دورية أكاديمية
أعرض في EDS

FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices.

التفاصيل البيبلوغرافية
العنوان: FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices.
المؤلفون: Lerner E; Department of Biological Chemistry, The Alexander Silberman Institute of Life Sciences, and The Center for Nanoscience and Nanotechnology, Faculty of Mathematics & Science, The Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel., Barth A; Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität, Düsseldorf, Germany., Hendrix J; Dynamic Bioimaging Lab, Advanced Optical Microscopy Centre and Biomedical Research Institute (BIOMED), Hasselt University, Diepenbeek, Belgium., Ambrose B; Department of Chemistry, University of Sheffield, Sheffield, United Kingdom., Birkedal V; Department of Chemistry and iNANO center, Aarhus University, Aarhus, Denmark., Blanchard SC; Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, United States., Börner R; Laserinstitut HS Mittweida, University of Applied Science Mittweida, Mittweida, Germany., Sung Chung H; Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, United States., Cordes T; Physical and Synthetic Biology, Faculty of Biology, Ludwig-Maximilians-Universität München, Planegg-Martinsried, Germany., Craggs TD; Department of Chemistry, University of Sheffield, Sheffield, United Kingdom., Deniz AA; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, United States., Diao J; Department of Cancer Biology, University of Cincinnati School of Medicine, Cincinnati, United States., Fei J; Department of Biochemistry and Molecular Biology and The Institute for Biophysical Dynamics, University of Chicago, Chicago, United States., Gonzalez RL; Department of Chemistry, Columbia University, New York, United States., Gopich IV; Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, United States., Ha T; Department of Biophysics and Biophysical Chemistry, Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Howard Hughes Medical Institute, Baltimore, United States., Hanke CA; Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität, Düsseldorf, Germany., Haran G; Department of Chemical and Biological Physics, Weizmann Institute of Science, Rehovot, Israel., Hatzakis NS; Department of Chemistry & Nanoscience Centre, University of Copenhagen, Copenhagen, Denmark.; Denmark Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark., Hohng S; Department of Physics and Astronomy, and Institute of Applied Physics, Seoul National University, Seoul, Republic of Korea., Hong SC; Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science and Department of Physics, Korea University, Seoul, Republic of Korea., Hugel T; Institute of Physical Chemistry and Signalling Research Centres BIOSS and CIBSS, University of Freiburg, Freiburg, Germany., Ingargiola A; Department of Chemistry and Biochemistry, and Department of Physiology, University of California, Los Angeles, Los Angeles, United States., Joo C; Department of BioNanoScience, Kavli Institute of Nanoscience, Delft University of Technology, Delft, Netherlands., Kapanidis AN; Biological Physics Research Group, Clarendon Laboratory, Department of Physics, University of Oxford, Oxford, United Kingdom., Kim HD; School of Physics, Georgia Institute of Technology, Atlanta, United States., Laurence T; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, United States., Lee NK; School of Chemistry, Seoul National University, Seoul, Republic of Korea., Lee TH; Department of Chemistry, Pennsylvania State University, University Park, United States., Lemke EA; Departments of Biology and Chemistry, Johannes Gutenberg University, Mainz, Germany.; Institute of Molecular Biology (IMB), Mainz, Germany., Margeat E; Centre de Biologie Structurale (CBS), CNRS, INSERM, Universitié de Montpellier, Montpellier, France., Michaelis J; Institüt of Biophysics, Ulm University, Ulm, Germany., Michalet X; Department of Chemistry and Biochemistry, and Department of Physiology, University of California, Los Angeles, Los Angeles, United States., Myong S; Department of Biophysics, Johns Hopkins University, Baltimore, United States., Nettels D; Department of Biochemistry and Department of Physics, University of Zurich, Zurich, Switzerland., Peulen TO; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, United States., Ploetz E; Physical Chemistry, Department of Chemistry, Center for Nanoscience (CeNS), Center for Integrated Protein Science Munich (CIPSM) and Nanosystems Initiative Munich (NIM), Ludwig-Maximilians-Universität, München, Germany., Razvag Y; Department of Biological Chemistry, The Alexander Silberman Institute of Life Sciences, and The Center for Nanoscience and Nanotechnology, Faculty of Mathematics & Science, The Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel., Robb NC; Warwick Medical School, University of Warwick, Coventry, United Kingdom., Schuler B; Department of Biochemistry and Department of Physics, University of Zurich, Zurich, Switzerland., Soleimaninejad H; Biological Optical Microscopy Platform (BOMP), University of Melbourne, Parkville, Australia., Tang C; College of Chemistry and Molecular Engineering, PKU-Tsinghua Center for Life Sciences, Beijing National Laboratory for Molecular Sciences, Peking University, Beijing, China., Vafabakhsh R; Department of Molecular Biosciences, Northwestern University, Evanston, United States., Lamb DC; Physical Chemistry, Department of Chemistry, Center for Nanoscience (CeNS), Center for Integrated Protein Science Munich (CIPSM) and Nanosystems Initiative Munich (NIM), Ludwig-Maximilians-Universität, München, Germany., Seidel CA; Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität, Düsseldorf, Germany., Weiss S; Department of Chemistry and Biochemistry, and Department of Physiology, University of California, Los Angeles, Los Angeles, United States.; Department of Physiology, CaliforniaNanoSystems Institute, University of California, Los Angeles, Los Angeles, United States.
