Crystal structure of a 1:1 co-crystal of quabodepistat (OPC-167832) with 2,5-di­hydroxy­benzoic acid using microcrystal electron diffraction

Sakamoto, N.; Gato, K.

doi:10.1107/S2056989023006047

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ISSN: 2056-9890

Volume 79| Part 10| October 2023| Pages 920-922

https://doi.org/10.1107/S2056989023006047

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Crystal structure of a 1:1 co-crystal of quabodepistat (OPC-167832) with 2,5-dihydroxybenzoic acid using microcrystal electron diffraction

Nasa Sakamoto ^a ^* and Katsuhiko Gato ^a

^aPreformulation Research Laboratory, CMC Headquarters, Otsuka Pharmaceutical Co., Ltd., Tokushima, 771-0182, Japan
^*Correspondence e-mail: Sakamoto.Nasa@otsuka.jp

Edited by G. Diaz de Delgado, Universidad de Los Andes Mérida, Venezuela (Received 27 July 2022; accepted 10 July 2023; online 19 September 2023)

Quabodepistat [(5-{[(3R,4R)-1-(4-chloro-2,6-difluorophenyl)-3,4-dihydroxypiperidin-4-yl]methoxy}-8-fluoro-3,4-dihydroquinolin-2(1H)-one); C₂₁H₂₀ClF₃N₂O₄] and 2,5-dihydroxybenzoic acid (2,5DHBA; C₇H₆O₄) were successfully co-crystallized. Given the small size of the crystals (1 × 0.2 × 0.2 µm) the structure was solved via microcrystal electron diffraction (MicroED). The C—O and C=O bond-length ratio of the carboxylic group in 2,5DHBA is 1.08 (1.34 Å/1.24 Å), suggesting that 2,5DHBA remains protonated. Therefore, the material is a co-crystal rather than a salt. The amide group of quabodepistat participates in a cyclic hydrogen bond with the carboxylic group of the 2,5DHBA. Additional hydrogen bonds involving the quabodepistat amide and hydroxyl groups result in a three-dimensional network.

Keywords: crystal structure; co-crystal; quabodepistat; 2,5-dihydroxybenzoic acid; microcrystal electron diffraction.

CCDC reference: 2205804

1. Chemical context

Quabodepistat (OPC-167832), discovered by Otsuka Pharmaceutical Co., Ltd. as an anti-tuberculosis drug (Hariguchi et al., 2020 ), has a mode of action that involves inhibiting the DprE1 enzyme of M. tuberculosis. 2,5-dihydroxybenzoic acid (2,5DHBA) – a derivative of benzoic acid or salicylic acid – is one of the hepatic metabolites of acetylsalicylic acid (aspirin) (Levy & Tsuchiya, 1972 ). In the pharmaceutical industry, crystal-engineering approaches such as co-crystallization have been useful techniques for modifying the physicochemical properties [e.g., solubility (Yoshimura et al., 2017 ) or tabletability (Wang et al., 2021 )] of an active pharmaceutical ingredient. We obtained the quabodepistat co-crystal with 2,5DHBA by the anti-solvent crystallization method and then attempted to solve its crystal structure using a conventional X-ray diffractometer; however, the crystal size was too small (1 × 0.2 × 0.2 µm). Therefore, we used MicroED (XtaLAB Synergy-ED, Rigaku Corporation, Tokyo, Japan), which is a powerful tool to solve crystal structures when the crystal size is smaller than 1 µm (Ito et al., 2021 $[Ito, S., White, F., Okunishi, E., Aoyama, Y., Yamano, A., Sato, H., Ferrara, J., Jasnowski, M. & Meyer, M. (2021). ChemRxiv. https://chemrxiv.org/engage/api-gateway/chemrxiv/assets/orp/resource/item/612e43f042198e340e68fb89/original/structure-determination-of-small-molecule-compounds-by-an-electron-diffractometer-for-3d-ed-micro-ed.pdf]$ ). Here, we report the crystal structure of the 1:1 co-crystal between quabodepistat and 2,5DHBA, solved using MicroED.

2. Structural commentary

Quabodepistat and 2,5DHBA co-crystallize in a 1:1 stoichiometric ratio in the monoclinic system, space group P2₁, with Z = 2. Unusual bond lengths and angles are expected given the low crystal quality and the current limitations of the technique. A Mogul geometry analysis (Bruno et al., 2004 ) indicated that the bonds C8—N7, O42—C36, F30—C28, C6—N7, O1—C2, and O41—C33, are unusual (z-score > 3). The angles O21—C16—C17, F30—C28—C23, C6—N7—C8, C9—C10—C11, O1—C14—C15, and C6—C11—C2 also have z-score values greater than 3.

