.220 (m, 2H11); 1.955 (m, 2H8); 1.83 (m, 2H9 + 2H10); J 1C,1D = −12.8; J 3,4 = 9.8; J 4,5 = 3.4; J 5,6A = 1.3; J 6A,6B = −12.9.

Refinement details  

Crystal data, data collection and structure refinement details are summarized in Table 5. Hydroxyl H atoms were located in difference-Fourier maps and were allowed to refine freely. Other H atoms were placed at calculated positions and treated as riding, with N—H = 0.91 Å, C—H = 0.99 Å (methyl­ene) or 1.00 Å (methine) and with U iso(H) = 1.2U eq (methine or methyl­ene). As a result of the unrealistic value obtained for the Flack absolute structure parameter [−0.4 (4) for 1097 quotients; Parsons et al., 2013], the absolute configuration of the pyran­ose ring system (2R,3S,4R,5R) was assigned on the basis of the known configuration for the starting compound d-glucose (McNaught, 1996).

Table 5. Experimental details.

Crystal data
Chemical formula C12H21NO7
M r 291.30
Crystal system, space group Monoclinic, P21
Temperature (K) 100
a, b, c (Å) 5.8052 (3), 11.9540 (6), 9.6135 (5)
β (°) 95.506 (1)
V3) 664.05 (6)
Z 2
Radiation type Mo Kα
μ (mm−1) 0.12
Crystal size (mm) 0.55 × 0.25 × 0.10
 
Data collection
Diffractometer Bruker APEXII CCD area detector
Absorption correction Multi-scan (SADABS; Krause et al., 2015)
T min, T max 0.72, 0.99
No. of measured, independent and observed [I > 2σ(I)] reflections 4797, 2761, 2619
R int 0.017
(sin θ/λ)max−1) 0.641
 
Refinement
R[F 2 > 2σ(F 2)], wR(F 2), S 0.029, 0.073, 1.03
No. of reflections 2761
No. of parameters 197
No. of restraints 1
H-atom treatment H atoms treated by a mixture of independent and constrained refinement
Δρmax, Δρmin (e Å−3) 0.23, −0.20
Absolute structure parameter −0.4 (4)

Computer programs: SMART and SAINT-Plus (Bruker, 1998), SHELXS97 (Sheldrick, 2008), SHELXL2017/1 (Sheldrick, 2015), Mercury (Macrae et al., 2008), CIFTAB (Sheldrick, 2008) and publCIF (Westrip, 2010).

Supplementary Material

Crystal structure: contains datablock(s) I. DOI: 10.1107/S2056989019009253/eb2020sup1.cif

e-75-01096-sup1.cif (180.5KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989019009253/eb2020Isup2.hkl

e-75-01096-Isup2.hkl (220.8KB, hkl)

CCDC reference: 1583255

Additional supporting information: crystallographic information; 3D view; checkCIF report

Acknowledgments

The authors thank Dr Shaokai Jiang for assistance with acquiring the NMR spectra.

supplementary crystallographic information

Crystal data

C12H21NO7 F(000) = 312
Mr = 291.30 Dx = 1.457 Mg m3
Monoclinic, P21 Mo Kα radiation, λ = 0.71073 Å
a = 5.8052 (3) Å Cell parameters from 3178 reflections
b = 11.9540 (6) Å θ = 2.7–27.1°
c = 9.6135 (5) Å µ = 0.12 mm1
β = 95.506 (1)° T = 100 K
V = 664.05 (6) Å3 Plate, colourless
Z = 2 0.55 × 0.25 × 0.10 mm

Data collection

Bruker APEXII CCD area detector diffractometer 2619 reflections with I > 2σ(I)
ω scans Rint = 0.017
Absorption correction: multi-scan (SADABS; Krause et al., 2015) θmax = 27.1°, θmin = 2.1°
Tmin = 0.72, Tmax = 0.99 h = −7→7
4797 measured reflections k = −15→15
2761 independent reflections l = −12→10

Refinement

Refinement on F2 Hydrogen site location: mixed
Least-squares matrix: full H atoms treated by a mixture of independent and constrained refinement
R[F2 > 2σ(F2)] = 0.029 w = 1/[σ2(Fo2) + (0.0364P)2 + 0.1566P] where P = (Fo2 + 2Fc2)/3
wR(F2) = 0.073 (Δ/σ)max = 0.001
S = 1.03 Δρmax = 0.23 e Å3
2761 reflections Δρmin = −0.20 e Å3
197 parameters Absolute structure: Flack x determined using 1097 quotients [(I+)-(I-)]/[(I+)+(I-)] (Parsons et al., 2013).
1 restraint Absolute structure parameter: −0.4 (4)

Special details

Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes.

