Modification Of Substituents Research Articles

Combining a Chemical Language Model and the Structure-Activity Relationship Matrix Formalism for Generative Design of Potent Compounds with Core Structure and Substituent Modifications.

In medicinal chemistry, compound optimization relies on the generation of analogue series (AS) for exploring structure-activity relationships (SARs). Potency progression is a critical criterion for advancing AS. During optimization, a key question is which analogues to synthesize next. We introduce a new computational methodology for the extension of AS with potent compounds containing both core structure and substituent modifications at multiple sites, which has been reported for the first time. The approach combines a transformer chemical language model (CLM) with a SAR matrix (SARM) methodology that identifies and organizes structurally related AS. Therefore, the SARM approach was expanded to cover multisite AS. Consensus series extracted from SARMs representing a potency gradient served as input for CLM training to extend test AS with potent analogues. Different model variants were derived and investigated. Both general and fine-tuned models correctly predicted known potent analogues at high positions in probability-based compound rankings and chemically diversified AS through core structure modifications of the generated candidate compounds and substituent replacements at multiple sites.

Ultra‐Wide Modulation and Reversible Reconfiguration of a Flexible Organic Crystalline Optical Waveguide Between 645 and 731 nm

Flexible organic crystalline optical waveguides, i.e., delivering input or self‐emit lights through various dynamic organic crystals, have attracted increasing attentions in the past decade. However, the modulation of waveguide outputs relies on chemical design and substituent modification, being time‐consuming and laborious. Here we report an elastic organic crystal that displays long‐distance light transducing capability up to 2.0 cm and ultra‐wide modulation of crystalline optical waveguides between red (645 nm) and near infrared (731 nm) in both the pristine and the elastically bent states based on a pre‐designed self‐absorption effect. The flexible organic crystalline optical waveguides can be precisely and reversibly reconfigured by controlling irradiation point. In addition, deep red amplified spontaneous emissions (ASE) that are able to transduce through a 5.0 mm bent crystal with an ultra‐low optical loss coefficient of 0.092 dB/mm has been attained. To the best of our knowledge, this is the first report of flexible organic ASE waveguides. The present study not only provides a simple yet effective strategy to remarkably modulate flexible organic crystalline optical waveguides but also demonstrates the superiority of laser over normal emission as flexible optical communication elements.

Discovery and Development of Highly Potent and Orally Bioavailable Nonpeptidic αvβ6 Integrin Inhibitors.

A series of 3-aryl((S)-3-fluoropyrrolidin-1-yl)butanoic acids were developed as potent orally bioavailable αvβ6 integrin inhibitors. Starting from a zwitterionic peptidomimetic series optimized for inhaled administration, the balancing of potency and passive permeability to achieve suitable oral agents through modification and exploration of aryl substituents and pKa of the central cyclic amine is described. (S)-4-((S)-3-Fluoro-3-(2-(5,6,7,8-tetrahydro-1,8-naphthyridin-2-yl)ethyl)pyrrolidin-1-yl)-3-(3-(2-methoxyethoxy)phenyl)butanoic acid was found to have highly desirable oral pharmacokinetic profiles in rat, dog, and minipig, with low to moderate clearance (26%, 7%, and 18% liver blood flow, respectively), moderate volumes of distribution (3.6, 1.4, and 0.9 L/kg, respectively), high to complete oral bioavailabilities, high αvβ6 integrin potency of pIC50 of 8.0, and high solubility in physiological media (>2 mg/mL). Equating to the estimated human dose range of 10-75 mg b.i.d. to achieve 90% αvβ6 target engagement at Cmin, it was selected for further investigation as a potential therapeutic agent for the treatment of idiopathic pulmonary fibrosis.

