Mirco Dindo, Stefano Pascarelli, Davide Chiasserini, Silvia Grottelli, Claudio Costantini, Gen-Ichiro Uechi, Giorgio Giardina, Paola Laurino, Barbara Cellini
{"title":"Structural dynamics shape the fitness window of alanine:glyoxylate aminotransferase.","authors":"Mirco Dindo, Stefano Pascarelli, Davide Chiasserini, Silvia Grottelli, Claudio Costantini, Gen-Ichiro Uechi, Giorgio Giardina, Paola Laurino, Barbara Cellini","doi":"10.1002/pro.4303","DOIUrl":"10.1002/pro.4303","url":null,"abstract":"<p><p>The conformational landscape of a protein is constantly expanded by genetic variations that have a minimal impact on the function(s) while causing subtle effects on protein structure. The wider the conformational space sampled by these variants, the higher the probabilities to adapt to changes in environmental conditions. However, the probability that a single mutation may result in a pathogenic phenotype also increases. Here we present a paradigmatic example of how protein evolution balances structural stability and dynamics to maximize protein adaptability and preserve protein fitness. We took advantage of known genetic variations of human alanine:glyoxylate aminotransferase (AGT1), which is present as a common major allelic form (AGT-Ma) and a minor polymorphic form (AGT-Mi) expressed in 20% of Caucasian population. By integrating crystallographic studies and molecular dynamics simulations, we show that AGT-Ma is endowed with structurally unstable (frustrated) regions, which become disordered in AGT-Mi. An in-depth biochemical characterization of variants from an anticonsensus library, encompassing the frustrated regions, correlates this plasticity to a fitness window defined by AGT-Ma and AGT-Mi. Finally, co-immunoprecipitation analysis suggests that structural frustration in AGT1 could favor additional functions related to protein-protein interactions. These results expand our understanding of protein structural evolution by establishing that naturally occurring genetic variations tip the balance between stability and frustration to maximize the ensemble of conformations falling within a well-defined fitness window, thus expanding the adaptability potential of the protein.</p>","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"29 1","pages":"e4303"},"PeriodicalIF":4.5,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8996469/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88630642","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Sodium Polyacrylate-Modified Bentonite and Its Dehydration Testing in Real Oil","authors":"Fanyue Meng, Li Shi, Xuan Meng, Naiwang Liu","doi":"10.1007/s42860-022-00186-5","DOIUrl":"https://doi.org/10.1007/s42860-022-00186-5","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"290-304"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41492366","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Oscar O. Vásquez‐Torres, F. Cabrera‐Poloche, J. Tobón
{"title":"Performance of Low-Grade Calcined Clays as Supplementary Cementitious Material in Relation to their Geological Characteristics","authors":"Oscar O. Vásquez‐Torres, F. Cabrera‐Poloche, J. Tobón","doi":"10.1007/s42860-022-00184-7","DOIUrl":"https://doi.org/10.1007/s42860-022-00184-7","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"233 - 251"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49155360","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nadja Werling, J. Kaltenbach, P. Weidler, R. Schuhmann, F. Dehn, K. Emmerich
{"title":"Solubility of Calcined Kaolinite, Montmorillonite, and Illite in High Molar NaOH and Suitability as Precursors for Geopolymers","authors":"Nadja Werling, J. Kaltenbach, P. Weidler, R. Schuhmann, F. Dehn, K. Emmerich","doi":"10.1007/s42860-022-00185-6","DOIUrl":"https://doi.org/10.1007/s42860-022-00185-6","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"270 - 289"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42459467","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Modifying a Smectite using Organic Nutrients to Enhance its Efficacy at Removing Aflatoxin B1 from Corn Fermentation Solution","authors":"S. Alam, Youjun Deng","doi":"10.1007/s42860-022-00179-4","DOIUrl":"https://doi.org/10.1007/s42860-022-00179-4","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"196 - 208"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45611529","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Artur Kuligiewicz, M. Skiba, M. Szczerba, C. Hall, Dorota Bakowska
{"title":"Correction: Extraction of 40Ar-39Ar ages from a multicomponent mixture: a case study from the Tatra Mountains, Poland","authors":"Artur Kuligiewicz, M. Skiba, M. Szczerba, C. Hall, Dorota Bakowska","doi":"10.1007/s42860-022-00182-9","DOIUrl":"https://doi.org/10.1007/s42860-022-00182-9","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"305"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48901207","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Luo Yunxiang, Lin Ling, Yu Wenke, Li Xin, Gum-Su Han
{"title":"Synthesis and Evaluation of Betaine Copolymer Filtrate Reducer for Drilling Mud","authors":"Luo Yunxiang, Lin Ling, Yu Wenke, Li Xin, Gum-Su Han","doi":"10.1007/s42860-022-00181-w","DOIUrl":"https://doi.org/10.1007/s42860-022-00181-w","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"252 - 269"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45922754","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Shu Qing Zhou, Y. Niu, Jia Hui Liu, X. Chen, C. Li, W. Gates, C. Zhou
{"title":"Functional Montmorillonite/Polymer Coatings","authors":"Shu Qing Zhou, Y. Niu, Jia Hui Liu, X. Chen, C. Li, W. Gates, C. Zhou","doi":"10.1007/s42860-022-00183-8","DOIUrl":"https://doi.org/10.1007/s42860-022-00183-8","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"209 - 232"},"PeriodicalIF":2.2,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43223029","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Preparation and Properties of Antibacterial Polyhexamethylene Biguanide/Palygorskite Composites as Zearalenone Adsorbents","authors":"Yuru Kang, B. Mu, G. Zhu, Yong-fa Zhu, Aiqin Wang","doi":"10.1007/s42860-022-00175-8","DOIUrl":"https://doi.org/10.1007/s42860-022-00175-8","url":null,"abstract":"","PeriodicalId":10320,"journal":{"name":"Clays and Clay Minerals","volume":"70 1","pages":"182 - 195"},"PeriodicalIF":2.2,"publicationDate":"2022-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43663190","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}