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Saturn 724 ccd diffractometer

Manufactured by Rigaku
Sourced in Japan

The Saturn 724+ CCD diffractometer is a laboratory instrument used for single-crystal X-ray diffraction analysis. It is designed to collect high-resolution X-ray diffraction data from single-crystal samples. The Saturn 724+ utilizes a CCD (Charge-Coupled Device) detector to capture the diffraction patterns generated by the interaction of the X-ray beam with the crystal sample.

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8 protocols using saturn 724 ccd diffractometer

1

Structural Characterization of Crystalline Compounds

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Intensity
data of crystals of 13, 5, 78, and 10 were
collected on a Bruker D8 Quest
diffractometer [λ(Mo Kα) = 0.71073 Å]. Intensity
data of 4 were collected on an Oxford Xcalibur S diffractometer.
Intensity data of 9 were collected on a Rigaku Saturn
724+ CCD diffractometer. The structures were solved by direct methods
using SHELXS-9717 (link) and refined using the
SHELXL-2014/7 program (within the WinGX program package).17b ,17c Non-H atoms were refined anisotropically. Some of the lattice solvent
molecules could not be modeled, and hence their contribution to the
intensities was excluded using the SQUEEZE option in PLATON.17d The crystallographic data of 15 and 710 are
provided in Tables S1–S2.
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2

Single-Crystal X-Ray Diffraction Analysis

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The single-crystal X-ray diffraction data for 1-d0, 1-d2, 1-d3, and 1-d5 were collected at varied temperature on a Rigaku Saturn 724+ CCD diffractometer using Mo Kα radiation (λ = 0.71075 Å) from a graphite monochromator. The structures were solved by direct methods and refined by the full-matrix method based on F2 using the SHELX-97 program package56 (link). The H atom in the O–H···O bond was located from the difference Fourier synthesis and isotropically refined without any restraints. It was visualized by using Platon57 . Other H atoms were generated geometrically and refined using a riding model with Uiso = 1.2Ueq (C and N). The D atoms were refined as H atoms. The crystallographic data and selected hydrogen bonds are listed in Supplementary Tables 1 and 2.
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3

X-ray Analysis of Compound 5

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Orange-red block crystals of 5 were obtained from a MeOH solution subjected to slow evaporation in a refrigerator for ca. 3 weeks. Single-crystal X-ray diffraction data were collected by a Rigaku Saturn 724 CCD diffractometer equipped with a multilayer-monochromator and a Mo Kα radiation (λ = 0.71073 Å) (Rigaku Co. Ltd., Japan). The structure was processed by direct methods, followed by Fourier techniques, and refined by SHELXL-97.23 The block crystals of 5 are monoclinic, space group p2(1)/c with cell dimensions a = 7.6992(15) Å, b = 7.9904(16) Å, c = 24.276(5) Å, V = 1489.3(5) Å3, Z = 4, F (000) = 664, and goodness of fit on F2 = 1.051. The R1 and wR2 values were 0.0644 [I > 2σ(I)] and 0.1361 (all data), respectively. Crystallographic data for compound 5 has been deposited with the Cambridge Crystallographic Data Centre as supplementary publication no. CCDC 1497011. Copies of the data can be obtained, free of charge, on application to the CCDC, 12 Union Road, Cambridge CB2 1EZ, U.K. (fax, + 44 (0)-1223-336033; e-mail, deposit@ccdc.cam.ac.uk).
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4

Crystallographic Analysis of Organometallic Compounds

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Crystallographic data and details of structure refinement parameters are summarized in Table 4 and Table 5. The single crystals 14 were grown from a hot acetonitrile solution. The single crystals of 5 were obtained using the slow diffusion method (acetonitrile/ether). Diffraction intensity data were collected with a Rigaku AFC11 with Saturn 724+ CCD diffractometer, and a semiempirical multi-scan absorption correction [41 ] was performed. The structures were solved using SIR97 [42 (link)] by subsequent difference Fourier syntheses and refined by full-matrix least-squares procedures on F2. All non-hydrogen atoms were refined with anisotropic displacement coefficients. Hydrogen atoms were treated as idealized contributions and refined in rigid group model. All software and sources of scattering factors are contained in the SHELXL-97 [43 ] and the SHELXL-2018/3 [44 ] program package. The Cambridge Crystallographic Data Centre (CCDC) deposition numbers of 1–5 and Et4N[Tp*W(CO)3] are included in Table 4 and Table 5.
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5