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

x y z Uiso*/Ueq
O1 0.7009 (3) 0.99423 (13) 0.44759 (17) 0.0210 (3)
O2 0.6482 (3) 1.23008 (14) 0.42123 (17) 0.0236 (4)
O3 0.9451 (3) 1.26855 (13) 0.68102 (17) 0.0223 (3)
O4 1.3447 (3) 1.16847 (15) 0.61241 (19) 0.0271 (4)
O5 1.0920 (3) 1.01394 (12) 0.41337 (15) 0.0200 (3)
O7 0.4680 (3) 0.86115 (14) 0.24446 (16) 0.0215 (3)
O8 0.2727 (3) 0.93833 (15) 0.05537 (16) 0.0283 (4)
N1 0.8644 (3) 0.95057 (15) 0.16816 (17) 0.0160 (3)
H1A 0.872660 0.899266 0.238389 0.019*
H1B 1.003891 0.951327 0.132317 0.019*
C1 0.8227 (4) 1.06402 (17) 0.2287 (2) 0.0189 (4)
H1C 0.661121 1.087516 0.201456 0.023*
H1D 0.927252 1.119552 0.191299 0.023*
C2 0.8665 (4) 1.05974 (17) 0.3875 (2) 0.0182 (4)
C3 0.8630 (4) 1.17629 (17) 0.4547 (2) 0.0177 (4)
H3 0.986207 1.222671 0.417043 0.021*
C4 0.9241 (4) 1.16278 (17) 0.6125 (2) 0.0178 (4)
H4 0.799149 1.118808 0.652062 0.021*
C5 1.1540 (4) 1.10136 (18) 0.6441 (2) 0.0205 (4)
H5 1.173771 1.081867 0.745658 0.025*
C6 1.1571 (4) 0.99419 (18) 0.5592 (2) 0.0215 (5)
H6A 1.314355 0.961418 0.570981 0.026*
H6B 1.048878 0.939529 0.594849 0.026*
C7 0.6822 (3) 0.91363 (17) 0.0555 (2) 0.0164 (4)
C8 0.6746 (4) 0.99140 (19) −0.0720 (2) 0.0202 (4)
H8A 0.549752 1.047572 −0.069571 0.024*
H8B 0.824036 1.030727 −0.075537 0.024*
C9 0.6270 (4) 0.9129 (2) −0.1969 (2) 0.0270 (5)
H9A 0.461610 0.891584 −0.210590 0.032*
H9B 0.672248 0.947623 −0.283720 0.032*
C10 0.7793 (5) 0.8121 (2) −0.1546 (2) 0.0295 (5)
H10A 0.943566 0.827661 −0.167132 0.035*
H10B 0.728704 0.745231 −0.210171 0.035*
C11 0.7450 (4) 0.79532 (18) 0.0003 (2) 0.0220 (4)
H11A 0.888615 0.766805 0.052214 0.026*
H11B 0.618351 0.741477 0.011014 0.026*
C12 0.4522 (4) 0.90500 (18) 0.1238 (2) 0.0188 (4)
H4O 1.347 (5) 1.227 (3) 0.662 (3) 0.032 (8)*
H1O 0.631 (6) 0.955 (3) 0.390 (4) 0.042 (9)*
H3O 0.814 (6) 1.296 (3) 0.684 (3) 0.037 (8)*
H2O 0.553 (6) 1.199 (3) 0.463 (3) 0.037 (9)*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
O1 0.0221 (8) 0.0233 (8) 0.0179 (7) −0.0065 (6) 0.0033 (6) −0.0029 (6)
O2 0.0212 (9) 0.0230 (8) 0.0263 (9) 0.0047 (7) 0.0009 (7) 0.0015 (7)
O3 0.0165 (8) 0.0229 (7) 0.0272 (9) 0.0015 (6) 0.0009 (6) −0.0097 (6)
O4 0.0173 (8) 0.0290 (9) 0.0359 (9) −0.0021 (7) 0.0066 (7) −0.0129 (8)
O5 0.0191 (8) 0.0227 (8) 0.0180 (7) 0.0022 (6) 0.0014 (6) −0.0033 (6)
O7 0.0184 (7) 0.0269 (8) 0.0195 (8) −0.0031 (6) 0.0037 (6) 0.0034 (6)
O8 0.0144 (7) 0.0461 (11) 0.0244 (8) 0.0031 (7) 0.0019 (6) 0.0037 (8)
N1 0.0130 (8) 0.0193 (8) 0.0159 (8) −0.0007 (7) 0.0021 (6) 0.0008 (7)
C1 0.0215 (10) 0.0173 (10) 0.0180 (10) −0.0001 (8) 0.0023 (8) −0.0006 (8)
C2 0.0182 (10) 0.0194 (10) 0.0168 (10) −0.0008 (8) 0.0012 (8) −0.0004 (8)
C3 0.0164 (10) 0.0177 (10) 0.0193 (10) 0.0006 (8) 0.0026 (8) −0.0014 (8)
C4 0.0172 (10) 0.0176 (9) 0.0187 (10) −0.0011 (8) 0.0020 (8) −0.0033 (8)
C5 0.0182 (10) 0.0244 (11) 0.0188 (10) 0.0011 (9) 0.0017 (8) −0.0032 (9)
C6 0.0219 (11) 0.0214 (10) 0.0204 (11) 0.0048 (9) −0.0018 (8) −0.0010 (9)
C7 0.0144 (9) 0.0193 (9) 0.0155 (9) −0.0002 (8) 0.0013 (7) −0.0009 (8)
C8 0.0202 (11) 0.0227 (10) 0.0177 (10) −0.0020 (8) 0.0017 (8) 0.0029 (8)
C9 0.0289 (12) 0.0334 (12) 0.0183 (10) −0.0022 (10) 0.0005 (9) 0.0013 (9)
C10 0.0311 (13) 0.0353 (13) 0.0226 (12) 0.0036 (11) 0.0049 (9) −0.0055 (10)
C11 0.0239 (11) 0.0202 (10) 0.0216 (10) 0.0019 (8) 0.0009 (8) −0.0029 (8)
C12 0.0162 (10) 0.0205 (9) 0.0200 (10) −0.0024 (8) 0.0038 (8) −0.0028 (8)