All rings expected to be planar due to aromaticity (C2–C6/C11, C23–C28, and C32–C37) exhibit χ² values (PLATON; Spek, 2020 ) indicating good planarity. The six-membered ring formed by C15–C17/N18/C19–C20 displays a slight chair conformation. The best plane constructed through atoms C23–C28 makes an angle of 20.9 (11)° with the best plane through C2–C6/N7/C8–C11.

3. Supramolecular features

Intermolecular interactions via hydrogen bonds are observed between quabodepistat and 2,5DHBA. One of the interactions is between a carboxylic group and an amide. As shown in Fig. 1, they form the common synthon: (amide of quabodepistat) N7—H7⋯O40=C38 (carboxylic group of 2,5DHBA) and (amide of quabodepistat) C8=O12⋯H39—O39 (carboxylic group of 2,5DHBA). Moreover, the C8=O12 of the amide interacts with a hydroxyl group of a neighboring quabodepistat (O12⋯H22—O22), and the H22—O22 interacts with another hydroxyl of quabodepistat (O22⋯H21—O21). These interactions form a three-dimensional network (Figs. 2 and 3, Table 1). It is worth mentioning that the C—O:C=O bond-length ratio of the carboxylic group in 2,5DHBA is 1.08 (1.34 Å/1.24 Å), which suggests that protonation has not occurred for complex binding. Therefore, this material is a co-crystal instead of a salt. The compound TAK-020 has also been reported as a co-crystal with 2,5DHBA (Kimoto et al., 2020 ). Therein, a carboxylic group of 2,5DHBA interacts with an amide moiety of the triazolinone of TAK-020, which is similar to the synthon observed in the compound reported in this contribution.

Table 1
Hydrogen-bond geometry (Å, °)

D—H⋯A	D—H	H⋯A	D⋯A	D—H⋯A
C3—H3⋯O42ⁱ	0.93	2.71	3.40 (7)	131
C9—H9B⋯O22ⁱⁱ	0.97	2.94	3.49 (11)	117
N7—H7⋯O40ⁱⁱ	1.01	1.93	2.93 (9)	169
C34—H34⋯O42ⁱⁱⁱ	0.93	2.69	3.48 (7)	143
O42—H42⋯O41^iv	0.82	2.48	3.23 (6)	152
O39—H39⋯O12^v	0.82	1.92	2.73 (10)	169
O21—H21⋯O22^vi	0.82	2.02	2.84 (18)	175
O22—H22⋯O12^v	0.82	2.11	2.90 (7)	164
Symmetry codes: (i) x+1, y, z; (ii) ; (iii) $[-x+1, y-{\script{1\over 2}}, -z+2]$ ; (iv) $[-x+1, y+{\script{1\over 2}}, -z+2]$ ; (v) ; (vi) .

Figure 1
The molecular structure of the quabodepistat:2,5DHBA co-crystal showing the carboxylic group and amide hydrogen bond synthon. Displacement ellipsoids are drawn at the 50% probability level.

Figure 2
Intermolecular interactions via hydrogen bonds in the quabodepistat:2,5DHBA co-crystal.

Figure 3
Crystal packing viewed down the a axis of the quabodepistat:2,5DHBA co-crystal.

4. Database survey

A search for co-crystals with 2,5-dihydroxybenzoic acid (or gentisic acid) in the Cambridge Structural Database (WebCSD, accessed June 2023; Groom et al., 2016 ) gave a total of 55 hits. In contrast, a search for co-crystals of quabodepistat with 2,5DHBA in the SciFinder database gave a total of two hits (Sakamoto & Miyata, 2021 ).

5. Synthesis and crystallization

Quabodepistat was synthesized at Otsuka Pharmaceutical Co., Ltd. (Tokushima, Japan). Tetrahydrofuran (THF) and hexane were purchased from FUJIFILM Wako Pure Chemical Corporation (Osaka, Japan). 2,5DHBA was purchased from Tokyo Kasei Kogyo Co., Ltd. (Tokyo, Japan). Quabodepistat (5 g) and 2,5DHBA (16.9 g, stoichiometric ratio 1:10) were dissolved in 100 mL of THF. 250 mL of hexane were added while stirring. Precipitation occurred as soon as hexane was added. The THF/hexane was stirred at room temperature (approximately 298 K) for three days. After filtration, it was dried at room temperature for 24 h, then heated at 383 K for 20 h.

