Anti-invasive and cytotoxic evaluation of a (+)-pinoresinol-based semisynthetic library against glioblastoma

• Chen Zhang,
• Kah Yean Lum,
• Jonathan M. White,
• Paul I. Forster,
• Nicholas Booth,
• Sunita A. Ramesh and
• Rohan A. Davis

Beilstein J. Org. Chem. 2026, 22, 691–704, doi:10.3762/bjoc.22.54

• ), which enabled the absolute configuration of 3 to be assigned as 7S,8R,7'S,8'R. Moreover, this is the first report of a crystal structure of (+)-eudesmin (3). In 2015, Lu et al. reported the purification and full characterization of both enantiomers of eudesmin from Acorus tatarinowii, along with the X

Synthesis of depressin, cryptomeridiol and 4-epi-cryptomeridiol enabled by a terpenoid chiral pool-producing platform

• Yao Kong,
• Tao Wang,
• Chen Wang,
• Pengcheng Zhang,
• Yuanning Liu,
• Kaibiao Wang,
• Fen Liu,
• Hongli Jia and
• Zhengren Xu

Beilstein J. Org. Chem. 2026, 22, 683–690, doi:10.3762/bjoc.22.53

• ). Supporting Information Supporting Information File 5: Materials, synthetic methods and copies of NMR spectra for all compounds. Supporting Information File 6: X-ray crystal structure of 16. Funding We are grateful to the National Natural Science Foundation of China (No. 82574274) for the financial support.

Using generative AI to transform peptide hits into small molecule leads

• Joshua Mills and
• Yu Heng Lau

Beilstein J. Org. Chem. 2026, 22, 672–679, doi:10.3762/bjoc.22.51

• experimental co-crystal structure of the bound complex, standard medicinal chemistry principles are used to probe structure–activity relationships (SAR) and determine the key interactions that form a minimal pharmacophore, supported by classical physics-based molecular modelling methods such as molecular

Advantages of PROTACs in achieving selective degradation of homologous protein families

• Luxi Yang,
• Xinfei Mao,
• Jingyi Zhang,
• Jing Shu,
• Wenhai Huang,
• Xiaowu Dong,
• Yinqiao Chen and
• Mingfei Wu

Beilstein J. Org. Chem. 2026, 22, 628–661, doi:10.3762/bjoc.22.49

• et al. reported the "head-to-tail" macrocyclic PROTAC, SHD913 (37) [110]. Based on the crystal structure of the BRD4BD2:MZ1:VHL ternary complex, the authors designed two short-chain linkers for macrocyclization, targeting two critical distances (4.6 Å and 7.1 Å) between the warhead molecule 34 and

• . NanoBRET and ITC experiments indicated that compound 37 induces a stable protein–protein interaction interface between BRD4BD2 and VHL through linker-mediated conformational locking, achieving a cooperativity factor (α) of 117, which is significantly higher than those of compounds 35 and 36. Its co-crystal

• structure revealed that linker b forms hydrophobic interactions with the ZA loop of BRD4BD2 and stabilizes the PPI interface via a conserved salt-bridge network, while linker a acts as a "hinge" to bring the two proteins into proximity. This study systematically elucidated how macrocyclic linker length and

Towards the targeted protein degradation of CK2: design and synthesis of CAM4066-based PROTACs

• Sophie Day-Riley,
• Sona Krajcovicova,
• Aryaman Raj Sokhal,
• Jan L. Venne,
• Paul Brear,
• Marko Hyvönen,
• Benjamin C. Whitehurst,
• Jason S. Carroll and
• David R. Spring

Beilstein J. Org. Chem. 2026, 22, 611–619, doi:10.3762/bjoc.22.47

• broader kinome perturbation. The first design objective was therefore to identify a suitable exit vector for linker attachment that would allow productive E3-ligase recruitment without compromising the established binding geometry of CAM4066. Inspection of the co-crystal structure of 1 bound to CK2α

• on 1 (PDB: 5CU4) and S13 (PDB: 9TTA; please see Supporting Information File 1, section 1.4.18 for the full structure). B) Crystal structure of S13. The map is Fo-Fc contoured at 1.5 σ. C) Isothermal titration calorimetry (ITC) reveals the suitable position for linker vector to attach the E3 ligases

Design and synthesis of an erdafitinib-based selective FGFR2 degrader

• Yumeng Jin,
• Shidong Wang,
• Sihan Pan,
• Shuqi Huang,
• Weichen Zhou,
• Xiaohao Huang,
• Lei Zheng and
• Lingfeng Chen

