On the photoluminescence in triarylmethyl-centered mono-, di-, and multiradicals

• Daniel Straub,
• Markus Gross,
• Mona E. Arnold,
• Julia Zolg and
• Alexander J. C. Kuehne

Beilstein J. Org. Chem. 2025, 21, 964–998, doi:10.3762/bjoc.21.80

Dicarboxylate recognition based on ultracycle hosts through cooperative hydrogen bonding and anion–π interactions

• Wen-Hui Mi,
• Teng-Yu Huang,
• Xu-Dong Wang,
• Yu-Fei Ao,
• Qi-Qiang Wang and
• De-Xian Wang

Beilstein J. Org. Chem. 2025, 21, 884–889, doi:10.3762/bjoc.21.72

• ) Crystal structure of B4aH (hydrogen atoms are omitted for clarity), and (c) the stacking structure of the crystal of B4aH (the blue dotted lines represent hydrogen bonds). (a) The structures of host and guests, (b) 1H NMR spectra (298 K, 400 MHz, CD3CN) of B4aH upon titration with C62− (c(B4aH) = 1 mM

Unraveling cooperative interactions between complexed ions in dual-host strategy for cesium salt separation

• Zhihua Liu,
• Ya-Zhi Chen,
• Ji Wang,
• Qingling Nie,
• Wei Zhao and
• Biao Wu

Beilstein J. Org. Chem. 2025, 21, 845–853, doi:10.3762/bjoc.21.68

• -pairing) could be enhanced along with the charge of the anion and its binding affinity with L (from Cl– to CO32–, and PO43–). Notably, for the first time, direct ion-pairing between receptor-complexed phosphate and 18-crown-6 complexed cesium was observed in the single crystal structure, facilitating

• interaction in nonpolar solvent could be stronger than that in polar solvent [45][46][47][48]. The ion-dipole interaction between complexed Cs+ cation and receptor–sulfate complex was first identified by single crystal structure analysis (Figure 2). The overall stoichiometry of L, 18-crown-6, Cs+, and SO42

• understand cooperative interactions between complexed ions, we tried to grow the crystal structure of studied salts. Fortunately, single crystals of Cs2CO3 and Cs3PO4 complexes were obtained by slow vapor diffusion from acetonitrile and diethyl ether. Notably, clearly stronger ion-dipole interactions of

Development and mechanistic studies of calcium–BINOL phosphate-catalyzed hydrocyanation of hydrazones

• Carola Tortora,
• Christian A. Fischer,
• Sascha Kohlbauer,
• Alexandru Zamfir,
• Gerd M. Ballmann,
• Jürgen Pahl,
• Sjoerd Harder and
• Svetlana B. Tsogoeva

Beilstein J. Org. Chem. 2025, 21, 755–765, doi:10.3762/bjoc.21.59

• situ generation of the calcium complex, as known from, e.g., Posner's well-defined colloidal calcium phosphates [60]. Crystal structure of the calcium diphenyl phosphate complex 4. Hydrogen atoms are omitted for clarity. Selected bond lengths (in Å) and angle: Ca1–O4 2.2510(13), Ca1–O6 2.4004(14), Ca1

Synthesis of HBC fluorophores with an electrophilic handle for covalent attachment to Pepper RNA

• Raphael Bereiter and
• Ronald Micura

Beilstein J. Org. Chem. 2025, 21, 727–735, doi:10.3762/bjoc.21.56

• fluorophore derivatives bind the Pepper aptamer with affinities in the low nanomolar range [12]. Crystal structure analyses revealed that in the ligand binding pocket, a characteristic hydrogen bond is formed between the hydroxy group of the N-hydroxyethyl substituent of HBC and the N7 of G41 [12][13]. We

Acyclic cucurbit[n]uril bearing alkyl sulfate ionic groups

• Christian Akakpo,
• Peter Y. Zavalij and
• Lyle Isaacs

Beilstein J. Org. Chem. 2025, 21, 717–726, doi:10.3762/bjoc.21.55

• alkyl sulfate ionic groups. The X-ray crystal structure of the C1·Me6CHDA complex is reported. Host C1 is significantly less soluble in water (4 mM) compared to the analogous acyclic CB[n] host M1 which features sulfonate ionic groups (346 mM). Host C1 does not undergo significant self-association

• spectroscopic characterization of C1 along with determination of its inherent aqueous solubility and self-association properties. Next, we present the X-ray crystal structure of C1 as its C1·Me6CHDA complex. Subsequently, we describe a qualitative investigation of C1·guest and M1·guest complexation by 1H NMR

