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The roughness of the protein energy landscape results in anomalous diffusion of the polypeptide backbone
Martin Volk, Lilia Milanesi, Jonathan P. Waltho, Christopher A. Hunter and Godfrey S. Beddard Physical Chemistry Chemical Physics 17(2) 762 (2015) https://doi.org/10.1039/C4CP03058C
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Highly polarized C-terminal transition state of the leucine-rich repeat domain of PP32 is governed by local stability
Application of merged spectroscopic data combined with chemometric analysis for resolution of hemoglobin intermediates during chemical unfolding
L. Fotouhi, S. Yousefinejad, N. Salehi, et al. Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy 136 1974 (2015) https://doi.org/10.1016/j.saa.2014.10.120
Nucleic acid aptamers in cancer research, diagnosis and therapy
Effect of the cation model on the equilibrium structure of poly-L-glutamate in aqueous sodium chloride solution
Gabriel Marchand, Jean-Christophe Soetens, Denis Jacquemin and Philippe A. Bopp The Journal of Chemical Physics 143(22) (2015) https://doi.org/10.1063/1.4937156
AnchorDock: Blind and Flexible Anchor-Driven Peptide Docking
Fundamentals of Neurodegeneration and Protein Misfolding Disorders
Martin Beckerman Biological and Medical Physics, Biomedical Engineering, Fundamentals of Neurodegeneration and Protein Misfolding Disorders 29 (2015) https://doi.org/10.1007/978-3-319-22117-5_2
Protein unfolding from free-energy calculations: Integration of the Gaussian network model with bond binding energies
Golden Ratio Simulated Annealing for Protein Folding Problem
Juan Frausto-Solis, Juan Paulo Sánchez-Hernández, Mishael Sánchez-Pérez and Ernesto Liñán García International Journal of Computational Methods 12(06) 1550037 (2015) https://doi.org/10.1142/S0219876215500371
A hypothesis to reconcile the physical and chemical unfolding of proteins
Recovery of consciousness is mediated by a network of discrete metastable activity states
Andrew E. Hudson, Diany Paola Calderon, Donald W. Pfaff and Alex Proekt Proceedings of the National Academy of Sciences 111(25) 9283 (2014) https://doi.org/10.1073/pnas.1408296111
Bhageerath-H: A homology/ab initio hybrid server for predicting tertiary structures of monomeric soluble proteins
Self-Organization and Coherency in Biology and Medicine
Alexander O. Goushcha, Tatiana O. Hushcha, Leonid N. Christophorov and Michael Goldsby Open Journal of Biophysics 04(04) 119 (2014) https://doi.org/10.4236/ojbiphy.2014.44014
On Macroscopic Quantum Phenomena in Biomolecules and Cells: From Levinthal to Hopfield
Building Polyhedra by Self-Assembly: Theory and Experiment
Ryan Kaplan, Joseph Klobušický, Shivendra Pandey, David H. Gracias and Govind Menon Artificial Life 20(4) 409 (2014) https://doi.org/10.1162/ARTL_a_00144
Actinous enigma or enigmatic actin
Olga I Povarova, Vladimir N Uversky, Irina M Kuznetsova and Konstantin K Turoverov Intrinsically Disordered Proteins 2(1) e34500 (2014) https://doi.org/10.4161/idp.34500
MOIRAE: A computational strategy to extract and represent structural information from experimental protein templates
Computational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes
Dorota Latek, Bartosz Trzaskowski, Szymon Niewieczerzał, et al. Springer Series in Bio-/Neuroinformatics, Computational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes 1 357 (2014) https://doi.org/10.1007/978-3-642-28554-7_12
Thermodynamics of protein unfolding-refolding transition
Jeanfils JOSEPH, Anakkar ABDELKADER and Buisine JEAN-MARC International Journal of Thermodynamics 17(2) 61 (2014) https://doi.org/10.5541/ijot.77025