6. Refinement

Crystal data, data collection and structure refinement details are summarized in Table 2. Two data sets were merged to obtain 93.1% data completeness to 0.9 Å resolution. Crystals were illuminated at an electron dose rate of ∼0.01 e⁻Å⁻² s⁻¹. Contiguous diffraction frames were collected every 0.5° from each crystal by continuously rotating the sample stage at a goniometer rotation speed of 1° s⁻¹; the sample stage was rotated from −40° to 40° for the first crystal (crystal 1) and from −60° to 60° for the second crystal (crystal 2). The structure was refined kinematically. Refinement with SHELXL was carried out using the scattering factors for electron diffraction (Saha et al., 2022 ). Pseudo-merohedric twinning was identified and refined as described by Parkin (2021 ). For absolute structure determination, dynamical refinement is required. However, it was not performed since the absolute configuration of quabodepistat, which has two stereocenters, is known. Extinction was high because of the dynamical effects of electron diffraction (Saha et al., 2022). In spite of the presence of some unusual bond lengths and angles, no unusual intermolecular contacts are observed. This indicates that the structural model presented is correct.

Table 2
Experimental details

Crystal data
Chemical formula	C₂₁H₂₀ClF₃N₂O₄·C₇H₆O₄
M_r	610.96
Crystal system, space group	Monoclinic, P2₁
Temperature (K)	293
a, b, c (Å)	5.6 (3), 9.6 (3), 28.2 (3)
β (°)	90.30 (9)
V (Å³)	1516 (109)
Z	2
Radiation type	Electron, λ = 0.0251 Å
Crystal size (μm)	1.0 × 0.2 × 0.2

Data collection
Diffractometer	Rigaku XtaLAB Synergy-ED
No. of measured, independent and observed [I > 2σ(I)] reflections	8548, 4096, 2030
R_int	0.149
θ_max (°)	0.8
(sin θ/λ)_max (Å⁻¹)	0.556

Refinement
R[F² > 2σ(F²)], wR(F²), S	0.160, 0.480, 1.08
No. of reflections	4096
No. of parameters	348
No. of restraints	537
H-atom treatment	H-atom parameters constrained
Δρ_max, Δρ_min (e Å⁻³)	0.15, −0.15
Computer programs: CrysAlis PRO (Rigaku OD, 2022 $[Rigaku OD (2022). CrysAlis PRO. Rigaku Oxford Diffraction, Yarnton, England.]$ ), SHELXD (Sheldrick, 2008 ), SHELXL2018/3 (Sheldrick, 2015 ) and OLEX2 (Dolomanov et al., 2009 ).

Supporting information

CCDC reference: 2205804

Link https://doi.org/10.5281/zenodo.7156704
Deposit the raw data into Zenodo

Link https://dx.doi.org/10.5517/ccdc.csd.cc2d19zr
Deposit the raw data into CCDC

Crystal structure: contains datablocks global, I. DOI: https://doi.org/10.1107/S2056989023006047/dj2052sup1.cif

Supporting information file. DOI: https://doi.org/10.1107/S2056989023006047/dj2052Isup2.cml

checkCIF report

Computing details top

Data collection: CrysAlis PRO (Rigaku OD, 2022); cell refinement: CrysAlis PRO (Rigaku OD, 2022); data reduction: CrysAlis PRO (Rigaku OD, 2022); program(s) used to solve structure: SHELXD (Sheldrick, 2008); program(s) used to refine structure: SHELXL2018/3 (Sheldrick, 2015); molecular graphics: Olex2 1.5 (Dolomanov et al., 2009); software used to prepare material for publication: Olex2 1.5 (Dolomanov et al., 2009).

5-{[(3R,4R)-1-(4-Chloro-2,6-difluorophenyl)-3,4-dihydroxypiperidin-4-yl]methoxy}-8-fluoro-3,4-dihydroquinolin-2(1H)-one–2,5-dihydroxybenzoic acid (1/1) top

Crystal data top

C₂₁H₂₀ClF₃N₂O₄·C₇H₆O₄	F(000) = 224
M_r = 610.96	D_x = 1.338 Mg m⁻³
Monoclinic, P2₁	Electron radiation, λ = 0.0251 Å
a = 5.6 (3) Å	Cell parameters from 411 reflections
b = 9.6 (3) Å	θ = 0.1–0.8°
c = 28.2 (3) Å	µ = 0.000 mm⁻¹
β = 90.30 (9)°	T = 293 K
V = 1516 (109) Å³	Thin platelets, colourless
Z = 2	1 × 0.2 × 0.2 mm

Data collection top

Rigaku XtaLAB Synergy-ED diffractometer	2030 reflections with I > 2σ(I)
Radiation source: thermionic-emission electron gun	R_int = 0.149
Detector resolution: 10.0 pixels mm^-1	θ_max = 0.8°, θ_min = 0.1°
rotation scans	h = −6→6
8548 measured reflections	k = −10→10
4096 independent reflections	l = −31→31

