Peptide Science最新文献_第5页

A compositional view comparing modern biological condensates and primitive phase‐separated compartment 现代生物凝析物与原始相分离隔室的组成比较

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-08-30 DOI: 10.1002/pep2.24331

Selene M. C. Cannelli, Ritvik Gupta, Tan Nguyen, Arunava Poddar, Srishti Sharma, Prachiti V. Vithole, Tony Z. Jia

{"title":"A compositional view comparing modern biological condensates and primitive phase‐separated compartment","authors":"Selene M. C. Cannelli, Ritvik Gupta, Tan Nguyen, Arunava Poddar, Srishti Sharma, Prachiti V. Vithole, Tony Z. Jia","doi":"10.1002/pep2.24331","DOIUrl":"https://doi.org/10.1002/pep2.24331","url":null,"abstract":"Liquid–liquid phase separation (LLPS) is a process that often occurs due to binding between oppositely charged biopolymers, and has gained increasing attention recently due to their ubiquity in biological systems and ability to direct essential cellular processes. However, while these discoveries in biology are recent, the field of origins of life has been investigating LLPS for nearly 100 years, ever since the first suggestions by Oparin and Haldane that primitive LLPS could have been precursors to the first cells on Earth. Since then, a significant amount of work has been done to elucidate different primitive LLPS systems that could have been relevant as protocellular models. Given the structural similarities between primitive LLPS and modern membraneless organelles, there may even be an evolutionary link between the two, although this remains a question to be answered. Nevertheless, in order to answer this, a source that compares compositional aspects of modern biological condensates and primitive LLPS is necessary. Here, we first focus on membraneless organelles composed of intrinsically disordered proteins (IDPs) and nucleic acids. Then, as a parallel, we explore primitive membraneless compartments composed of simple biopolymers such as short peptides and nucleic acids. This is followed by a discussion of how the first biomolecules on Earth may have originated, analyzing the environmental and chemical conditions that could have favored primitive LLPS processes. Finally, we directly compare composition of modern biological condensates and primitive phase‐separated compartments, further discussing the potential of primitive IDPs on early Earth, but also the evolution from membraneless to membrane‐bound cells. This review aims to provide a compositional comparison of modern and primitive phase‐separated structures in order to help researchers in both fields understand the current state of knowledge, how this knowledge evolved, and the current gaps that need to be further addressed.","PeriodicalId":19825,"journal":{"name":"Peptide Science","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2023-08-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44488885","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

An in vitro evaluation of the biocompatibility of proline‐alanine‐serine peptides compared with polyethylene glycol and polyglycerol 脯氨酸-丙氨酸-丝氨酸肽与聚乙二醇和聚甘油生物相容性的体外评价

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-08-11 DOI: 10.1002/pep2.24330

Qianyu Zhang, Hongjing Chen, Huali Chen

引用次数: 0

Theoretical study of CHYMO32 peptide obtained by in silico fragmentation of the escapin protein isolated from marine hare Aplysia californica: A prediction for antimicrobial activity 从加州海兔Aplysia californica分离的escain蛋白的计算机裂解获得CHYMO32肽的理论研究：抗菌活性的预测

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-08-01 DOI: 10.1002/pep2.24329

Macley Silva Cardoso, J. M. Boeira

{"title":"Theoretical study of CHYMO32 peptide obtained by in silico fragmentation of the escapin protein isolated from marine hare Aplysia californica: A prediction for antimicrobial activity","authors":"Macley Silva Cardoso, J. M. Boeira","doi":"10.1002/pep2.24329","DOIUrl":"https://doi.org/10.1002/pep2.24329","url":null,"abstract":"The scenario involving the alarming growth of bacterial resistance has never been more worrying. Increasingly selective and sophisticated bacterial strains resistant to traditional antibiotics are a threat to the health system worldwide. Therefore, antimicrobial peptides (AMPs) represent a promising path in the fight against multidrug‐resistant pathogens. Here, using an in silico methodology, employing robust software, the present study aims to analyze the chymo32 peptide, obtained by enzymatic fragmentation of the escapin protein to test its possible antibacterial effects, correlating them with their physical–chemical nature. In this study, we used in silico predictions such as structural prediction, physicochemical properties, hemolytic activity, and prediction of activity for immunomodulation. Among the 378 peptide fragments obtained from the original protein, chymo32 was the only peptide selected in the field of screenings involving sequence length, cationicity, hydrophobicity, and prediction of antibacterial activity. The physical–chemical properties of chymo32 are promising, as well as its prediction as AMP. The immunomodulation predictions showed no immunogenic potential, which indicates greater safety in the posterior steps in vitro, also highlighting the absence of hemolytic activity, one of the main problems associated with AMPs in the therapeutic clinic.","PeriodicalId":19825,"journal":{"name":"Peptide Science","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2023-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49146729","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

