Enhanced host–guest interaction between [10]cycloparaphenylene ([10]CPP) and [5]CPP by cationic charges

• Eiichi Kayahara,
• Yoshiyuki Mizuhata and
• Shigeru Yamago

Beilstein J. Org. Chem. 2024, 20, 436–444, doi:10.3762/bjoc.20.38

• Information File 47: Experimental procedures and computation data. Supporting Information File 48: Crystallographic information file for [10]CPP⊃[5]CPP2+[B(C6F5)4]2. Acknowledgements The calculation was supported by the Super Computer Laboratory, Institute for Chemical Research, Kyoto University. Funding

Thienothiophene-based organic light-emitting diode: synthesis, photophysical properties and application

• Recep Isci and
• Turan Ozturk

Beilstein J. Org. Chem. 2023, 19, 1849–1857, doi:10.3762/bjoc.19.137

• computation data, 1H and 13C NMR spectra. Acknowledgements The authors thank Dilara Gunturkun for DFT calculations, Istanbul Technical University (ITU). Funding The authors thank THD-2023-44904, PTA-2023-44900, TGA-2023-44077, TDA-2022-43696 numbered ITU BAP Projects and 122Z568 numbered TUBITAK 1001 Project

Exploring the role of halogen bonding in iodonium ylides: insights into unexpected reactivity and reaction control

• Carlee A. Montgomery and
• Graham K. Murphy

Beilstein J. Org. Chem. 2023, 19, 1171–1190, doi:10.3762/bjoc.19.86

• electrostatic potentials at specific points on the atom’s surface can be quantitatively determined through either computation or diffraction techniques [44][45]. Computation of the surface’s electrostatic potential extrema (VS,max and VS,min) are based on Equation 1 [31], which considers the contributions of

The effect of dark states on the intersystem crossing and thermally activated delayed fluorescence of naphthalimide-phenothiazine dyads

• Liyuan Cao,
• Xi Liu,
• Xue Zhang,
• Jianzhang Zhao,
• Fabiao Yu and
• Yan Wan

Beilstein J. Org. Chem. 2023, 19, 1028–1046, doi:10.3762/bjoc.19.79

Synthesis, α-mannosidase inhibition studies and molecular modeling of 1,4-imino-ᴅ-lyxitols and their C-5-altered N-arylalkyl derivatives

• Martin Kalník,
• Sergej Šesták,
• Juraj Kóňa,
• Maroš Bella and
• Monika Poláková

Beilstein J. Org. Chem. 2023, 19, 282–293, doi:10.3762/bjoc.19.24

• successful [25][26][27]. The only exception is the latest study by Cheng et al. who reported breakthrough findings in the development of highly potent and selective human GMII inhibitors. A combination of natural product-inspired combinatorial chemistry and computation-guided synthesis provided a nanomolar

Insight into oral amphiphilic cyclodextrin nanoparticles for colorectal cancer: comprehensive mathematical model of drug release kinetic studies and antitumoral efficacy in 3D spheroid colon tumors

• Sedat Ünal,
• Gamze Varan,
• Juan M. Benito,
• Yeşim Aktaş and
• Erem Bilensoy

Beilstein J. Org. Chem. 2023, 19, 139–157, doi:10.3762/bjoc.19.14

• . HPLC was used to quantify the cumulative percentage of CPT released for each time point [9]. Release kinetics study In vitro release profiles of CD nanoparticles were analyzed using DDSolver 1.0 [73], designed to reduce computation time and minimize computational errors, and the data were fitted to

Improving the accuracy of ³¹P NMR chemical shift calculations by use of scaling methods

• William H. Hersh and
• Tsz-Yeung Chan

Beilstein J. Org. Chem. 2023, 19, 36–56, doi:10.3762/bjoc.19.4

• use of the locally dense basis set approach, in which the larger pcS-3 basis set was used on phosphorus and the smaller pcS-2 basis set was then used on all the other atoms, allowed the computation of chemical shifts for a variety of benchmark compounds up to 35-atom triphenylphosphine oxide

Naphthalimide-phenothiazine dyads: effect of conformational flexibility and matching of the energy of the charge-transfer state and the localized triplet excited state on the thermally activated delayed fluorescence