Refinement top

Refinement on F²	H-atom parameters constrained
Least-squares matrix: full	w = 1/[σ²(F_o²) + (0.2805P)² + 0.170P] where P = (F_o² + 2F_c²)/3
R[F² > 2σ(F²)] = 0.160	(Δ/σ)_max = 0.001
wR(F²) = 0.480	Δρ_max = 0.15 e Å⁻³
S = 1.08	Δρ_min = −0.15 e Å⁻³
4096 reflections	Extinction correction: 'SHELXL2018/3 (Sheldrick, 2015)', Fc^*=kFc[1+0.001xFc²λ³/sin(2θ)]^-1/4
348 parameters	Extinction coefficient: 368 (31)
537 restraints	Absolute structure: All f" are zero, so absolute structure could not be determined
Hydrogen site location: inferred from neighbouring sites

Special details top

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.

Refinement. Refined as a 2-component twin.

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

	x	y	z	U_iso*/U_eq
C2	0.960 (3)	0.5589 (17)	0.7945 (6)	0.070 (5)
C11	0.804 (4)	0.6700 (17)	0.7886 (5)	0.068 (4)
C6	0.660 (3)	0.7121 (17)	0.8261 (6)	0.063 (4)
C5	0.673 (3)	0.6431 (19)	0.8694 (6)	0.072 (5)
C4	0.829 (3)	0.5320 (19)	0.8752 (5)	0.075 (5)
H4	0.837583	0.485853	0.904220	0.090*
C3	0.973 (3)	0.4899 (16)	0.8378 (6)	0.073 (5)
H3	1.077324	0.415597	0.841680	0.087*
C10	0.796 (5)	0.753 (2)	0.7416 (8)	0.069 (5)
H10A	0.957975	0.785032	0.735893	0.083*
H10B	0.759602	0.686397	0.716684	0.083*
C9	0.631 (5)	0.878 (3)	0.7338 (10)	0.075 (5)
H9A	0.528342	0.859999	0.706630	0.090*
H9B	0.726751	0.959210	0.726908	0.090*
C8	0.476 (5)	0.906 (3)	0.7778 (9)	0.068 (5)
N7	0.479 (5)	0.824 (2)	0.8206 (10)	0.067 (5)
H7	0.359249	0.842859	0.846624	0.080*
C32	0.785 (2)	0.0552 (14)	0.9171 (6)	0.053 (4)
C37	0.611 (3)	0.1500 (15)	0.9033 (5)	0.054 (4)
H37	0.608891	0.184541	0.872468	0.065*
C36	0.440 (2)	0.1933 (15)	0.9357 (6)	0.057 (5)
C35	0.443 (2)	0.1417 (17)	0.9818 (6)	0.059 (5)
H35	0.327933	0.170661	1.003412	0.071*
C34	0.617 (3)	0.0469 (18)	0.9955 (5)	0.064 (5)
H34	0.619200	0.012343	1.026363	0.076*
C33	0.789 (2)	0.0036 (15)	0.9632 (6)	0.059 (4)
O40	1.128 (4)	−0.085 (2)	0.8909 (11)	0.069 (6)
C15	1.307 (4)	0.340 (2)	0.7081 (11)	0.081 (5)
C38	0.975 (3)	0.005 (2)	0.8818 (8)	0.053 (4)
O42	0.251 (4)	0.291 (2)	0.9211 (10)	0.061 (6)
H42	0.156468	0.302044	0.943037	0.092*
C14	1.241 (6)	0.397 (3)	0.7565 (12)	0.082 (5)
H14A	1.151605	0.326933	0.773690	0.099*
H14B	1.386475	0.415660	0.774296	0.099*
O12	0.319 (5)	1.000 (2)	0.7774 (9)	0.075 (7)
O41	0.958 (4)	−0.099 (2)	0.9792 (11)	0.076 (7)
H41	1.043887	−0.121798	0.956939	0.114*
F13	0.511 (6)	0.688 (2)	0.9048 (10)	0.079 (7)
O1	1.104 (4)	0.520 (2)	0.7540 (12)	0.077 (5)
O39	0.968 (4)	0.071 (2)	0.8400 (11)	0.066 (5)
H39	1.072100	0.039139	0.822607	0.099*
C17	1.138 (5)	0.243 (2)	0.6290 (10)	0.090 (6)
H17A	1.232176	0.158593	0.628400	0.108*
H17B	0.988301	0.225125	0.612765	0.108*
O21	0.972 (5)	0.185 (3)	0.7110 (12)	0.098 (8)
H21	0.828359	0.200591	0.711408	0.148*
C20	1.438 (5)	0.447 (2)	0.6775 (10)	0.089 (6)
H20A	1.346328	0.532911	0.678027	0.106*
H20B	1.591213	0.466927	0.692442	0.106*
O22	1.469 (3)	0.224 (2)	0.7149 (14)	0.083 (7)
H22	1.401436	0.161832	0.729667	0.125*
C16	1.087 (4)	0.283 (2)	0.6810 (9)	0.083 (5)
H16	0.976517	0.361826	0.679004	0.100*
C23	1.265 (6)	0.344 (3)	0.5511 (9)	0.131 (7)
C28	1.434 (5)	0.264 (3)	0.5280 (10)	0.150 (8)
C27	1.440 (5)	0.261 (3)	0.4787 (10)	0.164 (9)
H27	1.553704	0.206657	0.463185	0.197*
C26	1.277 (6)	0.339 (4)	0.4525 (9)	0.170 (9)
C25	1.108 (5)	0.419 (3)	0.4756 (10)	0.162 (9)
H25	0.998639	0.471406	0.458099	0.194*
C24	1.102 (5)	0.422 (3)	0.5249 (10)	0.148 (8)
Cl31	1.268 (6)	0.322 (4)	0.3905 (9)	0.215 (12)
F29	0.929 (10)	0.501 (5)	0.548 (2)	0.172 (14)
F30	1.615 (9)	0.176 (5)	0.551 (2)	0.158 (13)
C19	1.485 (4)	0.410 (3)	0.6254 (10)	0.092 (6)
H19A	1.534890	0.492210	0.608241	0.111*
H19B	1.612402	0.341921	0.623696	0.111*
N18	1.268 (5)	0.353 (3)	0.6034 (11)	0.101 (5)