(Invited) An Unsymmetrical 5,15-Disubstituted Tetrabenzoporphyrin: Effect of Molecular Symmetry on the Packing Structure and Charge Transporting Property

One of the key issues in the development of organic field-effect transistor (OFET) materials is the improvement of charge mobility. Since charge mobility depends on intermolecular interactions in solid state, it is important to control the crystal structure. In the current mainstream OFET materials, such as acenes and heteroacenes, which have one-dimensionally (1D) extended polycyclic aromatic frameworks, the effect of substitution on the crystal structure has been intensively studied. On the other hand, some bulky (trialkylsilyl)ethynyl-substituted derivatives such as 6,13-bis(triisopropylsilylethynyl)pentacene (TIPS-pentacene) have been known to afford brickwork packing. In comparison, two-dimensionally (2D) extended π-conjugated molecules tend to form a sandwich herringbone, a co-facial herringbone, and a 1D columnar structure, due to their enhanced π−π interaction. The molecular design strategy to control the crystal structure of two-dimensional (2D) π-extended organic semi-conductors has not been intensively explored.We synthesized an unsymmetric tetrabenzoporphyrin derivative (TIPS-Ph-BP) to demonstrate the effect of molecular symmetry on crystal packing.1 An unsymmetric structure would make 2D π-stacking more stable than a one-dimensional (1D) columnar structure to counteract steric and electronic imbalance in the crystal. TIPS-Ph-BP formed an antiparallel slipped π-stacking and 2D herringbone-like structure as expected, but, it formed a dimeric herringbone packing consisting of slipped π-stacking in an antiparallel manner in the crystal. OFETs using TIPS-Ph-BP achieved the maximum hole mobility of 0.71 cm2 V-1 s-1 due to the partially 2D packing structure.Although TIPS-Ph-BP gave dimeric herringbone packing, this strategy could be used to control the crystal structures of various 2D extended π-conjugated systems. Further modification of the porphyrin substituents is ongoing. Reference K. Miyazaki, K. Matsuo, H. Hayashi, M. Yamauchi, N. Aratani, H. Yamada, Org. Lett. 2023, 25, 7354-7358

Asymmetric cobalt porphyrins for pH-universal oxygen reduction reactions: Benzoic acid advances phenyl as substituents

Asymmetric metalloporphyrins are potential electrocatalysts to construct composites for efficient oxygen reduction reactions (ORRs) due to their inherent large dipole moment, which facilitates the charge separation. To find more effective molecular structures towards the ORRs, in particular their performance and electrolyte relationship, we rationally designed two A3B-type asymmetric cobalt porphyrin aPh-TCoP and aBA-TCoP with phenyl and benzoic acid as substituents, respectively. The ORR performance of the porphyrin-decorated carbon black composites was examined in five electrolytes at different pH values spanning from 0.7 to 13.7. It was found that aBA-TCoP/C exhibited better ORR activity and selectivity than aPh-TCoP/C in all solutions. Interestingly, both composites demonstrated their highest ORR activity in the pH13.7 electrolyte and exhibited 4-electron selectivity in the pH3.7 solution. This conclusion is drawn from a comprehensive analysis of various electrochemical properties, encompassing current density, reduction potentials, electron transfer numbers, and intermediate yields. The results illustrate the regulation of ORR properties by altering the electrolyte pH and a notable improvement in the ORR performance through the modification of porphyrin substituents. These findings offer a foundational understanding for the design of efficient metalloporphyrins and the attainment of controlled oxygen reduction in electrochemical devices.

Development of a ratiometric fluorescent probe for the detection of peroxynitrite

Peroxynitrite is one of the important reactive oxygen species in the human body and is closely related to the physiological and pathological processes of many diseases. Therefore, the development of probes to detect peroxynitrite is important for diagnostic and pathologic studies of many diseases. In this work, a ratiometric probe was designed using benzopyran as the recognition site, and the sensitivity and selectivity of the probe were tuned by modification of substituents on benzopyran. Upon reaction with peroxynitrite, the color of the solution changes to the naked eye (from blue to yellow), and the fluorescence changes from red to blue. The probe SJ has the advantages of large Stokes shift (237 nm), fast response (≤10 s), wide linear range, good selectivity, low detection line (21.3 nm), and low cytotoxicity. Probe SJ has been successfully used for bioimaging of endogenous and exogenous peroxynitrite.