Toward a broad‐spectrum peptide‐based inhibitor of small multidrug resistance efflux pumps 小型多药耐药外排泵广谱肽基抑制剂的研究

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-07-23 DOI: 10.1002/pep2.24327

Chloe J. Mitchell, Kha M. Nguyen, C. Deber

引用次数: 0

Bicyclic peptides: Paving the road for therapeutics of the future 双环肽：为未来的治疗方法铺平道路

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-07-09 DOI: 10.1002/pep2.24326

S. Ullrich, Christoph Nitsche

引用次数: 0

An in‐silico‐based study identified peptide inhibitors that can block the egression of the monkeypox virus by inhibiting the p37 protein target 一项基于计算机的研究确定了肽抑制剂，可以通过抑制p37蛋白靶点来阻断猴痘病毒的传播

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-07-04 DOI: 10.1002/pep2.24325

Swati Singh, Varshita Srivastava, P. Godara, H. Banavath, Harshita Tak, Arya Nayak, D. Kumari, B. Naik, D. Prusty

{"title":"An in‐silico‐based study identified peptide inhibitors that can block the egression of the monkeypox virus by inhibiting the p37 protein target","authors":"Swati Singh, Varshita Srivastava, P. Godara, H. Banavath, Harshita Tak, Arya Nayak, D. Kumari, B. Naik, D. Prusty","doi":"10.1002/pep2.24325","DOIUrl":"https://doi.org/10.1002/pep2.24325","url":null,"abstract":"Monkeypox is a zoonotic disease caused by the Poxviridiea family virus Monkeypox. According to the Centers for Disease Control and Prevention, 70,420 monkeypox virus infections had been reported in 107 countries as of October 6, 2022. New studies have concluded that the monkeypox outbreak is caused by a strain with a unique mutation, increasing the possibility that the virus may develop resistance to current medicines by accumulating mutations in therapeutic targets. As peptide‐based therapeutics impede the drug target through multiple interactions, it may offer a better therapeutic solution to the possible drug resistance issue related to monkeypox treatment. Therefore, in this work, we screened an antiviral peptide library, the CPP site 2.0 database, against the p37 target protein using molecular docking approaches. The p37 is required for the viral pathogen's successful egression and spread. The allergenicity and physicochemical properties of the peptides were thoroughly analyzed before the molecular docking studies for selecting druggable candidates. The interactions of the peptides bearing the highest docking score were validated further by using molecular dynamics (MD) simulation studies. Our investigation revealed that two cell‐penetrating peptides of the CPP site 2.0 database might effectively prevent the egression and spread of the MPXV by inhibiting p37. Following more testing, these peptides can be explored in developing peptide‐based therapies against the MPX therapy.","PeriodicalId":19825,"journal":{"name":"Peptide Science","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2023-07-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43220124","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: 1

Issue Information 问题信息

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-07-01 DOI: 10.1002/pep2.24278

引用次数: 0

Development of Convergent Hybrid Phase Ligation for Efficient and Convenient Total Synthesis of Proteins. 开发用于高效便捷地全合成蛋白质的聚合混合相连接技术。

IF 1.5 4区生物学

Peptide Science Pub Date : 2023-07-01 Epub Date: 2023-05-25 DOI: 10.1002/pep2.24323

Ziyong Z Hong, Ruixuan R Yu, Xiaoyu Zhang, Allison M Webb, Nathaniel L Burge, Michael G Poirier, Jennifer J Ottesen