Atomic displacement parameters (Å²) top

	U¹¹	U²²	U³³	U¹²	U¹³	U²³
C2	0.078 (9)	0.057 (8)	0.076 (10)	0.029 (7)	0.010 (9)	0.005 (8)
C11	0.085 (9)	0.056 (8)	0.062 (9)	0.030 (7)	0.008 (8)	0.011 (7)
C6	0.087 (9)	0.043 (7)	0.059 (9)	0.034 (7)	0.009 (8)	0.015 (7)
C5	0.088 (10)	0.063 (9)	0.066 (10)	0.037 (8)	0.007 (9)	0.024 (8)
C4	0.081 (11)	0.069 (10)	0.074 (11)	0.037 (8)	0.002 (10)	0.020 (9)
C3	0.082 (11)	0.059 (9)	0.076 (11)	0.032 (9)	0.002 (10)	0.008 (8)
C10	0.089 (10)	0.058 (9)	0.060 (10)	0.031 (8)	0.009 (10)	0.011 (8)
C9	0.096 (11)	0.067 (9)	0.062 (11)	0.040 (9)	0.015 (10)	0.018 (9)
C8	0.090 (10)	0.058 (8)	0.055 (10)	0.045 (8)	0.011 (9)	0.013 (8)
N7	0.096 (10)	0.045 (8)	0.059 (10)	0.040 (8)	0.015 (9)	0.009 (7)
C32	0.051 (7)	0.050 (7)	0.057 (9)	0.005 (6)	0.002 (7)	−0.002 (7)
C37	0.055 (8)	0.052 (8)	0.055 (10)	0.010 (7)	0.008 (8)	−0.004 (8)
C36	0.049 (8)	0.064 (9)	0.059 (10)	0.015 (7)	0.004 (8)	−0.004 (8)
C35	0.052 (9)	0.063 (9)	0.062 (10)	0.001 (7)	0.009 (9)	0.003 (9)
C34	0.064 (9)	0.063 (9)	0.064 (10)	0.000 (8)	0.004 (9)	0.012 (9)
C33	0.061 (8)	0.053 (8)	0.065 (10)	−0.004 (7)	0.006 (8)	0.009 (8)
O40	0.047 (10)	0.078 (12)	0.083 (17)	0.016 (9)	0.025 (12)	0.016 (12)
C15	0.062 (8)	0.062 (8)	0.118 (11)	0.038 (7)	0.019 (9)	0.020 (8)
C38	0.044 (8)	0.053 (9)	0.063 (10)	0.001 (7)	0.001 (8)	−0.008 (8)
O42	0.048 (10)	0.065 (11)	0.072 (16)	0.022 (8)	0.004 (12)	−0.005 (11)
C14	0.072 (10)	0.059 (9)	0.116 (12)	0.033 (9)	0.018 (10)	0.011 (9)
O12	0.106 (15)	0.062 (11)	0.058 (15)	0.059 (11)	0.015 (13)	0.020 (11)
O41	0.087 (14)	0.055 (10)	0.087 (17)	0.001 (9)	0.013 (14)	0.024 (12)
F13	0.134 (17)	0.045 (9)	0.059 (14)	0.041 (11)	0.023 (13)	0.025 (10)
O1	0.071 (9)	0.057 (8)	0.103 (12)	0.030 (8)	0.018 (10)	0.007 (9)
O39	0.046 (10)	0.084 (12)	0.069 (13)	0.001 (10)	0.000 (11)	0.005 (11)
C17	0.075 (10)	0.072 (10)	0.124 (13)	0.041 (9)	0.019 (11)	0.018 (10)
O21	0.068 (12)	0.092 (14)	0.14 (2)	0.016 (10)	0.013 (15)	0.031 (14)
C20	0.074 (10)	0.067 (9)	0.125 (13)	0.034 (8)	0.020 (11)	0.026 (10)
O22	0.049 (10)	0.057 (10)	0.14 (2)	0.036 (9)	0.027 (13)	0.012 (12)
C16	0.062 (9)	0.065 (9)	0.122 (12)	0.039 (8)	0.019 (10)	0.018 (9)
C23	0.123 (13)	0.128 (12)	0.143 (14)	0.041 (12)	0.019 (14)	0.012 (13)
C28	0.146 (15)	0.149 (15)	0.154 (16)	0.043 (14)	0.018 (16)	−0.007 (15)
C27	0.165 (16)	0.162 (16)	0.166 (18)	0.041 (15)	0.017 (18)	−0.011 (17)
C26	0.174 (16)	0.168 (16)	0.168 (17)	0.040 (15)	0.015 (18)	−0.007 (16)
C25	0.161 (16)	0.159 (16)	0.165 (18)	0.040 (15)	0.015 (18)	0.005 (17)
C24	0.144 (15)	0.146 (15)	0.153 (17)	0.045 (14)	0.018 (16)	0.012 (15)
Cl31	0.23 (2)	0.22 (2)	0.19 (2)	0.06 (2)	0.01 (2)	−0.01 (2)
F29	0.17 (3)	0.18 (3)	0.16 (3)	0.05 (2)	0.02 (3)	0.02 (2)
F30	0.16 (2)	0.14 (2)	0.17 (3)	0.05 (2)	0.01 (3)	−0.05 (2)
C19	0.078 (11)	0.072 (10)	0.127 (13)	0.041 (9)	0.025 (12)	0.030 (11)
N18	0.088 (10)	0.090 (10)	0.126 (12)	0.035 (9)	0.022 (11)	0.023 (10)