المصدر: ELife [Elife] 2021 Mar 29; Vol. 10. Date of Electronic Publication: 2021 Mar 29.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.; Review
اللغة: English
بيانات الدورية: Publisher: eLife Sciences Publications, Ltd Country of Publication: England NLM ID: 101579614 Publication Model: Electronic Cited Medium: Internet ISSN: 2050-084X (Electronic) Linking ISSN: 2050084X NLM ISO Abbreviation: Elife Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Cambridge, UK : eLife Sciences Publications, Ltd., 2012-
مواضيع طبية MeSH: Fluorescence Resonance Energy Transfer/*methods , Molecular Biology/*methods , Single Molecule Imaging/*methods, Molecular Biology/instrumentation ; Single Molecule Imaging/instrumentation
مستخلص: Single-molecule FRET (smFRET) has become a mainstream technique for studying biomolecular structural dynamics. The rapid and wide adoption of smFRET experiments by an ever-increasing number of groups has generated significant progress in sample preparation, measurement procedures, data analysis, algorithms and documentation. Several labs that employ smFRET approaches have joined forces to inform the smFRET community about streamlining how to perform experiments and analyze results for obtaining quantitative information on biomolecular structure and dynamics. The recent efforts include blind tests to assess the accuracy and the precision of smFRET experiments among different labs using various procedures. These multi-lab studies have led to the development of smFRET procedures and documentation, which are important when submitting entries into the archiving system for integrative structure models, PDB-Dev. This position paper describes the current 'state of the art' from different perspectives, points to unresolved methodological issues for quantitative structural studies, provides a set of 'soft recommendations' about which an emerging consensus exists, and lists openly available resources for newcomers and seasoned practitioners. To make further progress, we strongly encourage 'open science' practices.
Competing Interests: EL, AB, JH, BA, VB, SB, RB, HS, TC, TC, AD, JD, JF, RG, IG, TH, CH, GH, NH, SH, SH, TH, AI, CJ, AK, HK, TL, NL, TL, EL, EM, JM, XM, SM, DN, TP, EP, YR, NR, BS, HS, CT, RV, DL, CS, SW No competing interests declared
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معلومات مُعتمدة: C14/16/053 KU Leuven Special Research Fund; SMPFv2.0 International ERC_ European Research Council; R01 GM123164 United States GM NIGMS NIH HHS; NNF14CC0001 Novo Nordisk; 3565/20 Israel Science Foundation; CIBSS - EXC-2189 - project ID 390939984 Deutsche Forschungsgemeinschaft; GM079238 United States NH NIH HHS; GM130793 United States NH NIH HHS; R01 GM112882 United States GM NIGMS NIH HHS; 1818147 National Science Foundation; SPP2191 402723784 Deutsche Forschungsgemeinschaft; RGF\R1\180054 Royal Society; R01 GM098859 United States GM NIGMS NIH HHS; GM084288 United States NH NIH HHS; NRF-2019R1A2C2005209 National Research Foundation of Korea; 128185 United States NH NIH HHS; R01 GM130942 United States GM NIGMS NIH HHS; DP2 GM128185 United States GM NIGMS NIH HHS; R01 GM095904 United States GM NIGMS NIH HHS; 110164/Z/15/Z United Kingdom WT_ Wellcome Trust; 819299 International ERC_ European Research Council; R01 GM130793 United States GM NIGMS NIH HHS; SFB 1129 240245660 Deutsche Forschungsgemeinschaft; BB/T008032/1 United Kingdom BB_ Biotechnology and Biological Sciences Research Council; 638536 International ERC_ European Research Council; 1842951 National Science Foundation; GM130375 United States NH NIH HHS; DKR00620 Royal Society; GM137608 United States NH NIH HHS; CF16-0797 Carlsbergfondet; RGS\R2\180405 Royal Society; 2019R1A2C2090896 National Research Foundation of Korea; R01 GM084288 United States GM NIGMS NIH HHS; PL696/4-1 Deutsche Forschungsgemeinschaft; SFB1035 Deutsche Forschungsgemeinschaft; ANR-17-CE09-0026-02 Agence Nationale de la Recherche; GM095904 United States NH NIH HHS; 1250/19 Israel Science Foundation; SE 1195/21-1 (SPP 2191) Deutsche Forschungsgemeinschaft; NRF-2019R1A2C1089808 National Research Foundation of Korea; United Kingdom WT_ Wellcome Trust; SFB863 Deutsche Forschungsgemeinschaft; 2018YFA0507700 National Key Research and Development Program of China; GRK2062 Deutsche Forschungsgemeinschaft; 671208 International ERC_ European Research Council; RGP0061/2019 Human Frontier Science Program; R35 GM130375 United States GM NIGMS NIH HHS; ANR-18-CE11-0004-02 Agence Nationale de la Recherche; GM130942 United States NH NIH HHS; R01 GM137608 United States GM NIGMS NIH HHS; 2004016 National Science Foundation; R-10789 UHasselt BOF fund; R01 GM140272 United States GM NIGMS NIH HHS; ANR-19-CE44-0009-02 Agence Nationale de la Recherche; BB/S008896/1 United Kingdom BB_ Biotechnology and Biological Sciences Research Council; 860954 International ERC_ European Research Council; 18333 Villum Fonden; R01 GM079238 United States GM NIGMS NIH HHS; 6110-00623B Independent Fund Denmark
فهرسة مساهمة: Keywords: FRET; biochemistry; biomolecules; chemical biology; community; conformation; dynamics; molecular biophysics; single-molecule; structural biology
تواريخ الأحداث: Date Created: 20210329 Date Completed: 20210903 Latest Revision: 20240402
رمز التحديث: 20240402
مُعرف محوري في PubMed: PMC8007216
DOI: 10.7554/eLife.60416
PMID: 33779550
قاعدة البيانات: MEDLINE
الوصف
تدمد:2050-084X
DOI:10.7554/eLife.60416