• Kaiyue Ye,
• Liyuan Cao,
• Davita M. E. van Raamsdonk,
• Zhijia Wang,
• Jianzhang Zhao,
• Daniel Escudero and
• Denis Jacquemin

Beilstein J. Org. Chem. 2022, 18, 1435–1453, doi:10.3762/bjoc.18.149

1,4,6,10-Tetraazaadamantanes (TAADs) with N-amino groups: synthesis and formation of boron chelates and host–guest complexes

• Artem N. Semakin,
• Ivan S. Golovanov,
• Yulia V. Nelyubina and
• Alexey Yu. Sukhorukov

Beilstein J. Org. Chem. 2022, 18, 1424–1434, doi:10.3762/bjoc.18.148

• spectra, X-ray data, and computation data. Supporting Information File 278: Crystallographic information files (CIFs) for compounds 19e·3HCl·H2O, Bn-4c(bromide)·3CD3OD, 21·2D2O, 4a·H2O·0.5MeOH, 4a·HCl·H2O·MeOH, 4c·HCl·3.5MeOH, 8a, 21·HCl·2H2O, and hydrazinium dihydrochloride. CCDC deposition numbers

Electrochemical and spectroscopic properties of twisted dibenzo[g,p]chrysene derivatives

• Tomoya Imai,
• Ryuhei Akasaka,
• Naruhiro Yoshida,
• Toru Amaya and
• Tetsuo Iwasawa

Beilstein J. Org. Chem. 2022, 18, 963–971, doi:10.3762/bjoc.18.96

• optimized structures obtained based on the theoretical calculation. Acknowledgements The computation was performed using Research Center for Computational Science, Okazaki, Japan (Project: 21-IMS-C190, 22-IMS-C174). We thank Prof. Shinobu Aoyagi at Graduate School of Science, Nagoya City University for the

Introducing a new 7-ring fused diindenone-dithieno[3,2-b:2',3'-d]thiophene unit as a promising component for organic semiconductor materials

• Valentin H. K. Fell,
• Joseph Cameron,
• Alexander L. Kanibolotsky,
• Eman J. Hussien and
• Peter J. Skabara

Beilstein J. Org. Chem. 2022, 18, 944–955, doi:10.3762/bjoc.18.94

• highly delocalised bipolaron states [69]. Computation of structure Since all attempts to grow crystals of EtH-T-DI-DTT failed, we predicted the structure with a density functional theory (DFT) gas-phase optimisation using the B3LYP[70][71]/6-311g(d,p) [72] level of theory, using both the Gaussian09 [73

First series of N-alkylamino peptoid homooligomers: solution phase synthesis and conformational investigation

• Maxime Pypec,
• Laurent Jouffret,
• Claude Taillefumier and
• Olivier Roy

Beilstein J. Org. Chem. 2022, 18, 845–854, doi:10.3762/bjoc.18.85

• Information Supporting Information File 67: Experimental procedures, HPLC analytical data, NMR spectra and variable concentration study, infrared spectra, full X-ray data for 2, computation data, and additional TEM images for compound 2. Supporting Information File 68: Crystallographic information file (CIF

Syntheses of novel pyridine-based low-molecular-weight luminogens possessing aggregation-induced emission enhancement (AIEE) properties

• Masayori Hagimori,
• Tatsusada Yoshida,
• Yasuhisa Nishimura,
• Yukiko Ogawa and
• Keitaro Tanaka

Beilstein J. Org. Chem. 2022, 18, 580–587, doi:10.3762/bjoc.18.60

• for compounds 3a, 4a, and 4e using the TD-B3LYP/6-311+G(d,p)//B3LYP/6-31G(d,p) level of theory. Supporting Information Supporting Information File 34: General information, synthesis of 3a,b, and 4a–e, experimental procedure of fluorescence, theoretical computation method measurements, NMR, UV–vis

Mesoionic tetrazolium-5-aminides: Synthesis, molecular and crystal structures, UV–vis spectra, and DFT calculations

• Vladislav A. Budevich,
• Sergei V. Voitekhovich,
• Alexander V. Zuraev,
• Vadim E. Matulis,
• Vitaly E. Matulis,
• Alexander S. Lyakhov,
• Ludmila S. Ivashkevich and
• Oleg A. Ivashkevich