Geometric parameters (Å, º) top

C2—C11	1.3900	C15—O22	1.45 (5)
C2—C3	1.3900	C15—C16	1.54 (6)
C2—O1	1.45 (4)	C38—O39	1.34 (4)
C11—C6	1.3900	O42—H42	0.8200
C11—C10	1.55 (2)	C14—H14A	0.9700
C6—C5	1.3900	C14—H14B	0.9700
C6—N7	1.49 (6)	C14—O1	1.41 (5)
C5—C4	1.3900	O41—H41	0.8200
C5—F13	1.42 (5)	O39—H39	0.8200
C4—H4	0.9300	C17—H17A	0.9700
C4—C3	1.3900	C17—H17B	0.9700
C3—H3	0.9300	C17—C16	1.54 (2)
C10—H10A	0.9700	C17—N18	1.47 (4)
C10—H10B	0.9700	O21—H21	0.8200
C10—C9	1.53 (5)	O21—C16	1.42 (3)
C9—H9A	0.9700	C20—H20A	0.9700
C9—H9B	0.9700	C20—H20B	0.9700
C9—C8	1.54 (4)	C20—C19	1.53 (2)
C8—N7	1.44 (4)	O22—H22	0.8200
C8—O12	1.26 (5)	C16—H16	0.9800
N7—H7	1.0100	C23—C28	1.3900
C32—C37	1.3900	C23—C24	1.3900
C32—C33	1.3900	C23—N18	1.47 (4)
C32—C38	1.53 (5)	C28—C27	1.3900
C37—H37	0.9300	C28—F30	1.46 (7)
C37—C36	1.3900	C27—H27	0.9300
C36—C35	1.3900	C27—C26	1.3900
C36—O42	1.47 (6)	C26—C25	1.3900
C35—H35	0.9300	C26—Cl31	1.75 (3)
C35—C34	1.3900	C25—H25	0.9300
C34—H34	0.9300	C25—C24	1.3900
C34—C33	1.3900	C24—F29	1.40 (7)
C33—O41	1.44 (5)	C19—H19A	0.9700
O40—C38	1.24 (5)	C19—H19B	0.9700
C15—C14	1.52 (4)	C19—N18	1.46 (6)
C15—C20	1.54 (4)