Beilstein J. Org. Chem. 2026, 22, 583–591, doi:10.3762/bjoc.22.44

• purpose the clinically validated inhibitor erdafitinib as a POI binder that selectively targets FGFR2. Based on the analysis of the co-crystal structure of erdafitinib bound to the FGFR kinase domain (PDB: 5EW8, https://doi.org/10.2210/pdb5EW8/pdb) [30], we observed that the aliphatic amine group is

Molecular tweezer–peptide conjugates disrupt the protein–protein interaction between survivin and histone H3 essential in mitosis

• Catherine Gsell,
• Philipp Rebmann,
• Karina Opara,
• Christine Beuck,
• Peter Bayer,
• David Bier,
• Ingrid R. Vetter and
• Thomas Schrader

Beilstein J. Org. Chem. 2026, 22, 557–567, doi:10.3762/bjoc.22.41

• . demonstrated that survivin contributes most of the binding energy to this critical complex with histone H3 [8]. In 2011, a crystal structure was solved depicting structural details of the H3 N-terminus (1–21) bound by survivin’s BIR domain (Figure 2). Only the first six residues (ARpTKQT) show electron density

• in solution, as shown by the fluorescence polarization measurements where the K121A mutation has drastically reduced affinity. In the new crystal structure, the apolar pyrrolidine of Pro-26 occupies half of the tweezer cavity, while from the opposite side, a density that most likely corresponds to a

• + ions that were surprisingly observed in the center of the aromatic ring structure, perhaps due to their weaker binding of the hydrate shell. However, this early crystal structure was obtained with the diacetoxytweezer in organic solution [18]. Interestingly, a similar unexpected inclusion of a

Experimental and DFT studies on the regioselective methanolysis of 5-azido-9-oxabicyclo[6.1.0]nonan-4-yl 4-nitrobenzoate isomers

• İlknur Polat,
• Selçuk Eşsiz and
• Emine Salamci

Beilstein J. Org. Chem. 2026, 22, 547–556, doi:10.3762/bjoc.22.40

• , 1239, 1015, 720; HRESIMS (m/z): [M+ + Na] calcd for C17H19ClN4O6, 433.0891; found, 433.0885. Some important bioactive molecules with an azide group. The X-ray crystal structure of 10. Relative free energy profile for the methanolysis of the isomeric epoxides 9. Mulliken charge analysis of protonated

Melifoliox B, a novel phloroglucin derivative isolated from Melicope barbigera (Rutaceae) and synthesis of new oxidation products from melifoliones A and B

• Horst Weber,
• Kim-Thao Tran-Cong,
• Bernhard Mayer,
• Guido J. Reiss,
• Iryna S. Konovalova,
• Marc S. Appelhans,
• Kenneth R. Wood and
• Claus M. Passreiter

Beilstein J. Org. Chem. 2026, 22, 535–546, doi:10.3762/bjoc.22.39

• and data acquisition. Data collection was therefore applied with seriously elongated exposure time. The crystal structure was successfully solved using methods as implemented in the SHELXT program [16], followed by refinement with SHELXL [17]. The refined asymmetric unit was found to contain about

Synthesis of a HDAC inhibitor–nanogold probe for cryo-EM visualization in class I HDAC co-repressor complexes

• Wiktoria A. Pytel,
• John W. R. Schwabe and
• James T. Hodgkinson

Beilstein J. Org. Chem. 2026, 22, 480–485, doi:10.3762/bjoc.22.35

• , like other benzamide HDAC inhibitors, exhibits slow on/off binding kinetics, hence once bound to the HDAC within the complex it should not readily dissociate [16]. A crystal structure of HDAC2 bound to an analogue of CI-994 (PDB: 4LY1) revealed that the acetamide moiety is oriented outside the HDAC

Structural reassignment of compound 968, an allosteric glutaminase inhibitor

• Lindsey A. Albertelli,
• Sainabou Jallow,
• Chun Li and
• Scott M. Ulrich

Beilstein J. Org. Chem. 2026, 22, 455–460, doi:10.3762/bjoc.22.33

• synthesized using the published cyclocondensation reaction (middle), and the isomeric benzo[c]acridine compound purchased from ChemDiv. B) Dose–response curves of the three compounds against the glutaminase isoform GAC. C) ORTEP diagram of the X-ray crystal structure of the material synthesized according to