Beilstein J. Org. Chem. 2021, 17, 385–395, doi:10.3762/bjoc.17.34

• recorded on a Bruker Vertex 70 spectrometer in diamond cell accessory. For Raman spectra registration, an Ocean Optics ID RAMAN READER (785 nm) spectrometer was used. Experimental procedures The experimental procedures are given in Supporting Information File 1. Computation details Calculations of the UV

Selected peptide-based fluorescent probes for biological applications

• Debabrata Maity

Beilstein J. Org. Chem. 2020, 16, 2971–2982, doi:10.3762/bjoc.16.247

• nm. However, the fluorescence of these probes increases to a different extent upon addition of different 14-3-3 protein isoforms and the emission spectrum is blue-shifted to 530 nm (Figure 7B). Computation studies confirmed that enhancement of the fluorescence is due to close proximity of the

Synthesis of purines and adenines containing the hexafluoroisopropyl group

• Viacheslav Petrov,
• Rebecca J. Dooley,
• Alexander A. Marchione,
• Elizabeth L. Diaz,
• Brittany S. Clem and
• William Marshall

Beilstein J. Org. Chem. 2020, 16, 2739–2748, doi:10.3762/bjoc.16.224

• rotamers. By comparison, ΔH between the two rotamers was obtained experimentally by fitting the van ‘t Hoff equation to the population differences observed in the 19F NMR spectra between 224 and 264 K. 0.89 kcal⋅mol−1 is in tolerable agreement with the computation. Comparing 3a, 4a, 4b, and 6a in Table 2

A proposed sustainability index for synthesis plans based on input provenance and output fate: application to academic and industrial synthesis plans for vanillin as a case study

• John Andraos

Beilstein J. Org. Chem. 2020, 16, 2346–2362, doi:10.3762/bjoc.16.196

• of the target product that is actually used for its intended purpose. Renewable energy sources are defined as originating from hydroelectric, wind, solar, geothermal, and biomass sources. The computation of SI is illustrated for 22 synthesis plans of the high commodity flavour ingredient vanillin

• will end up wasted along supply chains and by end-of-use consumers. In order to facilitate computation of SI an Excel-based calculator was developed that can be used for any synthesis plan once all inputs and outputs are identified (see Supporting Information File 2). Firstly, for a given synthesis

• be made if full disclosure of both supply and disposal chains in the chemical enterprise exists. We note that this is a formidable challenge for the chemical community to accept and adopt in routine practice. We also note that the computation of SI will necessarily involve significant assumptions to

Design, synthesis and application of carbazole macrocycles in anion sensors

• Alo Rüütel,
• Ville Yrjänä,
• Sandip A. Kadam,
• Indrek Saar,
• Mihkel Ilisson,
• Astrid Darnell,
• Kristjan Haav,
• Tõiv Haljasorg,
• Lauri Toom,
• Johan Bobacka and
• Ivo Leito

Beilstein J. Org. Chem. 2020, 16, 1901–1914, doi:10.3762/bjoc.16.157

• studied anions. Additionally, for MC003, intramolecular hydrogen bonds could be present. For most anions, the champion molecules were MC007 and MC009. According to the computation results, neither benzoate nor pivalate were able to fit into the ring of these receptors because these anions were too large

Regioselectivity of glycosylation reactions of galactose acceptors: an experimental and theoretical study

• Enrique A. Del Vigo,
• Carlos A. Stortz and
• Carla Marino

Beilstein J. Org. Chem. 2019, 15, 2982–2989, doi:10.3762/bjoc.15.294

• functions describe better soft–soft interactions between nucleophiles and electrophiles [8][37][38]. The charge density was calculated for both methods using the Merz–Singh–Kollman scheme (MK) [39][40]. For the calculation of Fukui functions, besides the known computation of differences in atomic charges

Experimental and computational electrochemistry of quinazolinespirohexadienone molecular switches – differential electrochromic vs photochromic behavior

• Eric W. Webb,
• Jonathan P. Moerdyk,
• Kyndra B. Sluiter,
• Benjamin J. Pollock,
• Amy L. Speelman,
• Eugene J. Lynch,
• William F. Polik and
• Jason G. Gillmore