Quantum Chemical-Based Investigations and Lipophilicity Evaluations on Some Structurally Related Quinazoline Derivatives

This work was chiefly conceived to explore the substituent effects on thermodynamic, electronic and lipophilic characteristics of some quinazoline derivatives (Q1-Q4) from theoretical aspects. The variations caused by methyl, ethyl, chlorine and bromine substituents on the same carbon of the aromatic ring were evaluated with a computational approach. In accordance with this purpose, simultaneously, DFT-based calculations were performed for vacuum and two different surroundings (DMSO and water) on methaqualone (Q1), etaqualone (Q2), mecloqualone (Q3), and mebroqualone (Q4) compounds by using the B3LYP functional and 6-311++G(d, p) split-valence triple zeta basis set. The computed thermodynamic quantities revealed that the halogen substitution was more preferable. The effect of substituent modification on electrostatic surface features was evaluated visually by molecular electrostatic potential (MEP) mapping technique. To shed light on the chemical reactivity behaviors of the Q1-Q4, DFT-based reactivity identifiers were computed. Also, the intramolecular interactions affected by substitution were evaluated on the basis of the Natural Bond Orbital (NBO) theory. The NBO results revealed that π-π* interactions predominate for each compound. The lipophilic character analyzes of the mentioned compounds were evaluated both numerically and visually. The data of both methods support each other.

Fluoroquinolones: Action, Synthesis and Applications in Antimicrobial Therapy

Abstract: In the late nineteenth century, diseases were assumed to be linked to the presence of microbes. The mortality rate dropped after the antiseptic approach was used. Good cleanliness and sanitation helped to drastically cut the death rate from infectious diseases. Antimicrobials were produced, and numerous pathogenic diseases were eradicated. Essential antibacterial drugs that are frequently utilized in clinical therapies include fluoroquinolones. Their synthetic pathway, action and therapeutic uses are described in this review. Their primary mechanism of action is the inhibition of bacterial DNA gyrase and topoisomerase IV, which are essential enzymes involved in transcription and DNA replication. Fluorination is one of the important structural change that improves their efficacy and spectrum of activity against a variety of infections. To enhance pharmacokinetics, substituent modification, fluorination, and cyclization of heterocycles are used in synthesis. Advances in synthetic chemistry have produced compounds that exhibit increased activity and decreased resistance. Clinical applications include treating respiratory, urinary tract, cutaneous, and gastrointestinal diseases. These drugs also show activity like antitumor, wound healing, antimycobacterial, etc. This review aims to provide researchers and academicians a brief account about the bacterial action, synthesis and clinical applications in antimicrobial therapy.

Iridium Pyridylpyrrolides Hyperpolarised by Para-Hydrogen.

Chemical activation of the nuclear singlet state of dihydrogen, para-hydrogen, can dramatically increase the sensitivity of magnetic resonance spectroscopy and imaging. Here, we show that the highly reversible activation of para-hydrogen by an iridium pyridylpyrrolide complex is capable of producing this hyperpolarisation effect. Bound alkene ligands exhibit signal enhancement without reduction to alkanes, which is in contrast to the most widely used hyperpolarisation catalysts. The complex is recoverable due to the highly reversible binding and release of H2, and result in enhanced hydride signals in a wide range of coordinating and non-coordinating deuterated solvents. Synthetic modification of the ligand substituents and the addition of co-ligands show a strong dependence of chemical structure on reactivity, which reveals an untapped potential to exploit pyridylpyrrolides as ligands in the development of tunable para-hydrogen induced hyperpolarisation catalysts or molecular probes.

Proline-derived quinoline formamide compounds as human urate transporter 1 inhibitors with potent uric acid-lowering activities

We report the design and synthesis of a series of proline-derived quinoline formamide compounds as human urate transporter 1 (URAT1) inhibitors via a ligand-based pharmacophore approach. Structure−activity relationship studies reveal that the replacement of the carboxyl group on the polar fragment with trifluoromethanesulfonamide and substituent modification at the 6-position of the quinoline ring greatly improve URAT1 inhibitory activity compared with lesinurad. Compounds 21c, 21e, 24b, 24c, and 23a exhibit potent activities against URAT1 with IC50 values ranging from 0.052 to 0.56 μM. Furthermore, compound 23a displays improved selectivity towards organic anion transporter 1 (OAT1), good microsomal stability, low potential for genotoxicity and no inhibition of the hERG K+ channel. Compounds 21c and 23a, which have superior pharmacokinetic properties, also demonstrate significant uric acid-lowering activities in a mouse model of hyperuricemia. Notably, 21c also exhibits moderate anti-inflammatory activity related to the gout inflammatory pathway. Compounds 21c and 23a with superior druggability are potential candidates for the treatment of hyperuricemia and gout.