• hydrophobic region of the guest which changes the orientation of Ha with respect to the magnetically shielding region [54][63][64]. X-ray crystal structure of C1 We were fortunate to obtain single crystals of the C1·Me6CHDA complex and solved the crystal structure by X-ray diffraction (CCDC 2411723). Figure 5

Photocatalyzed elaboration of antibody-based bioconjugates

• Marine Le Stum,
• Eugénie Romero and
• Gary A. Molander

Beilstein J. Org. Chem. 2025, 21, 616–629, doi:10.3762/bjoc.21.49

• such methods are generally reported with a heterogeneous DAR, the group developed a site-specific approach leading to a homogeneous DAR 2, thanks to a photoreactive Fc-binding peptide derivative (pFcBP) containing a photoleucine (pLeu) [46]. By analyzing the X-ray crystal structure of IgG, the

Study of the interaction of 2H-furo[3,2-b]pyran-2-ones with nitrogen-containing nucleophiles

• Constantine V. Milyutin,
• Andrey N. Komogortsev and
• Boris V. Lichitsky

Beilstein J. Org. Chem. 2025, 21, 556–563, doi:10.3762/bjoc.21.44

• Supporting Information File 2: General information, characterization data, NMR spectra and crystallographic data of synthesized compounds. Acknowledgements Crystal structure determination was performed in the Department of Structural Studies of Zelinsky Institute of Organic Chemistry, Moscow.

Unprecedented visible light-initiated topochemical [2 + 2] cycloaddition in a functionalized bimane dye

• Metodej Dvoracek,
• Brendan Twamley,
• Mathias O. Senge and
• Mikhail A. Filatov

Beilstein J. Org. Chem. 2025, 21, 500–509, doi:10.3762/bjoc.21.37

• E. M. Kosower in 1978. In this study, we report the topochemical cycloaddition of diethyl 2,6-dichloro-1,7-dioxo-1H,7H-pyrazolo[1,2-a]pyrazole-3,5-dicarboxylate (Cl2B), initiated by visible light. Crystal structure analysis confirmed that the reactive double bonds are parallel and coplanar, in line

• purification, the 1H NMR of Cl2B showed 6% of an impurity, possibly the anti-isomer. Further purification of Cl2B reduced the impurity content to less than 3%. Topochemical photocycloaddition Upon examining the crystal structure of our first sample of Cl2B, Cl2B (A), we observed that the compound had undergone

Beyond symmetric self-assembly and effective molarity: unlocking functional enzyme mimics with robust organic cages

• Keith G. Andrews

Beilstein J. Org. Chem. 2025, 21, 421–443, doi:10.3762/bjoc.21.30

• steric clash is thought to contribute to the increased cage axial twist and reduced cavity height observed in the crystal structure [39]. Thus the cages have “micro-flexibility” of the sort that can finetune enzyme-like transition-state binding, and perhaps even satisfy Sanders, who has lamented the lack

Synthesis, structure, ionochromic and cytotoxic properties of new 2-(indolin-2-yl)-1,3-tropolones

• Yurii A. Sayapin,
• Eugeny A. Gusakov,
• Inna O. Tupaeva,
• Alexander D. Dubonosov,
• Igor V. Dorogan,
• Valery V. Tkachev,
• Anna S. Goncharova,
• Gennady V. Shilov,
• Natalia S. Kuznetsova,
• Svetlana Y. Filippova,
• Tatyana A. Krasnikova,
• Yanis A. Boumber,
• Alexey Y. Maksimov,
• Sergey M. Aldoshin and
• Vladimir I. Minkin

Beilstein J. Org. Chem. 2025, 21, 358–368, doi:10.3762/bjoc.21.26

• with F2 > 4σ(F2). The structure was solved with the direct method and was refined by the full-matrix least-squares procedure (LSP) with respect to F2 in anisotropic approximation for non-hydrogen atoms (hydrogen atoms isotropic) using the SHELXTL program. In the crystal structure, most of the H atoms

Synthesis of new condensed naphthoquinone, pyran and pyrimidine furancarboxylates

• Kirill A. Gomonov,
• Vasilii V. Pelipko,
• Igor A. Litvinov,
• Ilya A. Pilipenko,
• Anna M. Stepanova,
• Nikolai A. Lapatin,
• Ruslan I. Baichurin and
• Sergei V. Makarenko

Beilstein J. Org. Chem. 2025, 21, 340–347, doi:10.3762/bjoc.21.24

• deposited in the Cambridge Crystal Structure Data Bank (CCDC 5a: 2403284; CCDC 5b: 2403285; CCDC 6b: 2403316; CCDC 6c: 2403286; CCDC 7a: 2403287). Statistics on the collection of X-ray diffraction data and refinement of the structure are shown in Table S1 in Supporting Information File 1. Approaches to the