Geometric parameters (Å, º)

O1—C2 1.406 (3) C3—H3 1.0000
O1—H1O 0.80 (4) C4—C5 1.528 (3)
O2—C3 1.412 (3) C4—H4 1.0000
O2—H2O 0.81 (3) C5—C6 1.520 (3)
O3—C4 1.425 (2) C5—H5 1.0000
O3—H3O 0.84 (4) C6—H6A 0.9900
O4—C5 1.423 (3) C6—H6B 0.9900
O4—H4O 0.85 (3) C7—C8 1.535 (3)
O5—C2 1.419 (3) C7—C12 1.547 (3)
O5—C6 1.436 (3) C7—C11 1.566 (3)
O7—C12 1.269 (3) C8—C9 1.529 (3)
O8—C12 1.243 (3) C8—H8A 0.9900
N1—C1 1.504 (3) C8—H8B 0.9900
N1—C7 1.506 (3) C9—C10 1.526 (3)
N1—H1A 0.9100 C9—H9A 0.9900
N1—H1B 0.9100 C9—H9B 0.9900
C1—C2 1.524 (3) C10—C11 1.535 (3)
C1—H1C 0.9900 C10—H10A 0.9900
C1—H1D 0.9900 C10—H10B 0.9900
C2—C3 1.537 (3) C11—H11A 0.9900
C3—C4 1.533 (3) C11—H11B 0.9900
C2—O1—H1O 111 (2) C4—C5—H5 108.8
C3—O2—H2O 108 (2) O5—C6—C5 111.70 (17)
C4—O3—H3O 109 (2) O5—C6—H6A 109.3
C5—O4—H4O 108 (2) C5—C6—H6A 109.3
C2—O5—C6 112.75 (15) O5—C6—H6B 109.3
C1—N1—C7 114.50 (16) C5—C6—H6B 109.3
C1—N1—H1A 108.6 H6A—C6—H6B 107.9
C7—N1—H1A 108.6 N1—C7—C8 111.15 (16)
C1—N1—H1B 108.6 N1—C7—C12 106.82 (16)
C7—N1—H1B 108.6 C8—C7—C12 114.79 (17)
H1A—N1—H1B 107.6 N1—C7—C11 109.76 (17)
N1—C1—C2 109.85 (16) C8—C7—C11 105.47 (17)
N1—C1—H1C 109.7 C12—C7—C11 108.79 (17)
C2—C1—H1C 109.7 C9—C8—C7 104.14 (18)
N1—C1—H1D 109.7 C9—C8—H8A 110.9
C2—C1—H1D 109.7 C7—C8—H8A 110.9
H1C—C1—H1D 108.2 C9—C8—H8B 110.9
O1—C2—O5 111.62 (17) C7—C8—H8B 110.9
O1—C2—C1 112.06 (17) H8A—C8—H8B 108.9
O5—C2—C1 104.54 (16) C10—C9—C8 102.65 (19)
O1—C2—C3 107.14 (17) C10—C9—H9A 111.2
O5—C2—C3 108.97 (17) C8—C9—H9A 111.2
C1—C2—C3 112.54 (17) C10—C9—H9B 111.2
O2—C3—C4 112.90 (17) C8—C9—H9B 111.2
O2—C3—C2 111.32 (18) H9A—C9—H9B 109.1
C4—C3—C2 108.05 (16) C9—C10—C11 103.64 (19)
O2—C3—H3 108.1 C9—C10—H10A 111.0
C4—C3—H3 108.1 C11—C10—H10A 111.0
C2—C3—H3 108.1 C9—C10—H10B 111.0
O3—C4—C5 107.48 (17) C11—C10—H10B 111.0
O3—C4—C3 111.41 (17) H10A—C10—H10B 109.0
C5—C4—C3 111.20 (17) C10—C11—C7 105.47 (18)
O3—C4—H4 108.9 C10—C11—H11A 110.6
C5—C4—H4 108.9 C7—C11—H11A 110.6
C3—C4—H4 108.9 C10—C11—H11B 110.6
O4—C5—C6 108.13 (17) C7—C11—H11B 110.6
O4—C5—C4 111.66 (18) H11A—C11—H11B 108.8
C6—C5—C4 110.70 (17) O8—C12—O7 126.9 (2)
O4—C5—H5 108.8 O8—C12—C7 117.89 (19)
C6—C5—H5 108.8 O7—C12—C7 115.22 (18)
C7—N1—C1—C2 135.27 (18) C2—O5—C6—C5 −59.7 (2)
C6—O5—C2—O1 −53.6 (2) O4—C5—C6—O5 −71.6 (2)
C6—O5—C2—C1 −174.91 (17) C4—C5—C6—O5 51.0 (2)
C6—O5—C2—C3 64.6 (2) C1—N1—C7—C8 63.4 (2)
N1—C1—C2—O1 −67.8 (2) C1—N1—C7—C12 −62.6 (2)
N1—C1—C2—O5 53.2 (2) C1—N1—C7—C11 179.67 (16)
N1—C1—C2—C3 171.33 (17) N1—C7—C8—C9 142.64 (17)
O1—C2—C3—O2 −64.5 (2) C12—C7—C8—C9 −96.0 (2)
O5—C2—C3—O2 174.57 (17) C11—C7—C8—C9 23.7 (2)
C1—C2—C3—O2 59.1 (2) C7—C8—C9—C10 −40.9 (2)
O1—C2—C3—C4 60.0 (2) C8—C9—C10—C11 42.1 (2)
O5—C2—C3—C4 −60.9 (2) C9—C10—C11—C7 −27.1 (2)
C1—C2—C3—C4 −176.39 (17) N1—C7—C11—C10 −117.74 (19)
O2—C3—C4—O3 −61.7 (2) C8—C7—C11—C10 2.1 (2)
C2—C3—C4—O3 174.70 (18) C12—C7—C11—C10 125.71 (19)
O2—C3—C4—C5 178.39 (18) N1—C7—C12—O8 139.8 (2)
C2—C3—C4—C5 54.8 (2) C8—C7—C12—O8 16.1 (3)
O3—C4—C5—O4 −52.0 (2) C11—C7—C12—O8 −101.8 (2)
C3—C4—C5—O4 70.2 (2) N1—C7—C12—O7 −41.9 (2)
O3—C4—C5—C6 −172.52 (17) C8—C7—C12—O7 −165.61 (19)
C3—C4—C5—C6 −50.3 (2) C11—C7—C12—O7 76.5 (2)

