Journal of Molecular Recognition最新文献

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Identification of DPP-IV inhibitory peptides derived from buffalo colostrum: Mining through bioinformatics, in silico and in vitro approaches 鉴定从水牛初乳中提取的 DPP-IV 抑制肽:通过生物信息学、硅学和体外方法进行挖掘。
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-05-27 DOI: 10.1002/jmr.3090
Arpitha Ashok, Aparna H. S.
{"title":"Identification of DPP-IV inhibitory peptides derived from buffalo colostrum: Mining through bioinformatics, in silico and in vitro approaches","authors":"Arpitha Ashok,&nbsp;Aparna H. S.","doi":"10.1002/jmr.3090","DOIUrl":"10.1002/jmr.3090","url":null,"abstract":"<p>Bioactive peptides derived from foods provide physiological health benefits beyond nutrition. This study focused on profiling small peptide inhibitors against two key serine proteases, dipeptidyl peptidase-IV (DPP-IV) and prolyl oligopeptidase (POP). DPP-IV is a well-known protein involved in diverse pathways regulating inflammation, renal, cardiovascular physiology, and glucose homeostasis. POP is yet another key target protein for neurodegenerative disorders. The study evaluated peptide libraries of buffalo colostrum whey and fat globule membrane proteins derived from pepsin and pepsin–pancreatin digestion through in silico web tools and structure-based analysis by molecular docking and binding free-energy estimation, followed by in vitro assay for DPP-IV inhibition for the lead peptides. The bioinformatic study indicated 49 peptides presented motifs with DPP-IV inhibition while 5 peptides with sequences for POP inhibition. In the molecular docking interactions study, 22 peptides interacted with active site residues of DPP-IV and 3 peptides with that of POP. The synthesized peptides, SFVSEVPEL and LTFQHNF inhibited DPP-IV in vitro with an IC50 of 193.5 μM and 1.782 mM, respectively. The study revealed the key residues for inhibition of DPP-IV and POP thus affirming the DPP-IV inhibitory potential of milk-derived peptides.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141158512","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Nanomechanical collective vibration of SARS-CoV-2 spike proteins SARS-CoV-2 穗状蛋白质的纳米机械集体振动
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-05-21 DOI: 10.1002/jmr.3091
Changfeng Cao, Guangxu Zhang, Xueling Li, Yadi Wang, Junhong Lü
{"title":"Nanomechanical collective vibration of SARS-CoV-2 spike proteins","authors":"Changfeng Cao,&nbsp;Guangxu Zhang,&nbsp;Xueling Li,&nbsp;Yadi Wang,&nbsp;Junhong Lü","doi":"10.1002/jmr.3091","DOIUrl":"10.1002/jmr.3091","url":null,"abstract":"<p>The development of effective therapeutics against COVID-19 requires a thorough understanding of the receptor recognition mechanism of the SARS-CoV-2 spike (S) protein. Here the multidomain collective dynamics on the trimer of the spike protein has been analyzed using normal mode analysis (NMA). A common nanomechanical profile was identified in the spike proteins of SARS-CoV-2 and its variants. The profile involves collective vibrations of the receptor-binding domain (RBD) and the N-terminal domain (NTD), which may mediate the physical interaction process. Quantitative analysis of the collective modes suggests a nanomechanical property involving large-scale conformational changes, which explains the difference in receptor binding affinity among different variants. These results support the use of intrinsic global dynamics as a valuable perspective for studying the allosteric and functional mechanisms of the S protein. This approach also provides a low-cost theoretical toolkit for screening potential pathogenic mutations and drug targets.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141076085","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A versatile ratiometric fluorescence nanoprobe for the determination of clonazepam in patients' plasma samples 用于测定患者血浆样本中氯硝西泮的多功能比率荧光纳米探针。
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-05-17 DOI: 10.1002/jmr.3088
Mohammad Abbasi, Abolghasem Jouyban, Fatemeh Ranjbar, Jafar Soleymani
{"title":"A versatile ratiometric fluorescence nanoprobe for the determination of clonazepam in patients' plasma samples","authors":"Mohammad Abbasi,&nbsp;Abolghasem Jouyban,&nbsp;Fatemeh Ranjbar,&nbsp;Jafar Soleymani","doi":"10.1002/jmr.3088","DOIUrl":"10.1002/jmr.3088","url":null,"abstract":"<p>Despite the necessity of the study of therapeutic drug monitoring of clonazepam (CLZ), there are only a few fast detection methods available for determining CLZ in biological media. This study aims to develop a cost-effective and ratiometric probe for the quantification of CLZ in plasma samples. Fluorescent polydopamine nanoparticles were produced through a self-polymerization process at a pH of 8.5. Rhodamine B molecules were