Molecular diversity of the reactions of MBH carbonates of isatins and various nucleophiles

• Zi-Ying Xiao,
• Jing Sun and
• Chao-Guo Yan

Beilstein J. Org. Chem. 2025, 21, 286–295, doi:10.3762/bjoc.21.21

• yields. The single crystal structure of the compound 6e was determined by X-ray diffraction (Figure 3). The similar reaction of more nucleophilic tri(tert-butyl)phosphine and MBH carbonate of isatin resulted in a mixture of products. After carefully screening the reaction conditions, we found that DABCO

• also led to the development of a synthetic protocol for the convenient synthesis of 30 diversely substituted oxindole derivatives. Single crystal structure of compound 5a. Single crystal structure of compound 5j. Single crystal structure of compound 6e. Single crystal structure of compound 7a. Single

• crystal structure of compound 8a. Reaction of arylamines and MBH carbonates of isatins. Reaction conditions: MBH carbonate of isatin (0.1 mmol), aromatic amine (0.1 mmol), DMAP (0.02 mmol, 20 mol %), toluene (5.0 mL), rt, 1 h; yields refer to isolated yields. Reaction of arylamines and MBH maleimides of

Synthesis and characterizations of highly luminescent 5-isopropoxybenzo[rst]pentaphene

• Islam S. Marae,
• Jingyun Tan,
• Rengo Yoshioka,
• Zakaria Ziadi,
• Eugene Khaskin,
• Serhii Vasylevskyi,
• Ryota Kabe,
• Xiushang Xu and
• Akimitsu Narita

Beilstein J. Org. Chem. 2025, 21, 270–276, doi:10.3762/bjoc.21.19

• micrometers, as demonstrated by SEM. These results provide not only an easy access to highly emissive BPP derivatives with potential as organic fluorescent materials, but also an insight to design derivatives of other PAHs with enhanced fluorescence and charge transfer character. Single crystal structure of

Heteroannulations of cyanoacetamide-based MCR scaffolds utilizing formamide

• Marios Zingiridis,
• Danae Papachristodoulou,
• Despoina Menegaki,
• Konstantinos G. Froudas and
• Constantinos G. Neochoritis

Beilstein J. Org. Chem. 2025, 21, 217–225, doi:10.3762/bjoc.21.13

• was observed at an average wavelength of 384 nm for 5a–e, 439 nm for 6a–e and 430 nm for 7a–e (see Supporting Information File 1 for detailed information). In support of the proposed scaffold 7b, we were able to solve its crystal structure (Figure 3). An intermolecular bifurcated hydrogen bond network

• pyrimidine scaffold. Representative fluorescence spectrum of compounds 5b (λex = 330 nm) and 6e (λex = 430 nm) at 0.2 M in DMSO. Molecular geometry observed within the crystal structure of compound 7b (CCDC 2376493). Strategies towards targeted adducts: A) Niementowski quinazoline synthesis utilizing

Hydrogen-bonded macrocycle-mediated dimerization for orthogonal supramolecular polymerization

• Wentao Yu,
• Zhiyao Yang,
• Chengkan Yu,
• Xiaowei Li and
• Lihua Yuan

Beilstein J. Org. Chem. 2025, 21, 179–188, doi:10.3762/bjoc.21.10

• , particularly π-stacking interactions between the aromatic rings in a parallel fashion from both host and guest, which is demonstrated by the crystal structure of the key element of the recognition motif. Results and Discussion Backdrop for design considerations Our interest in macrocycle-mediated

• structure would also be found in the solid state. Fortunately, single crystals of the complex H1 ⊃ G1 were obtained by slow evaporation of chloroform/acetone solvent (1:1, v/v) into a small amount of methanol over the course of two weeks. Indeed, analysis of the crystal structure of the complex revealed a

Synthesis, structure and π-expansion of tris(4,5-dehydro-2,3:6,7-dibenzotropone)

• Yongming Xiong,
• Xue Lin Ma,
• Shilong Su and
• Qian Miao

Beilstein J. Org. Chem. 2025, 21, 1–7, doi:10.3762/bjoc.21.1

• in the reported crystal structure of 1·CH2Cl2 [22]. The side view of compound 1 indicates that two of its carbonyl groups are oriented upwards while the third one points downwards. Compound 1 comprises three [5]helicenoid moieties, each containing three benzene rings and two seven-membered rings. In