Quantifying the Sources of Kinetic Frustration in Folding Simulations of Small Proteins
Andrej J. Savol and Chakra S. Chennubhotla Journal of Chemical Theory and Computation 10(8) 2964 (2014) https://doi.org/10.1021/ct500361w
Multidimensional free energy surface of unfolding of HP-36: Microscopic origin of ruggedness
Simulating Biomolecular Folding and Function by Native‐Structure‐Based/Go‐Type Models
Claude Sinner, Benjamin Lutz, Shalini John, Ines Reinartz, Abhinav Verma and Alexander Schug Israel Journal of Chemistry 54(8-9) 1165 (2014) https://doi.org/10.1002/ijch.201400012
Three-dimensional protein structure prediction: Methods and computational strategies
Comparative Study of Protein Unfolding in Aqueous Urea and Dimethyl Sulfoxide Solutions: Surface Polarity, Solvent Specificity, and Sequence of Secondary Structure Melting
Golden triangle for folding rates of globular proteins
Sergiy O. Garbuzynskiy, Dmitry N. Ivankov, Natalya S. Bogatyreva and Alexei V. Finkelstein Proceedings of the National Academy of Sciences 110(1) 147 (2013) https://doi.org/10.1073/pnas.1210180110
Roles of hydrophobic and hydrophilic forces on maintaining amyloid-prone cystatin structural stability
Protein folding on the ribosome studied using NMR spectroscopy
Christopher A. Waudby, Hélène Launay, Lisa D. Cabrita and John Christodoulou Progress in Nuclear Magnetic Resonance Spectroscopy 74 57 (2013) https://doi.org/10.1016/j.pnmrs.2013.07.003
Why do proteins aggregate? “Intrinsically insoluble proteins” and “dark mediators” revealed by studies on “insoluble proteins” solubilized in pure water
Hysteresis as a Marker for Complex, Overlapping Landscapes in Proteins
Benjamin T. Andrews, Dominique T. Capraro, Joanna I. Sulkowska, José N. Onuchic and Patricia A. Jennings The Journal of Physical Chemistry Letters 4(1) 180 (2013) https://doi.org/10.1021/jz301893w
Without Bounds: A Scientific Canvas of Nonlinearity and Complex Dynamics
Chemical Unfolding of Chicken Villin Headpiece in Aqueous Dimethyl Sulfoxide Solution: Cosolvent Concentration Dependence, Pathway, and Microscopic Mechanism
Ligand binding and unfolding of tryptophan synthase revealed by ion mobility-tandem mass spectrometry employing collision and surface induced dissociation
Royston S. Quintyn, Mowei Zhou, Shai Dagan, John Finke and Vicki H. Wysocki International Journal for Ion Mobility Spectrometry 16(2) 133 (2013) https://doi.org/10.1007/s12127-013-0126-4
Tree Growth—Hybrid Genetic Algorithm for Predicting the Structure of Small (TiO2)n, n = 2–13, Nanoclusters
Pétur O. Heidarsson, Mohsin M. Naqvi, Punam Sonar, Immanuel Valpapuram and Ciro Cecconi Advances in Protein Chemistry and Structural Biology, Dynamics of Proteins and Nucleic Acids 92 93 (2013) https://doi.org/10.1016/B978-0-12-411636-8.00003-1
The free energy landscape of protein folding and dynamics: a global view
A comprehensive library of blocked dipeptides reveals intrinsic backbone conformational propensities of unfolded proteins
Kwang‐Im Oh, Kyung‐Koo Lee, Eun‐Kyung Park, Youngae Jung, Geum‐Sook Hwang and Minhaeng Cho Proteins: Structure, Function, and Bioinformatics 80(4) 977 (2012) https://doi.org/10.1002/prot.24000
Nucleation‐based prediction of the protein folding rate and its correlation with the folding nucleus size
Oxana V. Galzitskaya and Anna V. Glyakina Proteins: Structure, Function, and Bioinformatics 80(12) 2711 (2012) https://doi.org/10.1002/prot.24156
Electrostatic Ratchet in the Protective Antigen Channel Promotes Anthrax Toxin Translocation
Sarah L. Wynia-Smith, Michael J. Brown, Gina Chirichella, Gigi Kemalyan and Bryan A. Krantz Journal of Biological Chemistry 287(52) 43753 (2012) https://doi.org/10.1074/jbc.M112.419598