employed as a fluorescent reference material, emitting stable fluorescence in the visible range. The fabricated probe exhibited a specific detection capability for CLZ. The fluorescence emission of the probe was enhanced in two concentration ranges: from 50 ng/mL to 1.0 μg/mL and from 1.0 to 15.0 μg/mL with a lower limit of quantification of 50 ng/mL, indicating the sensitivity of the probe for detecting CLZ plasma levels. The accuracy of the probe is favorable which could be recommended for CLZ monitoring in the biological media. Furthermore, this probe is highly specific towards CLZ in the presence of various interfering agents which is mainly caused by its ratiometric nature. The developed platform showed high reliability in quantifying CLZ concentrations in patients' plasma samples. Hence, the fabricated probe could be recommended as a reliable method for the routine detection of CLZ in clinical settings.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140957937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Integrated spectroscopic and computational analyses unravel the molecular interaction of pesticide azinphos-methyl with bovine beta-lactoglobulin 光谱和计算综合分析揭示了农药谷硫磷与牛β-乳球蛋白的分子相互作用
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-04-30 DOI: 10.1002/jmr.3086
Nasser Abdulatif Al-Shabib, Javed Masood Khan, Ajamaluddin Malik, Abdulaziz AlAmri, Md Tabish Rehman, Mohamed F. AlAjmi, Fohad Mabood Husain
{"title":"Integrated spectroscopic and computational analyses unravel the molecular interaction of pesticide azinphos-methyl with bovine beta-lactoglobulin","authors":"Nasser Abdulatif Al-Shabib,&nbsp;Javed Masood Khan,&nbsp;Ajamaluddin Malik,&nbsp;Abdulaziz AlAmri,&nbsp;Md Tabish Rehman,&nbsp;Mohamed F. AlAjmi,&nbsp;Fohad Mabood Husain","doi":"10.1002/jmr.3086","DOIUrl":"10.1002/jmr.3086","url":null,"abstract":"<p>Organophosphorus are typically hazardous chemicals used in the pharmaceutical, agricultural, and other industries. They pose a serious risk to human life and can be fatal upon direct exposure. Hence, studying the interaction between such compounds with proteins is crucial for environmental, health, and food safety. In this study, we investigated the interaction mechanism between azinphos-methyl (AZM) and β-lactoglobulin (BLG) at pH 7.4 using a combination of biophysical techniques. Intrinsic fluorescence investigations revealed that BLG fluorescence was quenched in the presence of increasing AZM concentrations. The quenching mechanism was identified as static, as evidenced by a decrease in the fluorescence quenching constant (1.25 × 10<sup>4</sup>, 1.18 × 10<sup>4</sup>, and 0.86 × 10<sup>4</sup> M<sup>−1</sup>) with an increase in temperatures. Thermodynamic calculations (Δ<i>H</i> &gt; 0; Δ<i>S</i> &gt; 0) affirmed the formation of a complex between AZM and BLG through hydrophobic interactions. The BLG's secondary structure was found to be increased due to AZM interaction. Ultraviolet –visible spectroscopy data showed alterations in BLG conformation in the presence of AZM. Molecular docking highlighted the significant role of hydrophobic interactions involving residues such as Val43, Ile56, Ile71, Val92, Phe105, and Met107 in the binding between BLG and AZM. A docking energy of −6.9 kcal mol<sup>−1</sup>, and binding affinity of 1.15 × 10<sup>5</sup> M<sup>−1</sup> suggest spontaneous interaction between AZM and BLG with moderate to high affinity. These findings underscore the potential health risks associated with the entry of AZM into the food chain, emphasizing the need for further consideration of its impact on human health.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140830372","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Dual template (epitope) imprinted electrode for sensing bacterial protein with high selectivity 用于高选择性感测细菌蛋白质的双模板(表位)印迹电极
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-04-30 DOI: 10.1002/jmr.3087
Akriti Srivastava, Manjeet Harijan, Rajniti Prasad, Meenakshi Singh
{"title":"Dual template (epitope) imprinted electrode for sensing bacterial protein with high selectivity","authors":"Akriti Srivastava,&nbsp;Manjeet Harijan,&nbsp;Rajniti Prasad,&nbsp;Meenakshi Singh","doi":"10.1002/jmr.3087","DOIUrl":"10.1002/jmr.3087","url":null,"abstract":"<p>Epitope imprinting has shown better prospects to synthesize synthetic receptors for proteins. Here, dual epitope imprinted polymer electrode (DEIP) matrix was fabricated on gold surface of electrochemical quartz crystal microbalance (EQCM) for recognition of target epitope sequence in blood samples of patients suffering from brain fever. Epitope sequences from outer membrane protein Por B of <i>Neisseria meningitidis</i> (MC58) bacteria predicted through immunoinformatic tools were chosen for imprinting. Self-assembled