• the helicity of the three [5]helicenoid moieties. This crystal structure is essentially the same as that reported by Jones earlier [1]. Figure 2b illustrates the structure of (P,M,P)-1 with the C2 axis, where one carbonyl group points upward, another downward, and the third one faces forwards

• -membered ring, and one seven-membered ring, and the third one containing three benzene rings and two seven-membered rings. The crystal structure of 3·CH2Cl2 reveals that each unit cell contains a pair of enantiomers, (M,P,M)-3 and (P,M,P)-3, co-crystallized with two molecules of CH2Cl2. Here P and M

Efficient synthesis of fluorinated triphenylenes with enhanced arene–perfluoroarene interactions in columnar mesophases

• Yang Chen,
• Jiao He,
• Hang Lin,
• Hai-Feng Wang,
• Ping Hu,
• Bi-Qin Wang,
• Ke-Qing Zhao and
• Bertrand Donnio

Beilstein J. Org. Chem. 2024, 20, 3263–3273, doi:10.3762/bjoc.20.270

• derivatives and the antiparallel stacking mode into columnar structures stabilized by arene–perfluoroarene intermolecular interactions were confirmed by the single-crystal structure of the alkoxy-free side chain analog, i.e., 1,2,4-trifluoro-3-(perfluorophenyl)triphenylene (F). UV–vis absorption and

• analysis (Figures S1–S32, Supporting Information File 1), and all the results agree with the proposed molecular structures. Single-crystal structure of F Suitable single crystals of compound F for X-ray analysis were obtained by slow evaporation of an ethyl acetate/ethanol solution (Figure 2, and

• Supporting Information File 1, Figures S33, S34 and Tables S1–S3). The crystal structure unequivocally confirms that the reaction pattern between 2Li-BP and perfluorobiphenyl, effectively yielded the desired 1,2,4-trifluoro-3-(perfluorophenyl)triphenylene and that the annulation occurred at the expected

Controlled oligomerization of [1.1.1]propellane through radical polarity matching: selective synthesis of SF₅- and CF₃SF₄-containing [2]staffanes

• Jón Atiba Buldt,
• Wang-Yeuk Kong,
• Yannick Kraemer,
• Masiel M. Belsuzarri,
• Ansh Hiten Patel,
• James C. Fettinger,
• Dean J. Tantillo and
• Cody Ross Pitts

Beilstein J. Org. Chem. 2024, 20, 3134–3143, doi:10.3762/bjoc.20.259

• procedures, characterization data, NMR spectra, computational details, and X-ray crystallographic experimental details. Supporting Information File 16: LTP X-ray crystal structure of compound 3 (2357079.cif), HTP X-ray crystal structure of compound 3 (2357080.cif) and X-ray crystal structure of compound 2 at

Cyclodextrin-based rotaxanes for polymer materials: challenge on simultaneous realization of inexpensive production and defined structures

• Yosuke Akae

Beilstein J. Org. Chem. 2024, 20, 3026–3049, doi:10.3762/bjoc.20.252

• the hydrogen bonding by the primary- or secondary-alcohol groups, as confirmed by theoretical analyses. This structure was consistent with a previously reported X-ray crystal structure analysis of the complex structure comprising α-CD, polyion, and Li+ or Cd2+ [45]. Regarding the small rotaxane

• other synthetic methods: (1) the reaction can proceed on a 100 g scale in a 1 L flask and a 500 mL solution of water, sufficiently indicating the possibility of large-scale material applications; (2) the product contains only head-to-head structured [3]rotaxane, as confirmed by the X-ray crystal

• structure analysis, and is purified by simple precipitation without requiring chromatography; (3) various end-capping agents are available, and well-optimized conditions can ensure a high yield (e.g., 2-methoxyphenyl isocyanate obtains an 85% yield after 3 h of reaction [49]). Owing to such a high-yield

Tailored charge-neutral self-assembled L₂Zn₂ container for taming oxalate

• David Ocklenburg and
• David Van Craen

Beilstein J. Org. Chem. 2024, 20, 3007–3015, doi:10.3762/bjoc.20.250

• well as metalla-bowls [76][77][78][79] resulting in binding constants of log K = 3.60 [76], 4.60 [77], and 3.48 [78] for oxalate binding in methanol. Additionally, a crystal structure of a positively charged copper(II) helicate with encapsulated oxalate was reported in a study with the focus on

Structure and thermal stability of phosphorus-iodonium ylids

• Andrew Greener,
• Stephen P. Argent,
• Coby J. Clarke and
• Miriam L. O’Duill

Beilstein J. Org. Chem. 2024, 20, 2931–2939, doi:10.3762/bjoc.20.245

• charge on this substituent in the hypervalent bond. The long I–X distances (a = 2.758–4.165 Å) are indicative of ionic compounds, with the exception of the cyclic benziodoxolone 2, in which a covalent I–O bond is observed (a = 2.484 Å). We were unable to obtain a crystal structure of the ortho-nitro

