Possible bi-stable structures of pyrenebutanoic acid-linked protein molecules adsorbed on graphene: theoretical study

• Yasuhiro Oishi,
• Motoharu Kitatani and
• Koichi Kusakabe

Beilstein J. Org. Chem. 2024, 20, 570–577, doi:10.3762/bjoc.20.49

• molecules because the chain portion of PASE turns upward. Therefore, the stabilization energy of hydrogen-bond formation is greater in conformation 2 than in conformation 1. To improve the stability of conformation 2, hydration effects by electrostatic interactions between PASE and the solvent are also

Tying a knot between crown ethers and porphyrins

• Maksym Matviyishyn and
• Bartosz Szyszko

Beilstein J. Org. Chem. 2023, 19, 1630–1650, doi:10.3762/bjoc.19.120

• /electrostatic interactions [18][19][20]. Replacing oxygen atoms with other elements, such as nitrogen, sulfur, etc., alters the crown ethers' affinity toward cations, extending their role as macrocyclic ligands to transition metals [21]. One can say that in many aspects, porphyrins and crown ethers are

Complexes of resorcin[4]arene with secondary amines: synthesis, solvent influence on “in-out” structure, and theoretical calculations of non-covalent interactions

• Waldemar Iwanek

Beilstein J. Org. Chem. 2023, 19, 1525–1536, doi:10.3762/bjoc.19.109

• , finally, the structure with the lowest energy, with the functional PBE0-D4/mTZVPP/CPCM. The Hartree–Fock plus London dispersion (HFLD) method was used for the study of non-covalent interactions (NCI). The calculations lead to the conclusion that a reduction in electrostatic interactions and an increase in

• the amine nitrogen of the guest molecule. In addition to hydrogen bonding, other interactions such as π–π stacking and electrostatic interactions also play a role in the complexation process. These interactions can be modulated by changing the pH, solvent, and temperature of the solution. The binding

• studied complexes, categorized as electrostatic, exchangeable, dispersion, and charge-transfer interactions. From the data presented in Table 2, it is evident that electrostatic interactions in the form of hydrogen bonds primarily contribute to the formation of R[4]:sec-amine complexes with a 1:1

pH-Responsive fluorescent supramolecular nanoparticles based on tetraphenylethylene-labelled chitosan and a six-fold carboxylated tribenzotriquinacene

• Nan Yang,
• Yi-Yan Zhu,
• Wei-Xiu Lin,
• Yi-Long Lu and
• Wen-Rong Xu

Beilstein J. Org. Chem. 2023, 19, 635–645, doi:10.3762/bjoc.19.45

• TBTQ-C6 in water at pH 5.3 due to the more pronounced steric hindrance and the stronger charge repulsion on their complex surface [29][30]. Moreover, we propose that TBTQ-C6/CS-TPE supra-amphiphiles connected by electrostatic interactions self-assemble in water layer-by-layer with the outer surface

Recommendations for performing measurements of apparent equilibrium constants of enzyme-catalyzed reactions and for reporting the results of these measurements

• Robert N. Goldberg,
• Robert T. Giessmann,
• Peter J. Halling,
• Carsten Kettner and
• Hans V. Westerhoff

Beilstein J. Org. Chem. 2023, 19, 303–316, doi:10.3762/bjoc.19.26

• both long-range electrostatic interactions and the interactions of the ions with each other and with the solvent. The inverse calculation to obtain K from K′ can also be performed by using regression. The scientific principles behind these calculations and transformed thermodynamic quantities are

Tetraphenylethylene-embedded pillar[5]arene-based orthogonal self-assembly for efficient photocatalysis in water

• Zhihang Bai,
• Krishnasamy Velmurugan,
• Xueqi Tian,
• Minzan Zuo,
• Kaiya Wang and
• Xiao-Yu Hu

Beilstein J. Org. Chem. 2022, 18, 429–437, doi:10.3762/bjoc.18.45

• phenyl-ring rotations thus enhancing the AIE property. The resulting m-TPEWP5G self-assembled worm-like nanosystem acts as an ideal donor and loading EsY as acceptor on the surface of the worm-like nanostructure, leads to the generation of a nanorod assembly via electrostatic interactions. The final AIE

• -like nanostructure (diameter = 748 nm). After the loading of EsY into m-TPEWP5G, the worm-like structure changed into a nanorod (diameter = 652 nm) assembly via electrostatic interactions. In comparison, the diameter and length of the m-TPEWP5G assembly were slightly higher than that of m-TPEWP5G-EsY

