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Dynamic personalities of proteins

Citations

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Cited by:

  1. Seonggon Lee & Hosung Ki & Donghwan Im & Jungmin Kim & Yunbeom Lee & Jain Gu & Alekos Segalina & Jun Heo & Yongjun Cha & Kyung Won Lee & Doyeong Kim & Jeongho Kim & Rory Ma & Jae Hyuk Lee & Hyotcherl , 2025. "Ultrafast structural dynamics of carbon–carbon single-bond rotation in transient radical species at non-equilibrium," Nature Communications, Nature, vol. 16(1), pages 1-12, December.
  2. Dong Long & Rafael Brüschweiler, 2011. "In Silico Elucidation of the Recognition Dynamics of Ubiquitin," PLOS Computational Biology, Public Library of Science, vol. 7(4), pages 1-9, April.
  3. L Michel Espinoza-Fonseca & David D Thomas, 2011. "Atomic-Level Characterization of the Activation Mechanism of SERCA by Calcium," PLOS ONE, Public Library of Science, vol. 6(10), pages 1-7, October.
  4. Yi-Ling Chen & Michael Habeck, 2017. "Data-driven coarse graining of large biomolecular structures," PLOS ONE, Public Library of Science, vol. 12(8), pages 1-17, August.
  5. Barak Raveh & Angela Enosh & Ora Schueler-Furman & Dan Halperin, 2009. "Rapid Sampling of Molecular Motions with Prior Information Constraints," PLOS Computational Biology, Public Library of Science, vol. 5(2), pages 1-17, February.
  6. Antony D. St-Jacques & Joshua M. Rodriguez & Matthew G. Eason & Scott M. Foster & Safwat T. Khan & Adam M. Damry & Natalie K. Goto & Michael C. Thompson & Roberto A. Chica, 2023. "Computational remodeling of an enzyme conformational landscape for altered substrate selectivity," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
  7. Kee-Hyun Choi & Stuart Licht, 2012. "ATP-Sensitive Potassium Channels Exhibit Variance in the Number of Open Channels below the Limit Predicted for Identical and Independent Gating," PLOS ONE, Public Library of Science, vol. 7(5), pages 1-6, May.
  8. Kalyan S. Chakrabarti & Simon Olsson & Supriya Pratihar & Karin Giller & Kerstin Overkamp & Ko On Lee & Vytautas Gapsys & Kyoung-Seok Ryu & Bert L. Groot & Frank Noé & Stefan Becker & Donghan Lee & Th, 2022. "A litmus test for classifying recognition mechanisms of transiently binding proteins," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
  9. César Augusto F de Oliveira & Barry J Grant & Michelle Zhou & J Andrew McCammon, 2011. "Large-Scale Conformational Changes of Trypanosoma cruzi Proline Racemase Predicted by Accelerated Molecular Dynamics Simulation," PLOS Computational Biology, Public Library of Science, vol. 7(10), pages 1-7, October.
  10. Nicole Stéphanie Galenkamp & Sarah Zernia & Yulan B. Oppen & Marco Noort & Andreas Milias-Argeitis & Giovanni Maglia, 2024. "Allostery can convert binding free energies into concerted domain motions in enzymes," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
  11. Tobias Linder & Bert L de Groot & Anna Stary-Weinzinger, 2013. "Probing the Energy Landscape of Activation Gating of the Bacterial Potassium Channel KcsA," PLOS Computational Biology, Public Library of Science, vol. 9(5), pages 1-9, May.
  12. Oliver F. Harder & Sarah V. Barrass & Marcel Drabbels & Ulrich J. Lorenz, 2023. "Fast viral dynamics revealed by microsecond time-resolved cryo-EM," Nature Communications, Nature, vol. 14(1), pages 1-6, December.
  13. Sean L Seyler & Avishek Kumar & M F Thorpe & Oliver Beckstein, 2015. "Path Similarity Analysis: A Method for Quantifying Macromolecular Pathways," PLOS Computational Biology, Public Library of Science, vol. 11(10), pages 1-37, October.
  14. Karain, Wael I., 2019. "Investigating large-amplitude protein loop motions as extreme events using recurrence interval analysis," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 520(C), pages 1-10.