C11—C2—C3	120.0	O40—C38—C32	124 (3)
C11—C2—O1	117 (2)	O40—C38—O39	122 (2)
C3—C2—O1	123 (2)	O39—C38—C32	114 (2)
C2—C11—C10	120.8 (16)	C36—O42—H42	109.5
C6—C11—C2	120.0	C15—C14—H14A	108.9
C6—C11—C10	119.2 (19)	C15—C14—H14B	108.9
C11—C6—N7	122 (2)	H14A—C14—H14B	107.7
C5—C6—C11	120.0	O1—C14—C15	113 (3)
C5—C6—N7	117.9 (18)	O1—C14—H14A	108.9
C6—C5—C4	120.0	O1—C14—H14B	108.9
C6—C5—F13	116 (2)	C33—O41—H41	109.5
C4—C5—F13	124 (2)	C14—O1—C2	119 (3)
C5—C4—H4	120.0	C38—O39—H39	109.5
C3—C4—C5	120.0	H17A—C17—H17B	107.9
C3—C4—H4	120.0	C16—C17—H17A	109.1
C2—C3—H3	120.0	C16—C17—H17B	109.1
C4—C3—C2	120.0	N18—C17—H17A	109.1
C4—C3—H3	120.0	N18—C17—H17B	109.1
C11—C10—H10A	106.6	N18—C17—C16	112 (2)
C11—C10—H10B	106.6	C16—O21—H21	109.5
H10A—C10—H10B	106.6	C15—C20—H20A	107.9
C9—C10—C11	123 (2)	C15—C20—H20B	107.9
C9—C10—H10A	106.6	H20A—C20—H20B	107.2
C9—C10—H10B	106.6	C19—C20—C15	117 (2)
C10—C9—H9A	109.3	C19—C20—H20A	107.9
C10—C9—H9B	109.3	C19—C20—H20B	107.9
C10—C9—C8	111 (3)	C15—O22—H22	109.5
H9A—C9—H9B	108.0	C15—C16—H16	105.0
C8—C9—H9A	109.3	C17—C16—C15	114 (3)
C8—C9—H9B	109.3	C17—C16—H16	105.0
N7—C8—C9	125 (2)	O21—C16—C15	107 (3)
O12—C8—C9	121 (3)	O21—C16—C17	119 (3)
O12—C8—N7	114 (3)	O21—C16—H16	105.0
C6—N7—H7	120.4	C28—C23—C24	120.0
C8—N7—C6	119 (3)	C28—C23—N18	120 (2)
C8—N7—H7	120.4	C24—C23—N18	120 (2)
C37—C32—C33	120.0	C23—C28—C27	120.0
C37—C32—C38	121 (2)	C23—C28—F30	126 (3)
C33—C32—C38	119.1 (19)	C27—C28—F30	114 (3)
C32—C37—H37	120.0	C28—C27—H27	120.0
C36—C37—C32	120.0	C26—C27—C28	120.0
C36—C37—H37	120.0	C26—C27—H27	120.0
C37—C36—C35	120.0	C27—C26—Cl31	119.7 (11)
C37—C36—O42	120 (3)	C25—C26—C27	120.0
C35—C36—O42	119.6 (18)	C25—C26—Cl31	120.1 (13)
C36—C35—H35	120.0	C26—C25—H25	120.0
C34—C35—C36	120.0	C26—C25—C24	120.0
C34—C35—H35	120.0	C24—C25—H25	120.0
C35—C34—H34	120.0	C23—C24—F29	120 (4)
C35—C34—C33	120.0	C25—C24—C23	120.0
C33—C34—H34	120.0	C25—C24—F29	120 (3)
C32—C33—O41	122.8 (19)	C20—C19—H19A	109.6
C34—C33—C32	120.0	C20—C19—H19B	109.6
C34—C33—O41	117 (3)	H19A—C19—H19B	108.1
C14—C15—C20	112 (3)	N18—C19—C20	110 (3)
C14—C15—C16	112 (3)	N18—C19—H19A	109.6
C20—C15—C16	110 (3)	N18—C19—H19B	109.6
O22—C15—C14	109 (3)	C17—N18—C23	116 (3)
O22—C15—C20	107 (4)	C19—N18—C17	118 (3)
O22—C15—C16	107 (4)	C19—N18—C23	117 (3)