Synthesis and anti-cancer activity of naphthalimide–organylselanyl conjugates

• Rajkumar Ravi and
• Selvakumar Karuthapandi

Beilstein J. Org. Chem. 2026, 22, 416–435, doi:10.3762/bjoc.22.29

• 7 was obtained by slow evaporation of a chloroform–methanol mixture (1:3 v/v). Single-crystal X-ray diffraction analysis revealed that compound 7 crystallises in the triclinic crystal system with the space group . The crystal structure of compound 7 is shown in Figure 2a. It shows a typical V-shaped

• carbonyl oxygen surface promotes hydrogen-bond formation. The binding site interactions of compounds 7 and 8 with the tyrosine kinase were further validated by comparison with the crystal structure of 1M17 with co-crystallised ligand erlotinib (Figure 9c), showing that both compounds form similar active

• . Comparison with the crystal structure of 4HJO co-crystallised ligand erlotinib (Figure 10c) further confirmed that the synthesised ligands exhibit a similar interaction pattern within the inactive tyrosine kinase domain of the EGFR. The compounds 7 and 8 possess well-defined structural features comprising

Cone p-aminocalix[4]arenes enriched with ‘clickable’ alkyne or azide functionalities

• Ilia Korniltsev,
• Vasily Bazhenov,
• Alexander Gorbunov,
• Dmitry Cheshkov,
• Stanislav Bezzubov,
• Vladimir Kovalev and
• Ivan Vatsouro

Beilstein J. Org. Chem. 2026, 22, 399–415, doi:10.3762/bjoc.22.28

• Supporting Information File 18: Synthesis details, copies of 1H and 13C NMR spectra of novel compounds, details of X-ray diffraction measurements and crystal structure data. Supporting Information File 19: Crystallographic information file for compound 16. Supporting Information File 20: Crystallographic

Spirobarbiturates with a pyrrolizidine moiety: synthesis, structure and biological evaluation

• Arthur A. Puzyrkov,
• Andrew S. Drachuk,
• Ekaterina A. Popova,
• Alexander V. Stepakov and
• Vitali M. Boitsov

Beilstein J. Org. Chem. 2026, 22, 274–288, doi:10.3762/bjoc.22.20

• the hydrogen atom of the maleimide methyl group and the carbonyl oxygen of an adjacent maleimide ring. The crystal structure of compound 4b exists as a solvate. The oxygen atom of a water molecule forms a hydrogen bond with the amide hydrogen of the barbiturate fragment (N–H···O–H = 2.783 Å), while

• ), including O···H–N hydrogen bonds between barbiturate rings and O···H–Ph contacts involving maleimide carbonyl oxygens and phenyl ring hydrogens. The crystal structure of adduct 4c includes a molecule of dichloromethane. Due to the disorder of the dichloromethane molecule, the exact distances of the

• results obtained, docking simulations were performed for the possible interaction of spiro-adducts with actin, as the most widespread and highly conserved cellular protein. Since the initial determination of the G-actin crystal structure in complex with DNase I, many actin structures have been registered

Configuration–packing synergy enabling integrated crystalline-state RTP and amorphous-state TADF

• Ruiyan Wang and
• Yunan Wu

Beilstein J. Org. Chem. 2026, 22, 224–236, doi:10.3762/bjoc.22.16

• obtained through the method of slow solvent evaporation, which allows for the formation of high-quality crystals suitable for detailed structural analysis. The crystal structure of 1 was thoroughly characterized using single-crystal X-ray diffraction (CCDC 2492630). This technique provides precise three

• -dimensional information about the atomic arrangement within the crystal lattice. As depicted in Figure 1a, the crystal structure reveals that the dihedral angle between the phthalimide moiety and the bridging phenyl ring is 50.71°, while the angle between the bridging phenyl ring and the carbazole unit is

• , an in-depth analysis was conducted on both the molecular structure and the packing arrangement in single crystals of 1. As depicted in Figure 6a, the crystal structure of 1 reveals the presence of significant π–π interactions between adjacent molecules. These interactions are crucial for stabilizing

Improved synthesis and physicochemical characterization of the selective serotonin 2A receptor agonist 25CN-NBOH

• Adrian G. Rossebø,
• Hannah G. Kolberg,
• Anders E. Tønder,
• Louise Kjaerulff,
• Poul Erik Hansen,
• Karla A. Frydenvang,
• Jesper Østergaard and
• Jesper L. Kristensen