Discovery of a Novel Thienopyrimidine Compound as a Urate Transporter 1 and Glucose Transporter 9 Dual Inhibitor with Improved Efficacy and Favorable Druggability.

Gout and hyperuricemia are metabolic diseases characterized with high serum uric acid (SUA) levels that significantly impact human health. Lesinurad, a uricosuric agent, is limited to concurrent use with xanthine oxidase inhibitors (XOIs) in clinical practice due to its restricted efficacy and potential nephrotoxicity. Herein, extensive structural modifications of lesinurad were conducted through scaffold hopping and substituent modification strategies, affording 54 novel derivatives containing pyrimidine-fused cyclic structures. Notably, the thienopyrimidine compound 29 demonstrated a remarkable 2-fold increase in SUA-lowering in vivo activity compared to lesinurad, while exhibiting potent inhibitory activity against the urate transporter 1 (URAT1, IC50 = 2.01 μM) and glucose transporter 9 (GLUT9, IC50 = 18.21 μM). Furthermore, it possessed a lower effective dosage of 0.5 mg/kg, favorable safety profile without any apparent acute toxicity at doses of 1000 mg/kg, and improved pharmacokinetic properties. Overall, we have discovered an efficacious URAT1/GLUT9 dual inhibitor for inhibiting urate reabsorption with favorable pharmacokinetic profiles.

N,O-Bidentated difluoroboron complexes based on pyridine-ester enolates: Facile synthesis, post-complexation modification, optical properties, and applications

An array of pyridine-ester enolate based organoboron complexes has been designed and synthesized via a one-pot cascade of Pd-catalyzed α-arylation and BF2 complexation. The rapid structure-activity relationship (SAR) studies indicated that unsymmetrical N,O-chelated BF2 complexes were highly fluorescent in solid state, and exhibited large Stokes shifts, excellent photostability, along with insensitivity to pH. The α-aryl group could not only modulate the electronic effect but also inhibit the intermolecular π-π stacking to promote the aggregation-induced emission (AIE) effect. DFT calculations and experiments identified that the intramolecular charge transfer properties of these N,O-chelates could be switched by the modification of substituents, resulting tunable fluorescence wavelengths. Furthermore, post-complexation modification was accomplished, including Suzuki-Miyaura cross-coupling, Buchwald-Hartwig amination, oxidative cleavage, along with a unique triple substitution reaction involving propargyl Grignard reagents. The exemplificative application of dimethylamine substituted boron complex as a reversible acidic vapor sensor was also demonstrated.

Design and Synthesis of Energetic Melt-Castable Materials by Substituent-Specific Modification.

With the increase in the demand for high-performance composite explosives, the search for advanced energetic melt-castable compounds has attracted increasing attention in the field of energetic materials. Herein, two new energetic materials with nitromethyl and azidomethyl substituents (1-(nitromethyl)-3,4-dinitro-1H-pyrazole (NMDNP) and 1-(azidomethyl)-3,4-dinitro-1H-pyrazole (AMDNP) were prepared by the substituent modification of a potential melt-castable molecule ((3,4-dinitro-1H-pyrazol-1-yl) methyl nitrate, MC-4), respectively. NMDNP exhibited a suitable melting point (90 °C), good thermal stability (Td : 185 °C) and excellent detonation performance (8484 m s-1 ) and impact sensitivity (25 J), thereby demonstrating promise as an energetic melt-castable material. Simultaneously, compared with the nitrato-methyl and azidomethyl substituents, the nitromethyl substituent exhibited greater advantages in regulating performance.