{"title":"Development of Convergent Hybrid Phase Ligation for Efficient and Convenient Total Synthesis of Proteins.","authors":"Ziyong Z Hong, Ruixuan R Yu, Xiaoyu Zhang, Allison M Webb, Nathaniel L Burge, Michael G Poirier, Jennifer J Ottesen","doi":"10.1002/pep2.24323","DOIUrl":"10.1002/pep2.24323","url":null,"abstract":"<p><p>Simple and efficient total synthesis of homogeneous and chemically modified protein samples remains a significant challenge. Here, we report development of a convergent hybrid phase native chemical ligation (CHP-NCL) strategy for facile preparation of proteins. In this strategy, proteins are split into ~100-residue blocks, and each block is assembled on solid support from synthetically accessible peptide fragments before ligated together into full-length protein in solution. With the new method, we increase the yield of CENP-A synthesis by 2.5-fold compared to the previous hybrid phase ligation approach. We further extend the new strategy to the total chemical synthesis of 212-residue linker histone H1.2 in unmodified, phosphorylated, and citrullinated forms, each from eight peptide segments with only one single purification. We demonstrate that fully synthetic H1.2 replicates the binding interactions of linker histones to intact mononucleosomes, as a proxy for the essential function of linker histones in the formation and regulation of higher order chromatin structure.</p>","PeriodicalId":19825,"journal":{"name":"Peptide Science","volume":"115 4","pages":""},"PeriodicalIF":1.5,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10488053/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10605700","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

Controlled aggregation properties of threonine modified by protecting groups to unusual self‐assembled structures 保护基修饰苏氨酸的可控聚集特性

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-06-22 DOI: 10.1002/pep2.24324

Nidhi Gour, Vivekshinh Kshtriya, B. Koshti, Monisha Patel, D. Boukhvalov

{"title":"Controlled aggregation properties of threonine modified by protecting groups to unusual self‐assembled structures","authors":"Nidhi Gour, Vivekshinh Kshtriya, B. Koshti, Monisha Patel, D. Boukhvalov","doi":"10.1002/pep2.24324","DOIUrl":"https://doi.org/10.1002/pep2.24324","url":null,"abstract":"We report for the very first time the controlled structural changes in the self‐assemblies of N‐(9‐fluorenylmethoxycarbonyl)‐O‐tert‐butyl‐l‐threonine (Fmoc‐Thr(tBu)‐OH) (FTU) to well defined unique morphologies. The self‐assembling properties of FTU were very interesting and intriguing as it resulted in the formation of unusual structures which resembles fibrous dumbbells and double‐sided broomstick‐like morphologies along with conventional spheres and rods under controlled conditions of concentration and temperature. The self‐assembly of other derivatives of threonine as well as another hydroxyl containing amino acid with same modification that is, ((N‐(9H‐fluoren‐9‐yl)methoxy)carbonyl)‐O‐(tert‐butyl)‐l‐serine (Fmoc‐Ser(tBu)‐OH) (FSU) was also studied to understand the crucial role of –Fmoc, ‐tBu and an additional –CH3 group present in the structure of FTU in the process of self‐assembly. Solvent dependent morphological studies of FTU and FSU suggest important role of solubility parameters and crystallization in formation of these unusual structures. The control experiments of co‐incubation with tannic acid and urea and solution state 1H‐NMR studies elucidate π–π stacking interactions as the key driving force for the structure formation. Further, the interactions which can occur between pairs of FTU and FSU which cause initial self‐assembly was studied theoretically via computational modeling. These studies suggest pair of FTU can either interact via head‐to‐head (HH) or head‐to‐tail (HT) configurations and the most favorable probabilities of either of these interactions lead to morphological transitions in FTU self‐assembly under varying conditions. The studies reported herein hence demonstrate that bioorganic molecules like protected single amino acids can be efficiently used as scaffold for self‐assembly and provide a very simple and facile bottom‐up‐approach for the design of uncommon novel micro/nanoarchitects for multifarious applications.","PeriodicalId":19825,"journal":{"name":"Peptide Science","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2023-06-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45164817","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

Issue Information 问题信息

IF 2.4 4区生物学

Peptide Science Pub Date : 2023-05-01 DOI: 10.1111/nous.12413

引用次数: 0