Beilstein J. Org. Chem. 2026, 22, 175–184, doi:10.3762/bjoc.22.11

• solid form Crystals of 1·HCl were grown from an ethanolic solution, and the crystal structure was determined by single-crystal X-ray diffraction (SCXRD, Figure 2). As seen in Figure 2a, 1·HCl adopts a twisted U shape and is involved in three hydrogen bonds. Therein, the ammonium N atom interacts with

• ). Notably, the crystal structure shows that there are no water molecules of crystallization present, nor are any other solvent molecules incorporated into the crystal packing. When comparing the diffractogram obtained by SCXRD (Figure 3, green) with that obtained by X-ray powder diffraction (XRPD) of 1·HCl

• -NBOH (1), providing easier access to this compound. When the hydrochloride salt 1·HCl was precipitated and recrystallized from ethanol, a single and stable, nonhygroscopic polymorph with a well-defined melting point formed. A crystal structure determined by SCXRD confirmed the structural assignment

Highly electrophilic, gem- and spiro-activated trichloromethylnitrocyclopropanes: synthesis and structure

• Ilia A. Pilipenko,
• Mikhail V. Grigoriev,
• Olga Yu. Ozerova,
• Igor A. Litvinov,
• Darya V. Spiridonova,
• Aleksander V. Vasilyev and
• Sergey V. Makarenko

Beilstein J. Org. Chem. 2026, 22, 123–130, doi:10.3762/bjoc.22.5

• cyclopropane 2 under various conditions. Supporting Information The crystallographic data of the structure are deposited in the Cambridge Crystal Structure Data Bank (CCDC 2: 2237758; CCDC 3: 2481941; CCDC 9a: 2450586; CCDC 9b: 2450587). Statistics on the collection of X-ray diffraction data and refinement of

Sustainable electrochemical synthesis of aliphatic nitro-NNO-azoxy compounds employing ammonium dinitramide and their in vitro evaluation as potential nitric oxide donors and fungicides

• Alexander S. Budnikov,
• Nikita E. Leonov,
• Michael S. Klenov,
• Andrey A. Kulikov,
• Igor B. Krylov,
• Timofey A. Kudryashev,
• Aleksandr M. Churakov,
• Alexander O. Terent’ev and
• Vladimir A. Tartakovsky

Beilstein J. Org. Chem. 2025, 21, 2739–2754, doi:10.3762/bjoc.21.211

• all compounds, XRD of 2c, computational details, and copies of 1H, 13C, 14N, 1H,13C HSQC, and 1H,13C HMBC NMR spectra. Supporting Information File 5: Crystallographic information for compound 2c. Supporting Information File 6: CheckCIF report for the data of 2c. Acknowledgements Crystal structure

Competitive cyclization of ethyl trifluoroacetoacetate and methyl ketones with 1,3-diamino-2-propanol into hydrogenated oxazolo- and pyrimido-condensed pyridones

• Svetlana O. Kushch,
• Marina V. Goryaeva,
• Yanina V. Burgart,
• Marina A. Ezhikova,
• Mikhail I. Kodess,
• Pavel A. Slepukhin,
• Alexandrina S. Volobueva,
• Vladimir V. Zarubaev and
• Victor I. Saloutin

Beilstein J. Org. Chem. 2025, 21, 2716–2729, doi:10.3762/bjoc.21.209

• -equatorial position and is in the trans-position toward the Bu group. The single crystal structure of the bicycle 5ctc is ordered by intermolecular hydrogen bonds between the hydroxy group and the amino group as well as between the amino group and fluorine of the CF3 substituent of the neighboring molecule

Conformational effects on iodide binding: a comparative study of flexible and rigid carbazole macrocyclic analogs

• Guang-Wei Zhang,
• Yong Zhang,
• Le Shi,
• Chuang Gao,
• Hong-Yu Li and
• Lei Xue

Beilstein J. Org. Chem. 2025, 21, 2369–2375, doi:10.3762/bjoc.21.181

• (Figure S3) in Supporting Information File 1. WDG exhibited poor solubility, which hindered the direct acquisition of its single crystal structure for characterization. However, after Boc (tert-butyloxycarbonyl) protection, a single crystal structure (CCDC Number: 2339028) of the modified compound was