C2—C11—C6—C5	0.0	C14—C15—C16—C17	172 (2)
C2—C11—C6—N7	−176 (2)	C14—C15—C16—O21	−54 (3)
C2—C11—C10—C9	−179 (2)	O12—C8—N7—C6	−178 (2)
C11—C2—C3—C4	0.0	F13—C5—C4—C3	176 (2)
C11—C2—O1—C14	−172 (2)	O1—C2—C11—C6	179.7 (19)
C11—C6—C5—C4	0.0	O1—C2—C11—C10	−3 (2)
C11—C6—C5—F13	−177 (2)	O1—C2—C3—C4	−180 (2)
C11—C6—N7—C8	−10 (3)	C20—C15—C14—O1	56 (4)
C11—C10—C9—C8	−1 (4)	C20—C15—C16—C17	46 (3)
C6—C11—C10—C9	−2 (4)	C20—C15—C16—O21	−180 (2)
C6—C5—C4—C3	0.0	C20—C19—N18—C17	−48 (3)
C5—C6—N7—C8	174 (2)	C20—C19—N18—C23	165 (2)
C5—C4—C3—C2	0.0	O22—C15—C14—O1	174 (2)
C3—C2—C11—C6	0.0	O22—C15—C20—C19	69 (3)
C3—C2—C11—C10	177 (2)	O22—C15—C16—C17	−70 (3)
C3—C2—O1—C14	8 (3)	O22—C15—C16—O21	65 (3)
C10—C11—C6—C5	−177 (2)	C16—C15—C14—O1	−69 (4)
C10—C11—C6—N7	7 (2)	C16—C15—C20—C19	−46 (3)
C10—C9—C8—N7	−2 (4)	C16—C17—N18—C23	−163 (3)
C10—C9—C8—O12	−176 (3)	C16—C17—N18—C19	51 (4)
C9—C8—N7—C6	7 (5)	C23—C28—C27—C26	0.0
N7—C6—C5—C4	176 (2)	C28—C23—C24—C25	0.0
N7—C6—C5—F13	−1 (2)	C28—C23—C24—F29	178.7 (11)
C32—C37—C36—C35	0.0	C28—C23—N18—C17	−86 (5)
C32—C37—C36—O42	−178.6 (16)	C28—C23—N18—C19	61 (5)
C37—C32—C33—C34	0.0	C28—C27—C26—C25	0.0
C37—C32—C33—O41	177.5 (17)	C28—C27—C26—Cl31	−174 (3)
C37—C32—C38—O40	−175.6 (19)	C27—C26—C25—C24	0.0
C37—C32—C38—O39	6 (2)	C26—C25—C24—C23	0.0
C37—C36—C35—C34	0.0	C26—C25—C24—F29	−178.7 (11)
C36—C35—C34—C33	0.0	C24—C23—C28—C27	0.0
C35—C34—C33—C32	0.0	C24—C23—C28—F30	−179 (3)
C35—C34—C33—O41	−177.7 (17)	C24—C23—N18—C17	97 (5)
C33—C32—C37—C36	0.0	C24—C23—N18—C19	−116 (4)
C33—C32—C38—O40	4 (3)	Cl31—C26—C25—C24	174 (3)
C33—C32—C38—O39	−174.3 (16)	F30—C28—C27—C26	179 (3)
C15—C14—O1—C2	159 (2)	N18—C17—C16—C15	−49 (3)
C15—C20—C19—N18	47 (3)	N18—C17—C16—O21	−177 (2)
C38—C32—C37—C36	179.5 (14)	N18—C23—C28—C27	−177 (3)
C38—C32—C33—C34	−179.5 (14)	N18—C23—C28—F30	4 (3)
C38—C32—C33—O41	−2 (2)	N18—C23—C24—C25	177 (3)
O42—C36—C35—C34	178.6 (16)	N18—C23—C24—F29	−5 (3)
C14—C15—C20—C19	−172 (2)

Hydrogen-bond geometry (Å, º) top

D—H···A	D—H	H···A	D···A	D—H···A
C3—H3···O42ⁱ	0.93	2.71	3.40 (7)	131
C9—H9B···O22ⁱⁱ	0.97	2.94	3.49 (11)	117
N7—H7···O40ⁱⁱ	1.01	1.93	2.93 (9)	169
C34—H34···O42ⁱⁱⁱ	0.93	2.69	3.48 (7)	143
O42—H42···O41^iv	0.82	2.48	3.23 (6)	152
O39—H39···O12^v	0.82	1.92	2.73 (10)	169
O21—H21···O22^vi	0.82	2.02	2.84 (18)	175
O22—H22···O12^v	0.82	2.11	2.90 (7)	164

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

Acknowledgements

The authors thank Dr Yamano (Rigaku Corporation) for technical advice on microED. The authors also thank Dr Kawato (Otsuka Pharmaceutical Co., Ltd.) for helpful discussions of the single-crystal structure.

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