• compound 1j. However, a previously reported crystal structure of ylid 3, which also contains an ortho-nitrobenzene substituent, suggests a pseudocyclic structure where the nitro group is coordinating to the iodine centre (a(I–ON) = 2.695 Å) [28], which we propose is likely to be the case in 1j as well. In

• ligand occupies the position trans to the ylid substituent, with the aryl substituent in the equatorial position. Substituents on hypervalent iodine compounds can interconvert via Barry pseudorotation [31] and, interestingly, the crystal structure for compound 1i contains two isomers in its unit cell

The charge transport properties of dicyanomethylene-functionalised violanthrone derivatives

• Sondos A. J. Almahmoud,
• Joseph Cameron,
• Dylan Wilkinson,
• Michele Cariello,
• Claire Wilson,
• Alan A. Wiles,
• Peter J. Skabara and
• Graeme Cooke

Beilstein J. Org. Chem. 2024, 20, 2921–2930, doi:10.3762/bjoc.20.244

• single-crystal X-ray analysis were obtained by slow evaporation of a dichloromethane/isopropanol solution of 3b. The crystal structure of 3b, displayed in Figure 4, shows a very similar twisted conformation of the core of the molecule to that of the related methoxy-substituted structure obtained from

• . Details of the crystal structure of 3b are given in the CIF which can be obtained from the CCDC free of charge CCDC 2128169 from the Cambridge Crystallographic Data Centre [40]. Compound 3c Compound 2c (300 mg, 0.360 mmol) and malononitrile (100 mg, 1.08 mmol) were dissolved in anhydrous chlorobenzene (6

• dihydroxyviolanthrone. Chemical structures of 2b and 3b. Optimised ground state geometries of compounds 2 and 3 calculated using B3LYP/6-311G(d,p) in the gas phase. Views of the crystal structure of 3b (left, shows displacement ellipsoids drawn at 50% probability level, right showing the twisted conformation

Synthesis of pyrrole-fused dibenzoxazepine/dibenzothiazepine/triazolobenzodiazepine derivatives via isocyanide-based multicomponent reactions

• Marzieh Norouzi,
• Mohammad Taghi Nazeri,
• Ahmad Shaabani and
• Behrouz Notash

Beilstein J. Org. Chem. 2024, 20, 2870–2882, doi:10.3762/bjoc.20.241

• studied by X-ray diffraction analysis, and the crystal structure is illustrated in Figure 2 (detailed information can be found in the Supporting Information File 1). The 1H NMR spectrum of product 6f obtained through the I-MCR was investigated and some unexpected chemical shifts were observed at room

• washed with n-hexane and ethyl acetate solvent mixtures (1:3 for 3a and 3d; 2:1 for compounds 5). Representation of distinguished structures of benzodiazepine/benzoxazepine/benzothiazepine with pharmaceutical to electronic applications. The crystal structure of 4h (CCDC 2365305). The DNMR (dynamic

• nuclear magnetic resonance) spectra of compound 6f (DMSO-d6, 300 MHz) at 25–85 °C; spectrum A: 25 °C, spectrum B: 35 °C, spectrum C: 45 °C, spectrum D: 55 °C, spectrum E: 65 °C, spectrum F: 75 °C and spectrum E: 85 °C. The crystal structure of 6a (CCDC2365306). UV–vis absorption for compounds 4a, 6c and

N-Glycosides of indigo, indirubin, and isoindigo: blue, red, and yellow sugars and their cancerostatic activity

• Peter Langer

Beilstein J. Org. Chem. 2024, 20, 2840–2869, doi:10.3762/bjoc.20.240

• not visible, E/Z < 2:98). The configurations were determined by comparison of chemical shifts of our products with those of non-glycosylated indirubin, by the presence of an intramolecular hydrogen bond N–H···O and by crystal structure analysis. In fact, the chemical shifts of the H-4 proton signals

• products with those of non-glycosylated thioindirubin and by crystal structure analysis. As mentioned above for the indirubins, the chemical shifts of the H-4 proton signals are strongly influenced by the anisotropic effect of the carbonyl group resulting in a downfield shift in case of the Z-isomers. In

• with those of non-glycosylated indirubin, by the presence of an intramolecular hydrogen bond N–H···O and by crystal structure analysis. As mentioned above for the indirubins and thioindirubins, the chemical shifts of the H-4 proton signals are strongly influenced by the anisotropic effect of the