Insoluble methylene-bridged glycoluril dimers as sequestrants for dyes

• Suvenika Perera,
• Peter Y. Zavalij and
• Lyle Isaacs

Beilstein J. Org. Chem. 2025, 21, 2302–2314, doi:10.3762/bjoc.21.176

• methyl substituents (H2). Fortunately, the X-ray crystal structures of G2W1 and G2W3 reported below shed further light on their poor performance as solid state sequestrants. X-ray crystal structure of G2W1 and G2W3 Eventually, we were able to grow single crystals of G2W3 (CCDC 2466611) and solve their

• H2O and TFA are also seen in the crystal structure. At one C=O portal, an H2O molecule engages in H-bonding interactions with one C=O group (O···O: 2.948 Å, H···O: 2.149 Å, O–H···O angle: 163.603˚) and one OMe (O···O: 2.963 Å, H···O: 2.169 Å, O–H···O angle: 159.887°) group. The other C=O portal

Research towards selective inhibition of the CLK3 kinase

• Vinay Kumar Singh,
• Frédéric Justaud,
• Dabbugoddu Brahmaiah,
• Nangunoori Sampath Kumar,
• Blandine Baratte,
• Thomas Robert,
• Stéphane Bach,
• Chada Raji Reddy,
• Nicolas Levoin and
• René L. Grée

Beilstein J. Org. Chem. 2025, 21, 2250–2259, doi:10.3762/bjoc.21.172

• ). Second, molecular docking using DYRK1A crystal structure was used to understand the unexpected binding on the DYRK kinases (Figure 6). Surprisingly, another lysine (K175) is also located near the acidic group of VS-77 (at 3.2 Å between the carbonyl carbon atom and nitrogen from amine). This residue is

A m-quaterphenyl probe for absolute configurational assignments of primary and secondary amines

• Yuka Takeuchi,
• Mutsumi Kobayashi,
• Yuuka Gotoh,
• Mari Ikeda,
• Yoichi Habata,
• Tomohiko Shirai and
• Shunsuke Kuwahara

Beilstein J. Org. Chem. 2025, 21, 2211–2219, doi:10.3762/bjoc.21.168

• based on B3LYP/6-31G* level. Four major conformers of (S)-3f based on B3LYP/6-31G* level. The distribution of conformers of (S)-3a–h against dihedral angles ϕ (C6–C1–C1'–C6') calculated by B3LYP/6-31G*. Crystal structure of (S)-2b. Four conformers exist in the unit cell. Hydrogen atoms are omitted for

• were recorded on a Jeol ECP400 spectrometer (400 MHz) and a Bruker AVANCE II spectrometer (400 MHz). All NMR spectroscopic data of CDCl3 solutions are reported in ppm (δ) downfield from TMS. UV and CD spectra were recorded on JASCO V-650 and JASCO J-820 spectrometers, respectively. X-ray single-crystal

• structure analysis was performed on a Bruker SMART diffractometer equipped with a CCD area detector at 120 K. Silica gel 60 F254 precoated plates on glass from Merck Ltd. were used for thin-layer chromatography (TLC). General procedure for the synthesis of conjugates 2a–h (S)-2-[2,10-Bis(4-methoxyphenyl

Solar thermal fuels: azobenzene as a cyclic photon–heat transduction platform

• Jie Yan,
• Shaodong Sun,
• Minghao Wang and
• Si Wu

Beilstein J. Org. Chem. 2025, 21, 2036–2047, doi:10.3762/bjoc.21.159

• azobenzene polymer solar thermal fuels: (a) Photoisomerization and thermally induced reverse isomerization of diacetylene monomers. The inset depicts the crystal structure of diacetylene monomer (n = 6, X = N–H) with dashed lines indicating intermolecular hydrogen bonds. Figure 4a was used with permission of

Synthesis of N-doped chiral macrocycles by regioselective palladium-catalyzed arylation

• Shuhai Qiu and
• Junzhi Liu

Beilstein J. Org. Chem. 2025, 21, 1917–1923, doi:10.3762/bjoc.21.149

• characterized by NMR spectroscopy, mass spectrometry, and X-ray crystallography. Single crystals suitable for X-ray diffraction measurements of compounds 3a, MC2, and MC3 were successfully obtained to reveal their molecular structures. In the crystal structure of 3a (Figure 2a), the two pyrene units are nearly

• , theoretical calculations were performed to evaluate the energy barriers of isomerization. As shown in Figure S3 (Supporting Information File 1), the configuration observed in the crystal structure has the lower energy by 24.0 kcal mol−1 than that of the isomeric structure with two pyrene units at the same