6-Azaspiro[2.5]octanes as small molecule agonists of the human glucagon-like peptide-1 receptor

Activation of the glucagon-like peptide-1 (GLP-1) receptor stimulates insulin release, lowers plasma glucose levels, delays gastric emptying, increases satiety, suppresses food intake, and affords weight loss in humans. These beneficial attributes have made peptide-based agonists valuable tools for the treatment of type 2 diabetes mellitus and obesity. However, efficient, and consistent delivery of peptide agents generally requires subcutaneous injection, which can reduce patient utilization. Traditional orally absorbed small molecules for this target may offer improved patient compliance as well as the opportunity for co-formulation with other oral therapeutics. Herein, we describe an SAR investigation leading to small-molecule GLP-1 receptor agonists that represent a series that parallels the recently reported clinical candidate danuglipron. In the event, identification of a benzyloxypyrimidine lead, using a sensitized high-throughput GLP-1 agonist assay, was followed by optimization of the SAR using substituent modifications analogous to those discovered in the danuglipron series. A new series of 6-azaspiro[2.5]octane molecules was optimized into potent GLP-1 agonists. Information gleaned from cryogenic electron microscope structures was used to rationalize the SAR of the optimized compounds.

Phenyl/benzoxazole-extended tetraphenylethene derivatives for reversible mechanochromism and acidichromism

Four tetraphenylethene-extended phenyl/benzoxazole compounds (TPEPBZs 1–4) were synthesized, which exhibited aggregation-induced emission behavior and multi-stimuli-responsive properties. Single-crystal structural analyses revealed that TPEPBZ-2 possessed the most planar conformation and a unique hydrogen-bonded organic framework structure, resulting in a redshifted emission. After being ground in an agate mortar, the morphologies of TPEPBZs 1–4 transformed from crystalline to amorphous state, and their luminescence was simultaneously shifted bathochromically to a green emission. It was proposed that the slight modification of substituents on the aggregation-induced emission luminogens (AIEgens) was a facile strategy to change their solid structures and further mechanochromic contrasts before and after grinding. The initial emission of TPEPBZs 1–4 could be returned upon fuming with dichloromethane vapor, indicating reversible mechanochromic properties. Moreover, TPEPBZs 1–4 exhibited significant acidichromic behavior. The emission of TPEPBZs 1–4 could change reversibly between their initial color and subsequent orange emission under trifluoroacetic acid and triethylamine stimuli. Finally, TPEPBZ-1 with the best mechanochromic and acidichromic properties was successfully applied to paper for anti-counterfeiting applications.

Design, synthesis, and pharmacological evaluation of N-(3-carbamoyl-1H-pyrazol-4-yl)-1,3-oxazole-4-carboxamide derivatives as interleukin-1 receptor-associated kinase 4 inhibitors with reduced potential for cytochrome P450 1A2 induction

Interleukin-1 receptor-associated kinase 4 (IRAK4) is a critical molecule in Toll-like receptor/interleukin-1 receptor signaling and an attractive therapeutic target for a wide range of inflammatory and autoimmune diseases as well as cancers. In our search for novel IRAK4 inhibitors, we conducted structural modification of a thiazolecarboxamide derivative 1, a lead compound derived from high-throughput screening hits, to elucidate structure–activity relationship and improve drug metabolism and pharmacokinetic (DMPK) properties. First, conversion of the thiazole ring of 1 to an oxazole ring along with introduction of a methyl group at the 2-position of the pyridine ring aimed at reducing cytochrome P450 (CYP) inhibition were conducted to afford 16. Next, modification of the alkyl substituent at the 1-position of the pyrazole ring of 16 aimed at improving CYP1A2 induction properties revealed that branched alkyl and analogous substituents such as isobutyl (18) and (oxolan-3-yl)methyl (21), as well as six-membered saturated heterocyclic groups such as oxan-4-yl (2), piperidin-4-yl (24, 25), and dioxothian-4-y (26), are effective for reducing induction potential. Representative compound AS2444697 (2) exhibited potent IRAK4 inhibitory activity with an IC50 value of 20 nM and favorable DMPK properties such as low risk of drug–drug interactions mediated by CYPs as well as excellent metabolic stability and oral bioavailability.

Diiodo-BODIPY Sensitizing of the [Mo3S13]2- Cluster for Noble-Metal-Free Visible-Light-Driven Hydrogen Evolution within a Polyampholytic Matrix.