Beilstein J. Org. Chem. 2019, 15, 2473–2485, doi:10.3762/bjoc.15.240

• regiospecificity of photochromic vs electrochromic ring-opening of the QSHDs (Scheme 3) by experiment, we next sought to understand why SW would open differently upon excitation to SW* vs reduction to SW•−. We turned to computation (of 3a, 4a, and 5a) for an explanation. Due to large differences in the methods for

• calculating excited and ground-states, the triplet T0 state was used instead of the singlet S1 state as the photochemical intermediate (SW*) for computational purposes. Since T0 is the lowest energy triplet state, it is amenable to a ground-state computation. While the real SW* photochemical intermediate may

• length, bond order, and molecular orbitals to rationalize the observed differential photochromic and electrochromic ring-opening of 1 to 2 and 3, respectively, were performed on the Midwest Undergraduate Computation Chemistry Consortium (MU3C) cluster [28][29]. Computations were performed on a single

Tautomerism as primary signaling mechanism in metal sensing: the case of amide group

• Vera Deneva,
• Georgi Dobrikov,
• Aurelien Crochet,
• Daniela Nedeltcheva,
• Katharina M. Fromm and
• Liudmil Antonov

Beilstein J. Org. Chem. 2019, 15, 1898–1906, doi:10.3762/bjoc.15.185

• ultrafine grid in the computation of two-electron integrals and their derivatives. The true minima were verified by performing frequency calculations in the corresponding environment. The TD-DFT method [27][28][29], carried out with the same functional and basis set, was used for predicting vertical

A diastereoselective approach to axially chiral biaryls via electrochemically enabled cyclization cascade

• Hong Yan,
• Zhong-Yi Mao,
• Zhong-Wei Hou,
• Jinshuai Song and
• Hai-Chao Xu

Beilstein J. Org. Chem. 2019, 15, 795–800, doi:10.3762/bjoc.15.76

• for the electrochemical synthesis of 3a. Computation investigation on the vinyl radical cyclization. DFT (M06-2X/6-31G*) calculated energetics (kcal mol−1) are Gibbs free energies in MeCN. Investigation on the effects of substituents on the diastereoselectivity.a Supporting Information Supporting

Dispersion-mediated steering of organic adsorbates on a precovered silicon surface

• Lisa Pecher,
• Sebastian Schmidt and
• Ralf Tonner

Beilstein J. Org. Chem. 2018, 14, 2715–2721, doi:10.3762/bjoc.14.249

• silicon surface without an intermediate that would show up as stationary point in the energy profile [5][6][7]. The only difference is found in the adsorption paths when dispersion corrections are included in the computation (Figure 3a).The curve is rather constantly shifted by 5–10 kJ·mol−1 towards more

• negative bonding energies Ebond in case of the precovered surface. This is not found in the computation that omits dispersion forces (Figure 3b). Thus, dispersion interactions not only stabilize product 3 but act along the whole adsorption path of 1 onto Si(001). This leads us to a comprehensive

• (stabilization by less than 5 kJ·mol−1) are found by including dispersion in the computation. If one molecule of 1 is already present at the surface, parts of the surface are inaccessible due to strong Pauli repulsion and overlapping molecules. This is indicated by the white areas around the first adsorbate in

Terahertz spectroscopy of 2,4,6-trinitrotoluene molecular solids from first principles

• Ido Azuri,
• Anna Hirsch,
• Anthony M. Reilly,
• Alexandre Tkatchenko,
• Shai Kendler,
• Oded Hod and
• Leeor Kronik

Beilstein J. Org. Chem. 2018, 14, 381–388, doi:10.3762/bjoc.14.26

• similar with and without pair-wise interactions, is at ca. 8.1 THz for the dispersion-inclusive computation. THz vibrational frequencies, as a function of mode number, obtained for the orthorhombic (a) and monoclinic (b) polymorphs of TNT using the TS-vdW and MBD approaches. Comparison of computed

Conformational preferences of α-fluoroketones may influence their reactivity

• Graham Pattison

Beilstein J. Org. Chem. 2017, 13, 2915–2921, doi:10.3762/bjoc.13.284

• , supported by computation, that this effect is due to reactive conformations in which the C–X bond is orthogonal to the carbonyl group for good orbital overlap being disfavoured in the case of fluoro ketones. Keywords: α-halogenated ketones; conformational analysis; reactivity; stereoelectronic effects