monolayers (SAM) of cysteine appended epitope sequences on gold nanoparticles were subjected to polymerization prior to electrodeposition on gold coated EQCM electrode. The polymeric matrix was woven around the cysteine appended epitope SAMs through multiple monomers (3-sulfo propyl methacrylate potassium salt (3-SPMAP), benzyl methacrylate (BMA)) and crosslinker (N, N′-methylene-<i>bis</i>-acrylamide). On extraction of the peptide sequences, imprinted cavities were able to selectively and specifically bind targeted epitope sequences in laboratory samples as well as ‘real’ samples of patients. Selectivity of sensor was examined through mismatched peptide sequences and certain plasma proteins also. The sensor was able to show specific binding towards the blood samples of infected patients, even in the presence of ‘matrix’ and other plasma proteins such as albumin and globulin. Even other peptide sequences, similar to epitope sequences only with one or two amino acid mismatches were also unable to show any binding. The analytical performance of DEIP-EQCM sensor was tested through selectivity, specificity, matrix effect, detection limit (0.68–1.01 nM), quantification limit (2.05–3.05 nM) and reproducibility (RSD ~ 5%). Hence, a diagnostic tool for bacterium causing meningitis is successfully fabricated in a facile manner which will broaden the clinical access and make efficient population screening feasible.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140830361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Dissimilar effects of the hydrophilic carbon dots on the amyloid aggregation of two model proteins and the mechanism discussion 亲水性碳点对两种模型蛋白质淀粉样蛋白聚集的不同影响及其机理探讨
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-04-10 DOI: 10.1002/jmr.3085
Jie Li, Yuangong Zhang, Jiawei Dong, Dexin Li, Xinwu Ba, Sujuan Wang
{"title":"Dissimilar effects of the hydrophilic carbon dots on the amyloid aggregation of two model proteins and the mechanism discussion","authors":"Jie Li,&nbsp;Yuangong Zhang,&nbsp;Jiawei Dong,&nbsp;Dexin Li,&nbsp;Xinwu Ba,&nbsp;Sujuan Wang","doi":"10.1002/jmr.3085","DOIUrl":"10.1002/jmr.3085","url":null,"abstract":"<p>Many proteins could aggregate into amyloid fibrils under certain conditions. However, the aggregation process and morphology of the fibrils may be significantly different because of the distinct protein structure. In this article, the hydrophilic carbon dots (Lys-CA-CDs) were prepared using lysine (Lys) and citric acid (CA) as reactant under the assistance of a microwave. The dissimilar modulation effect of Lys-CA-CDs on the aggregation process of distinct structure protein was further investigated, where bovine serum albumin (BSA) and hen egg white lysozyme (HEWL) were chosen as model proteins. All results showed that Lys-CA-CDs displayed the contrary influence on the aggregation process of BSA and HEWL. Lys-CA-CDs could induce BSA to aggregate into more wormlike fibrils and inhibit the aggregation of HEWL into hair-like fibrils. The influence on the aggregation process of BSA may be assigned to the increased concentration of BSA around the Lys-CA-CDs caused by their interaction. However, inserting of Lys-CA-CDs into the inner structure of HEWL led to the change of protein secondary structure. The change of secondary structure further made it difficult for HEWL to aggregate into fibrils and Lys-CA-CDs showed the inhibition effect on HEWL aggregation.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140592227","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Exploring the interaction of a potent anti-cancer drug Selumetinib with bovine serum albumin: Spectral and computational attributes 探索强效抗癌药物塞卢米替尼与牛血清白蛋白的相互作用:光谱和计算属性
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-04-10 DOI: 10.1002/jmr.3084
Ankita Jalan, Satyam Sangeet, Amit Kumar Pradhan, N. Shaemningwar Moyon
{"title":"Exploring the interaction of a potent anti-cancer drug Selumetinib with bovine serum albumin: Spectral and computational attributes","authors":"Ankita Jalan,&nbsp;Satyam Sangeet,&nbsp;Amit Kumar Pradhan,&nbsp;N. Shaemningwar Moyon","doi":"10.1002/jmr.3084","DOIUrl":"10.1002/jmr.3084","url":null,"abstract":"<p>The binding of drugs to plasma proteins determines its fate within the physiological system, hence profound understanding of its interaction within the bloodstream is important to understand its pharmacodynamics and pharmacokinetics and thereby its therapeutic potential. In this regard, our work delineates the mechanism of interaction of Selumetinib (SEL), a potent anti-cancer drug showing excellent effect against multiple solid tumors, with plasma protein bovine serum albumin (BSA), using methods such as absorption, steady-state fluorescence, time-resolved, fluorescence resonance