Hydrogen-bond geometry (Å, º)

D—H···A D—H H···A D···A D—H···A
N1—H1B···O8i 0.91 1.80 2.704 (2) 174
N1—H1A···O3ii 0.91 2.00 2.784 (2) 143
N1—H1A···O1 0.91 2.59 2.980 (2) 107
O4—H4O···O3 0.85 (3) 2.41 (3) 2.746 (2) 105 (2)
O4—H4O···O7iii 0.85 (3) 2.09 (3) 2.845 (2) 149 (3)
O1—H1O···O7 0.80 (4) 1.97 (4) 2.769 (2) 178 (3)
O3—H3O···O7iv 0.84 (4) 1.99 (4) 2.796 (2) 162 (3)
O2—H2O···O4v 0.81 (3) 2.00 (3) 2.765 (2) 159 (3)

Symmetry codes: (i) x+1, y, z; (ii) −x+2, y−1/2, −z+1; (iii) −x+2, y+1/2, −z+1; (iv) −x+1, y+1/2, −z+1; (v) x−1, y, z.

Funding Statement

This work was funded by University of Missouri Agriculture Experiment Station Chemical Laboratories grant . National Institute of Food and Agriculture grant MO-HABC0002.

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablock(s) I. DOI: 10.1107/S2056989019009253/eb2020sup1.cif

e-75-01096-sup1.cif (180.5KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989019009253/eb2020Isup2.hkl

e-75-01096-Isup2.hkl (220.8KB, hkl)

CCDC reference: 1583255

Additional supporting information: crystallographic information; 3D view; checkCIF report


Articles from Acta Crystallographica Section E: Crystallographic Communications are provided here courtesy of International Union of Crystallography

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