• Supporting Information File 1). When 1 equiv of EsY was added into the m-TPEWP5G solution, the resonance signals of EsY were shifted to upfield regions, which was caused by steric effects and electrostatic interactions between the quaternary ammonium groups containing m-TPEWP5 and the negatively charged EsY

Cryogels: recent applications in 3D-bioprinting, injectable cryogels, drug delivery, and wound healing

• Luke O. Jones,
• Leah Williams,
• Tasmin Boam,
• Martin Kalmet,
• Chidubem Oguike and
• Fiona L. Hatton

Beilstein J. Org. Chem. 2021, 17, 2553–2569, doi:10.3762/bjoc.17.171

• 2 weeks. However, this could result in a sustained release over longer time periods which would require further investigation. Doxorubicin release from heparin-containing cryogel microcarriers was investigated by Newland et al. [100]. Highly sulphated heparin was used to exploit electrostatic

• interactions between anionic sulphate groups and the primary amine group present in doxorubicin which confers a positive charge under physiological conditions. This interaction was confirmed by in silico modelling. While the carriers did not show any cytotoxicity, cell viability was reduced in the presence of

Constrained thermoresponsive polymers – new insights into fundamentals and applications

• Patricia Flemming,
• Alexander S. Münch,
• Andreas Fery and
• Petra Uhlmann

Beilstein J. Org. Chem. 2021, 17, 2123–2163, doi:10.3762/bjoc.17.138

• thermoresponsive behavior of polymers is governed by oriented polymer–polymer interactions, such as hydrogen bonding or electrostatic interactions. As a function of temperature, these attractive interactions are formed and contribute to phase separation (T < UCST) or are increasingly destabilized and allow

• , UCST type behavior is generally governed either by strong hydrogen bonding or by attractive electrostatic interactions [51][52][55]. UCST resulting from strong hydrogen bonding interactions. Increasing interest is focussed on nonionic polymers in water, whose UCST behavior is based on hydrogen bonding

• under physiologically relevant pH and salt conditions via the hydrophilicity of the co-monomers and their molar ratio [52][55][279]. UCST resulting from attractive electrostatic interactions. The thermoresponsive behavior of zwitterionic polymers, in contrast to the previously mentioned UCST type

Cationic oligonucleotide derivatives and conjugates: A favorable approach for enhanced DNA and RNA targeting oligonucleotides

• Mathias B. Danielsen and
• Jesper Wengel

Beilstein J. Org. Chem. 2021, 17, 1828–1848, doi:10.3762/bjoc.17.125

• better hybridization properties than LNA-thymidine; however, only modification 22 gave significant increases in Tm relative to modification 19 used as control. This finding was ascribed to both the extended π-conjugation of the alkynyl-functionalized nucleobase and stabilizing electrostatic interactions

Antiviral therapy in shrimp through plant virus VLP containing VP28 dsRNA against WSSV

• Santiago Ramos-Carreño,
• Ivone Giffard-Mena,
• Jose N. Zamudio-Ocadiz,
• Alfredo Nuñez-Rivera,
• Ricardo Valencia-Yañez,
• Jaime Ruiz-Garcia,
• Maria Teresa Viana and
• Ruben D. Cadena-Nava

Beilstein J. Org. Chem. 2021, 17, 1360–1373, doi:10.3762/bjoc.17.95

• formation and CP-dsRNAi complexes (Figure 2A, images a and b). The Gaussian fit size distribution of the spherical procapsids gave an average diameter of 21.2 nm and corresponded to capsids with triangulation number T = 2. The sample’s dialysis at pH 7.2 favors the electrostatic interactions between CCMV CP

Biochemistry of fluoroprolines: the prospect of making fluorine a bioelement

• Vladimir Kubyshkin,
• Rebecca Davis and
• Nediljko Budisa

Beilstein J. Org. Chem. 2021, 17, 439–460, doi:10.3762/bjoc.17.40

• extensive documentation of the electrostatic interactions within the molecules and the observed conformational biases [145

Multiswitchable photoacid–hydroxyflavylium–polyelectrolyte nano-assemblies

• Alexander Zika and
• Franziska Gröhn

Beilstein J. Org. Chem. 2021, 17, 166–185, doi:10.3762/bjoc.17.17

• not rely on specific binding motifs. Here, electrostatic self-assembly was shown to yield a variety of supramolecular nanostructures [4][26][27][28][29][30][31][32][33]. We have built the nanoscale assemblies from polyelectrolytes and multiply oppositely charged molecules based on electrostatic