energy transfer, Fourier transform infrared spectra (FTIR), circular dichroism (CD), synchronous and 3D-fluorescence, salt fluorescence, molecular docking and molecular dynamic simulations. The BSA fluorescence intensity was quenched with increasing concentration of SEL which indicates interactions of SEL with BSA. Stern–Volmer quenching analysis and lifetime studies indicate the involvement of dynamic quenching. However, some contributions from the static quenching mechanism could not be ruled out unambiguously. The association constant was found to be 5.34 × 10<sup>5</sup> M<sup>−1</sup> and it has a single binding site. The Förster distance (r) indicated probable energy transmission between the BSA and SEL. The positive entropy changes and enthalpy change indicate that the main interacting forces are hydrophobic forces, also evidenced by the results of molecular modeling studies. Conformation change in protein framework was revealed from FTIR, synchronous and 3D fluorescence and CD studies. Competitive binding experiments as well as docking studies suggest that SEL attaches itself to site I (subdomain IIA) of BSA where warfarin binds. Molecular dynamic simulations indicate the stability of the SEL–BSA complex. The association energy between BSA and SEL is affected in the presence of different metals differently.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 4","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140591983","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Some pyrroles as inhibitors of the pentose phosphate pathways enzymes: An in vitro and molecular docking study 一些吡咯类化合物作为磷酸戊糖途径酶的抑制剂:体外和分子对接研究。
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-03-21 DOI: 10.1002/jmr.3083
Muhammet Serhat Özaslan
{"title":"Some pyrroles as inhibitors of the pentose phosphate pathways enzymes: An in vitro and molecular docking study","authors":"Muhammet Serhat Özaslan","doi":"10.1002/jmr.3083","DOIUrl":"10.1002/jmr.3083","url":null,"abstract":"<p>Glucose-6-phosphate dehydrogenase (G6PD) and 6-phosphogluconate dehydrogenase (6PGD) are pentose phosphate pathway enzymes. Compounds with a heterocyclic pyrrole ring system containing this atom can be derivatized with various functional groups into highly effective bioactive agents. In this study, pyrrole derivatives on these enzyme's activity were investigated. The IC<sub>50</sub> values of different concentrations of pyrrole derivatives for G6PD were found in the range of 0.022–0.221 mM <i>K</i><sub>i</sub> values 0.021 ± 0.003–0.177 ± 0.021 and for 6PGD IC<sub>50</sub> values 0.020–0.147, mM <i>K</i><sub>i</sub> values 0.013 ± 0.002–0.113 ± 0.030 mM. The 2-acetyl-1-methylpyrrole (<b>1g</b>) showed the best inhibition value for G6PD and 6PGD enzymes. In addition, in silico molecular docking experiments were performed to elucidate how these pyrrole derivatives (<b>1a</b>–<b>g</b>) interact with the binding sites of the target enzymes. The study's findings on pyrrole derivatives could be used to create innovative therapeutics that could be a treatment for many diseases, especially cancer manifestations.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 3","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-03-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140184709","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Insights into the G-quadruplex DNA interaction landscape: Comparative analysis of anionic Zn(II) and Co(II) phthalocyanine-tetrasulfonate complexes 洞察 G 型四联 DNA 的相互作用:阴离子 Zn(II) 和 Co(II) 酞菁-四磺酸盐配合物的对比分析。
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-03-12 DOI: 10.1002/jmr.3082
Efkan Bağda
{"title":"Insights into the G-quadruplex DNA interaction landscape: Comparative analysis of anionic Zn(II) and Co(II) phthalocyanine-tetrasulfonate complexes","authors":"Efkan Bağda","doi":"10.1002/jmr.3082","DOIUrl":"10.1002/jmr.3082","url":null,"abstract":"<p>G-quadruplexes play a pivotal role in regulating various cellular processes, including gene expression and replication, making them essential structures in understanding, and manipulating cellular functions. The development of G-quadruplex ligands holds significant promise in therapeutic and research applications, offering targeted tools to modulate G-quadruplex structures and potentially influence critical biological pathways. An exciting frontier in G-quadruplex research lies in the exploration of anionic ligands, and their profound impact on stabilizing and modulating G-quadruplex DNA. In this study, the interaction of two anionic phthalocyanine compounds (Zinc (II) phthalocyanine 3,4′,4″,4‴-tetrasulfonic acid, tetrasodium salt, <b>ZnAPC</b>; cobalt (II) phthalocyanine 3,4′,4″,4‴-tetrasulfonic acid, tetrasodium salt, <b>CoAPC</b>) and three separate G-quadruplex-forming DNA