We report on a photocatalytic setup that utilizes the organic photosensitizer (PS) diiodo-BODIPY and the non-precious-metal-based hydrogen evolution reaction (HER) catalyst (NH4)2[Mo3S13] together with a polyampholytic unimolecular matrix poly(dehydroalanine)-graft-poly(ethylene glycol) (PDha-g-PEG) in aqueous media. The system shows exceptionally high performance with turnover numbers (TON > 7300) and turnover frequencies (TOF > 450 h-1) that are typical for noble-metal-containing systems. Excited-state absorption spectra reveal the formation of a long-lived triplet state of the PS in both aqueous and organic media. The system is a blueprint for developing noble-metal-free HER in water. Component optimization, e.g., by modification of the meso substituent of the PS and the composition of the HER catalyst, is further possible.

Synthetic Strategies Towards and Around the CF3S(O) Structural Motif

Abstract: This account reviews synthetic strategies for constructing and transforming CF3S(O) structural moiety developed during the last decades. Existing paths to the synthesis of CF3S(O)-containing organic molecules are demonstrated. Among these are direct trifluoromethanesulfinylation reactions, oxidation of compounds having CF3S function, substitutive trifluoromethylation reactions of sulfinic acid halides and esters, and rearrangement reactions. The reactivity and substituent modification procedures are covered. Also included are sections on the synthetic application of the CF3S(O)-bearing molecules for the design of biologically important molecules and synthesis of other organofluorine compounds.

A New Concept of Enhancing the Anticancer Activity of Manganese Terpyridine Complex by Oxygen-Containing Substituent Modification.

Eleven manganese 4'-substituted-2,2':6',2″-terpyridine complexes (1a-1c and 2a-2h) with three non-oxygen-containing substituents (L1a-L1c: phenyl, naphthalen-2-yl and naphthalen-1-yl, L1a-L1c) and eight oxygen-containing substituents (L2a-L2h: 4-hydroxyl-phenyl, 3-hydroxyl-phenyl, 2-hydroxyl-phenyl, 4-methoxyl-phenyl, 4-carboxyl-phenyl, 4-(methylsulfonyl)phenyl, 4-nitrophenyl and furan-2-yl) were prepared and characterized by IR, elemental analysis or single crystal X-ray diffraction. In vitro data demonstrate that all of these show higher antiproliferative activities than cisplatin against five human carcinoma cell lines: A549, Bel-7402, Eca-109, HeLa and MCF-7. Compound 2d presents the strongest antiproliferative effect against A549 and HeLa cells, with IC50 values being 0.281 μM and 0.356 μM, respectively. The lowest IC50 values against Bel-7402 (0.523 μM) Eca-109 (0.514 μM) and MCF-7 (0.356 μM) were obtained for compounds 2h, 2g and 2c, respectively. Compound 2g with a nitro group showed the best results on the whole, with relevantly low IC50 values against all the tested tumor cells. The DNA interactions with these compounds were studied by circular dichroism spectroscopic and molecular modeling methods. Spectrophotometric results revealed that the compounds have strong affinities in binding with DNA as intercalators, and the binding induces DNA conformational transition. Molecular docking studies indicate that the binding is contributed by the π-π stacking and hydrogen bonds. The anticancer activities of the compounds are correlated with their DNA binding ability, and the modification of oxygen-containing substituents significantly enhanced the anticancer activity, which could provide a new rationale for the future design of terpyridine-based metal complexes with antitumor potential.

Cis-(3-benzyloxy-1,1-cyclobutanedicarboxylato κ2O,O′)bis(1-methyl-1H-pyrazole)platinum(II)

A huge variety of types of cancer makes it necessary to search for new effective drugs with a defined molecular target. Modification of substituents in ligands based on 3-hydroxy-1,1-cyclobutanedicarboxylic acid are one of the effective directions to design a better version of carboplatin. In the present study, we combined in one molecule a derivative of 3-hydroxycyclobutane-1,1-dicarboxylic acid and N-methylpyrazole as a carrier ligand. The antiproliferative of the novel complex Pt(II) was established for cell lines HCT116, MCF7, A549, and WI38 by means of a standard MTT colorimetric assay.