• interactions and secondary interactions such as π–π stacking [34][35][36][37][38][39][40]. The size and shape could be tuned through the free energy and the enthalpy/entropy interplay in the assembly process, which again are encoded in the molecular building block structure [31][37]. Supramolecular structures

Insight into functionalized-macrocycles-guided supramolecular photocatalysis

• Minzan Zuo,
• Krishnasamy Velmurugan,
• Kaiya Wang,
• Xueqi Tian and
• Xiao-Yu Hu

Beilstein J. Org. Chem. 2021, 17, 139–155, doi:10.3762/bjoc.17.15

• selectively obtained over the conventional 9,10:9',10'-cyclodimers by the supramolecular photocyclodimerization of 2-anthracenecarboxylate (AC) with the aid of β-CD-functionalized cationic derivatives as chiral catalysts (Figure 7) [25]. Due to the electrostatic interactions between cationic CD and anionic AC

Molecular basis for protein–protein interactions

• Brandon Charles Seychell and
• Tobias Beck

Beilstein J. Org. Chem. 2021, 17, 1–10, doi:10.3762/bjoc.17.1

• an electrostatic interaction between two molecules at 10 Å is around 1 kJ/mol, which is much higher than any other force at such a distance [47]. Long-range electrostatic interactions are affected by the net charges of the protein, i.e., proteins with a different net charge are electrostatically

• , it has been shown that the CCMV capsid formation is driven by electrostatic interactions governed by the pH value and the ionic strength [93]. Here, the positive N terminus of the assembly unit interacts with the negatively charged scaffold and drives the self-assembly process [94]. The advent of

Chiral anion recognition using calix[4]arene-based ureido receptors in a 1,3-alternate conformation

• Tereza Horáčková,
• Jan Budka,
• Vaclav Eigner,
• Wen-Sheng Chung,
• Petra Cuřínová and
• Pavel Lhoták

Beilstein J. Org. Chem. 2020, 16, 2999–3007, doi:10.3762/bjoc.16.249

• anions is becoming more and more significant [12][13][14]. There are many strategies aiming at anion recognition in the literature. Most of the receptors, however, rely on electrostatic interactions. These systems are represented by positively charged molecules, such as quaternary N-, S-, and P

Using multiple self-sorting for switching functions in discrete multicomponent systems

• Amit Ghosh and
• Michael Schmittel

Beilstein J. Org. Chem. 2020, 16, 2831–2853, doi:10.3762/bjoc.16.233

• undemanding building blocks. The plethora of self-sorting systems depends on either the geometric fit of their global shapes and/or matching of their local interactions. Various noncovalent interactions, such as H‐bonding [8][9], metal–ligand coordination [10][11][12][13], electrostatic interactions [14], π

Selective recognition of ATP by multivalent nano-assemblies of bisimidazolium amphiphiles through “turn-on” fluorescence response

• Rakesh Biswas,
• Surya Ghosh,
• Shubhra Kanti Bhaumik and
• Supratim Banerjee

Beilstein J. Org. Chem. 2020, 16, 2728–2738, doi:10.3762/bjoc.16.223

• . One of the challenges in the bio-anion detection is that the sensory probes have to be effective under physiological conditions. The highly polar nature of the aqueous media considerably weakens supramolecular interactions such as H-bonding and electrostatic interactions and as a result, it is in

• the nucleotides occurring through multivalent electrostatic interactions in the cavity/cleft created by the spatial orientation of the imidazolium groups. We herein consider a self-assembly based approach in which amphiphilic monomers with bisimidazolium moieties are utilized to create multivalent

• ) and ADP (50 µM), these values were 4.8 and 1.87, respectively (Figure 4b). Practically no increments were observed for AMP (50 µM) and Pi (50 µM) (Supporting Information File 1, Figure S11a and Figure 4b). As the multivalent binding is predominantly through electrostatic interactions, it was not

Thermodynamic and electrochemical study of tailor-made crown ethers for redox-switchable (pseudo)rotaxanes

• Henrik Hupatz,
• Marius Gaedke,
• Hendrik V. Schröder,
• Julia Beerhues,
• Arto Valkonen,
• Fabian Klautzsch,
• Sebastian Müller,
• Felix Witte,
• Kari Rissanen,
• Biprajit Sarkar and
• Christoph A. Schalley

Beilstein J. Org. Chem. 2020, 16, 2576–2588, doi:10.3762/bjoc.16.209

• strong electrostatic interactions to ammonium ions and act as strong, competitive hydrogen-bond acceptors [57]. The high anodic shifts indicate strong attractive interactions between the wheels and axles, which compete with the coordination of the crown ether moiety. Thus, the secondary ammonium axles