sequences was investigated. Interactions were carried out by DNA polymerase stop studies along with spectroscopic studies. According to the results of experimental data, it was determined that <b>ZnAPC</b> actively interacts with the G-quadruplex DNA structures. On the other hand, it was thought that the interaction with <b>CoAPC</b> was less and even occurred in simple electrostatic interactions. K<sub>D</sub> constants and B<sub>max</sub> constants for the interaction with <b>ZnAPC</b> were calculated. The K<sub>D</sub> constants for <b>ZnAPC</b> were found to be (1.16 ± 0.07) × 10<sup>−5</sup>, (9.75 ± .24) × 10<sup>−6</sup> and (1.00 ± 0.36) × 10<sup>−4</sup> M for AS1411, Vegf, and Tel21, respectively. Accordingly, it was concluded that <b>ZnAPC</b> interacts with G-quadruplex DNA ligands effectively.</p>","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 3","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140110516","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Editorial: The Journal of Molecular Recognition: Changing of the guard 社论:分子识别杂志》:新老交替。
IF 2.7 4区 生物学
Journal of Molecular Recognition Pub Date : 2024-03-11 DOI: 10.1002/jmr.3081
Rebecca C. Wade
{"title":"Editorial: The Journal of Molecular Recognition: Changing of the guard","authors":"Rebecca C. Wade","doi":"10.1002/jmr.3081","DOIUrl":"10.1002/jmr.3081","url":null,"abstract":"&lt;p&gt;At the beginning of 2024, I took over from Marc van Regenmortel as the third Editor-in-Chief of JMR. The journal was established by Irwin Chaiken in 1988 with affiliation to the International Society for Molecular Recognition (ismr.org) and with a strong focus on methods to measure affinity. Presciently, and quite unusually, the journal was founded to focus on a phenomenon—molecular recognition—and it is a phenomenon that is central to biomolecular science. This has enabled the content of the journal to evolve over time as new techniques, ideas, and applications have emerged. In 1999, Marc van Regenmortel became Editor-in-Chief, introduced new types of articles, and broadened the scope of the journal. For example, the series of comprehensive critical reviews on methods, such as surface plasmon resonance, isothermal calorimetry, and molecular docking, were particularly well read. We, the editors and advisory board members, thank him for his vision, inspiration, dedication, and hard work in successfully steering the journal over the last 25 years. He leaves the journal on solid foundations, publishing on a broad range of molecular recognition topics. Marc sought to make the journal, not only THE place to publish high-quality research on molecular recognition but also a venue for discussion on concepts and controversial issues relating to molecular recognition. We will continue to pursue these aims. For this purpose, we are introducing an additional article category called “Perspective” for short articles with commentaries, discussions, or reviews on current topics. The first two Perspectives are on Marc's contributions to science and the scientific community&lt;span&gt;&lt;sup&gt;1, 2&lt;/sup&gt;&lt;/span&gt; and highly recommended reading. We will also aim to nurture the broad community of molecular recognition researchers, for example, through awards at conferences and with the establishment of a new Early Career Advisory Board for the journal.&lt;/p&gt;&lt;p&gt;Now is an appropriate time for JMR to enter into its third epoch. The growing prominence of computational science and the dramatic advances in artificial intelligence are changing how research into molecular recognition is done. This is reflected in the appointment of a theoretical and computational scientist at the helm of JMR. Moreover, the panel of Associate Editors includes two theoreticians as well as other scientists who combine computation with their experimental work. We will be looking to see how artificial intelligence and data science complement our existent methodological toolbox to accelerate molecular recognition research and enable the discovery of new molecules, new binding mechanisms, and new conceptual insights. However, in all the excitement over the new possibilities that such approaches bring, it is important to ensure that computational and machine learning tools and techniques are applied rigorously and carefully, with experimental validation whenever possible. Moreover, we expect that AI will be a","PeriodicalId":16531,"journal":{"name":"Journal of Molecular Recognition","volume":"37 3","pages":""},"PeriodicalIF":2.7,"publicationDate":"2024-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/jmr.3081","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140101756","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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