Single Crystal X-Ray Diffraction of Co3 and Co4

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Single crystal X-ray diffraction analysis of Co3 and Co4 was carried out on a Saturn 724+ CCD diffractometer (Rigaku, Tokyo, Japan) with the graphite-monochromated Mo-Kα radiation (λ = 0.71073 Å) at 173(2) K and cell parameters were obtained by global refinement of the positions of all collected reflections. Intensities were corrected for Lorentz and polarization effects, and an empirical absorption. The structures were solved by direct methods and refined by full-matrix least-squares on F2. All hydrogen atoms were placed in calculated positions. Structural solution of each complex and refinement were performed by SHELXT [67 (link),68 (link)]. In the structural solution of each crystal, two identical structures were found. The solvent molecules which have no effect on the geometry of the main compound were also processed by using SHELXT [67 (link),68 (link)]. All hydrogen atoms and one identical molecule of the complex have been omitted in the ORTEP diagrams for clarity. Crystal data and processing parameters for Co3 and Co4 are summarized in Table 7.
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6

Single Crystal Growth and Structural Analysis

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Single crystals of compound 1, 1c, and 3 were prepared by a slow vapor diffusion of methanol into a concentrated solution of 1 or 1c in chloroform and a slow evaporation of toluene solution of 3 at room temperature. X-ray crystallographic analyses for 1c and 3 was performed on a Rigaku Saturn724+ CCD diffractometer with a graphite-monochromated Mo Kα radiation (λ = 0.71075 Å). The data collection and cell refinement were performed using CrystalClear-SM Expert 2.1 b46 software (Rigaku, 2016). X-ray crystallographic analysis for 1 was performed on a Bruker Single Crystal CCD X-ray Diffractometer (SMART APEX II) with Mo Kα radiation (λ = 0.71073 Å). The data collection and cell refinement were performed using APEX3 software (v2016.9-0, Bruker AXS, 2016). The structure of 1 observed based on the diffraction data was refined as a two-component twin using Olex2 software. The all structures were solved by direct methods (SHELXT) and refined by a full-matrix least-squares techniques against F2 (SHELXL). The all non-hydrogen atoms were refined anisotropically. Hydrogen atoms were placed using AFIX instructions.
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7

Structural Diversification of Transketolase Inhibitors

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To increase the structural diversity and discover more potent inhibitors of transketolase, it is important to design new compounds based on the structures of candidate compounds that have good activities. All reagents and solvents for the syntheses and analyses were of analytical grade and used without further treatment unless otherwise stated. Column chromatography purification was carried out by using silica gel (200~300 mesh). The melting points were measured on an XT-4A apparatus, and are uncorrected. NMR spectra were obtained on an AV-400 spectrometer (Bruker, Rheinstetten, Germany) operating at 400 MHz for 1H NMR and 100 MHz for 13C NMR using CDCl3 or DMSO-d6 as solvents and TMS as the internal standard. The high-resolution mass spectra were recorded on a 6520-QTOF LC/MS (Agilent, Santa Clara, CA, USA) with an ESI source in the positive ion mode. The single-crystal structure was determined on a Saturn 724 CCD diffractometer (Rigaku, Woodlands, TX, USA).
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8

Variable-Temperature Structural Analysis

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Variable-temperature XRD patterns were measured using a Rigaku Saturn 724+ CCD diffractometer with Mo-Kα radiation (λ = 0.71073 Å). Data collection, cell refinement, and data reduction were performed using a Rigaku CrystalClear 1.3.5. The structures were solved by direct methods and refined by the full-matrix method based on F2 using the SHELXTL software package. All non-hydrogen atoms were refined anisotropically and the positions of all the hydrogen atoms were generated geometrically. The CCDC 1978969–1978973 contains the supplementary crystallographic data for this paper.
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