  15. Wojciech Potrzebowski & Jill Trewhella & Ingemar Andre, 2018. "Bayesian inference of protein conformational ensembles from limited structural data," PLOS Computational Biology, Public Library of Science, vol. 14(12), pages 1-27, December.
  16. Jonathan Schubert & Andrea Schulze & Chrisostomos Prodromou & Hannes Neuweiler, 2021. "Two-colour single-molecule photoinduced electron transfer fluorescence imaging microscopy of chaperone dynamics," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
  17. Huiyu Li & Ao Ma, 2025. "Enhanced sampling of protein conformational changes via true reaction coordinates from energy relaxation," Nature Communications, Nature, vol. 16(1), pages 1-12, December.
  18. Maciej Majewski & Adrià Pérez & Philipp Thölke & Stefan Doerr & Nicholas E. Charron & Toni Giorgino & Brooke E. Husic & Cecilia Clementi & Frank Noé & Gianni Fabritiis, 2023. "Machine learning coarse-grained potentials of protein thermodynamics," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
  19. Alistair Bailey & Andy van Hateren & Tim Elliott & Jörn M Werner, 2014. "Two Polymorphisms Facilitate Differences in Plasticity between Two Chicken Major Histocompatibility Complex Class I Proteins," PLOS ONE, Public Library of Science, vol. 9(2), pages 1-11, February.
  20. Arvind Ramanathan & Andrej J Savol & Christopher J Langmead & Pratul K Agarwal & Chakra S Chennubhotla, 2011. "Discovering Conformational Sub-States Relevant to Protein Function," PLOS ONE, Public Library of Science, vol. 6(1), pages 1-16, January.
  21. Feiyu Zhao & Tao Zhang & Xiaodi Sun & Xiyun Zhang & Letong Chen & Hejun Wang & Jinze Li & Peng Fan & Liangxue Lai & Tingting Sui & Zhanjun Li, 2023. "A strategy for Cas13 miniaturization based on the structure and AlphaFold," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
  22. Li Zhao & Wenzhao Li & Pu Tian, 2013. "Reconciling Mediating and Slaving Roles of Water in Protein Conformational Dynamics," PLOS ONE, Public Library of Science, vol. 8(4), pages 1-7, April.
  23. Markus Götz & Anders Barth & Søren S.-R. Bohr & Richard Börner & Jixin Chen & Thorben Cordes & Dorothy A. Erie & Christian Gebhardt & Mélodie C. A. S. Hadzic & George L. Hamilton & Nikos S. Hatzakis &, 2022. "A blind benchmark of analysis tools to infer kinetic rate constants from single-molecule FRET trajectories," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
  24. Jochen S Hub & Bert L de Groot, 2009. "Detection of Functional Modes in Protein Dynamics," PLOS Computational Biology, Public Library of Science, vol. 5(8), pages 1-13, August.
  25. Jian-Hua Wang & Yu-Liang Tang & Zhou Gong & Rohit Jain & Fan Xiao & Yu Zhou & Dan Tan & Qiang Li & Niu Huang & Shu-Qun Liu & Keqiong Ye & Chun Tang & Meng-Qiu Dong & Xiaoguang Lei, 2022. "Characterization of protein unfolding by fast cross-linking mass spectrometry using di-ortho-phthalaldehyde cross-linkers," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
  26. Eugene Klyshko & Justin Sung-Ho Kim & Lauren McGough & Victoria Valeeva & Ethan Lee & Rama Ranganathan & Sarah Rauscher, 2024. "Functional protein dynamics in a crystal," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
  27. Bryant Gipson & Mark Moll & Lydia E Kavraki, 2013. "SIMS: A Hybrid Method for Rapid Conformational Analysis," PLOS ONE, Public Library of Science, vol. 8(7), pages 1-12, July.
  28. Louis R Hollingsworth IV & Anne M Brown & Richard D Gandour & David R Bevan, 2018. "Computational study of HIV gp120 as a target for polyanionic entry inhibitors: Exploiting the V3 loop region," PLOS ONE, Public Library of Science, vol. 13(1), pages 1-22, January.
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