NMR Spectroscopy of supramolecular chemistry on protein surfaces

• Peter Bayer,
• Anja Matena and
• Christine Beuck

Beilstein J. Org. Chem. 2020, 16, 2505–2522, doi:10.3762/bjoc.16.203

• ligands as well, thus altering their electrostatic interactions. Around the isoelectric point, where a molecule is neutral, hydrophobic interactions become more pronounced, which can lead to formation of soluble aggregates or even precipitation. Co-solvents such as DMSO-d6 are popular as solvents for more

• docking that the Cyt c/porphyrin complexes exist as a dynamic ensemble where multiple surface patches can transiently interact with the ligand through a combination of hydrophobic interactions with the porphyrin core and electrostatic interactions with the carboxylate substituents. Cucurbit[7]uril and

Design and synthesis of a bis-macrocyclic host and guests as building blocks for small molecular knots

• Elizabeth A. Margolis,
• Rebecca J. Keyes,
• Stephen D. Lockey IV and
• Edward E. Fenlon

Beilstein J. Org. Chem. 2020, 16, 2314–2321, doi:10.3762/bjoc.16.192

• molecular knots. The modular second-generation approach to small trefoil knots described herein involves electrostatic interactions between an electron-rich bis-macrocyclic host compound and electron-deficient guests in the threading step. The bis-macrocyclic host was synthesized in eight steps and 6.6

Naphthalene diimide bis-guanidinio-carbonyl-pyrrole as a pH-switchable threading DNA intercalator

• Poulami Jana,
• Filip Šupljika,
• Carsten Schmuck and
• Ivo Piantanida

Beilstein J. Org. Chem. 2020, 16, 2201–2211, doi:10.3762/bjoc.16.185

• pronounced aggregation, which could be attributed to the electrostatic interactions of the highly positively charged molecules along the negatively charged DNA/RNA backbone aided by the strong hydrophobic effect of the central NDI core. This effect yielded a marked ds-DNA condensation ability of compound 4

pH- and concentration-dependent supramolecular self-assembly of a naturally occurring octapeptide

• Goutam Ghosh and
• Gustavo Fernández

Beilstein J. Org. Chem. 2020, 16, 2017–2025, doi:10.3762/bjoc.16.168

• secondary structures, which lead to nanostructured materials [16][17]. Noncovalent interactions, such as hydrogen bonding, van der Waals interactions, hydrophobic interactions, electrostatic interactions, and π–π interactions [18][19][20][21][22] are common driving forces in peptide self-assembly. These

Heterogeneous photocatalysis in flow chemical reactors

• Christopher G. Thomson,
• Ai-Lan Lee and
• Filipe Vilela

Beilstein J. Org. Chem. 2020, 16, 1495–1549, doi:10.3762/bjoc.16.125

• heterogeneous photocatalysis is immobilising a molecular photocatalyst to a solid support. Most materials have inherent surface functionalities or can be modified to act as supports through covalent or electrostatic interactions, presenting a plethora of strategies to immobilise any photocatalyst with a

Bacterial terpene biosynthesis: challenges and opportunities for pathway engineering

• Eric J. N. Helfrich,
• Geng-Min Lin,
• Christopher A. Voigt and
• Jon Clardy

Beilstein J. Org. Chem. 2019, 15, 2889–2906, doi:10.3762/bjoc.15.283

• electrostatic interactions [54]. Moreover, TCs also assist intramolecular atom transfer and rearrangements including hydride or proton transfer and carbon shifts [10]. Eventually, the carbocation is quenched by deprotonation (E1-like) or nucleophilic attack (SN1-like) of water [45]. In contrast to

A combinatorial approach to improving the performance of azoarene photoswitches

• Joaquin Calbo,
• Aditya R. Thawani,
• Rosina S. L. Gibson,
• Andrew J. P. White and
• Matthew J. Fuchter

Beilstein J. Org. Chem. 2019, 15, 2753–2764, doi:10.3762/bjoc.15.266

• noncovalent forces are also predicted in the twisted Z-isomers of the 4pzMe-X family, for which θ remains approximately constant. Furthermore, the atomic charge of fluorine is calculated to be ca. −0.30e, which allows for electrostatic interactions with positively charged C atoms (ca. +0.40e) of the pyrazole

• ring in both 4pzH-X and 4pzMe-X families (Figure S7, Supporting Information File 1). These favorable dispersion and electrostatic interactions stabilize the Z-isomer ground state compared to the corresponding transition state, which in part explains the increase in energy barriers and in turn half