Integrated view of internal friction in unfolded proteins from single-molecule FRET, contact quenching, theory, and simulations

scientific article published on 21 February 2017

Integrated view of internal friction in unfolded proteins from single-molecule FRET, contact quenching, theory, and simulations is …
instance of (P31):
scholarly articleQ13442814

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P819ADS bibcode2017PNAS..114E1833S
P356DOI10.1073/PNAS.1616672114
P932PMC publication ID5347633
P698PubMed publication ID28223518

P50authorAndrea SorannoQ42316865
Benjamin SchulerQ42316868
P2093author name stringDmitrii E Makarov
Daniel Nettels
Andrea Holla
Fabian Dingfelder
P2860cites workReaction-rate theory: fifty years after KramersQ21698177
Unfolded-state dynamics and structure of protein L characterized by simulation and experimentQ24596398
From Levinthal to pathways to funnelsQ28300934
Slow unfolded-state structuring in Acyl-CoA binding protein folding revealed by simulation and experimentQ28727357
Measurement of submicrosecond intramolecular contact formation in peptides at the single-molecule levelQ44422129
Dynamics of unfolded polypeptide chains as model for the earliest steps in protein folding.Q44567209
Microfluidic mixer designed for performing single-molecule kinetics with confocal detection on timescales from milliseconds to minutesQ44589111
Fluorescence quenching of dyes by tryptophan: interactions at atomic detail from combination of experiment and computer simulationQ44660367
Peptide chain dynamics in light and heavy water: zooming in on internal frictionQ45327991
Optimizing solute-water van der Waals interactions to reproduce solvation free energies.Q46006756
Spatiotemporal correlations in denatured proteins: The dependence of fluorescence resonance energy transfer (FRET)-derived protein reconfiguration times on the location of the FRET probesQ48233551
Diffusive Dynamics of Contact Formation in Disordered Polypeptides.Q49222988
Dynamics of intramolecular contact formation in polypeptides: distance dependence of quenching rates in a room-temperature glass.Q50020788
Millisecond-scale molecular dynamics simulations on AntonQ56224559
Rouse Model with Internal Friction: A Coarse Grained Framework for Single Biopolymer DynamicsQ56829784
Water Dispersion Interactions Strongly Influence Simulated Structural Properties of Disordered Protein StatesQ56873339
Single-molecule spectroscopy of protein conformational dynamics in live eukaryotic cellsQ57831648
Kinetics of Loop Formation in Polymer Chains†Q58008536
Single-Molecule FRET Spectroscopy and the Polymer Physics of Unfolded and Intrinsically Disordered ProteinsQ59332370
Internal friction controls the speed of protein folding from a compact configurationQ80791692
Internal friction and nonequilibrium unfolding of polymeric globulesQ84359022
Structural origin of slow diffusion in protein foldingQ86258320
Unfolding and folding internal friction of β-hairpins is smaller than that of α-helicesQ86871707
Concerted dihedral rotations give rise to internal friction in unfolded proteinsQ87912069
Funnels, pathways, and the energy landscape of protein folding: a synthesisQ29617521
Rate theories and puzzles of hemeprotein kineticsQ30407135
Mapping protein collapse with single-molecule fluorescence and kinetic synchrotron radiation circular dichroism spectroscopyQ30478703
Experimental evidence for a frustrated energy landscape in a three-helix-bundle protein familyQ30493974
The role of solvent viscosity in the dynamics of protein conformational changesQ33223080
A close look at fluorescence quenching of organic dyes by tryptophan.Q33225156
Dynamics of unfolded polypeptide chains in crowded environment studied by fluorescence correlation spectroscopy.Q33262713
Measuring internal friction of an ultrafast-folding proteinQ33385610
Fluorescence quenching by photoinduced electron transfer: a reporter for conformational dynamics of macromolecules.Q33454795
Extremely slow intramolecular diffusion in unfolded protein LQ34068387
Molecular origins of internal friction effects on protein-folding ratesQ34083277
From the Cover: Charge interactions can dominate the dimensions of intrinsically disordered proteins.Q34093140
Probing the free-energy surface for protein folding with single-molecule fluorescence spectroscopyQ34154877
Balanced Protein-Water Interactions Improve Properties of Disordered Proteins and Non-Specific Protein AssociationQ34503099
Effects of denaturants on the dynamics of loop formation in polypeptidesQ34680372
Role of denatured-state properties in chaperonin action probed by single-molecule spectroscopyQ34727615
Coil-globule transition in the denatured state of a small proteinQ34984407
Dependence of internal friction on folding mechanismQ35233778
Characterizing the unfolded states of proteins using single-molecule FRET spectroscopy and molecular simulationsQ35616340
Ultrafast dynamics of protein collapse from single-molecule photon statistics.Q35669661
Quantifying internal friction in unfolded and intrinsically disordered proteins with single-molecule spectroscopy.Q36398007
Kinetics and thermodynamics of folding in model proteinsQ36409017
Localizing internal friction along the reaction coordinate of protein folding by combining ensemble and single-molecule fluorescence spectroscopyQ36445621
Limited internal friction in the rate-limiting step of a two-state protein folding reactionQ36793680
ABSINTH: a new continuum solvation model for simulations of polypeptides in aqueous solutionsQ37161084
Diffusion-limited contact formation in unfolded cytochrome c: estimating the maximum rate of protein foldingQ37261560
Protein dynamics from single-molecule fluorescence intensity correlation functionsQ37397645
Direct observation of ultrafast folding and denatured state dynamics in single protein moleculesQ37413448
Temperature-dependent solvation modulates the dimensions of disordered proteinsQ37702019
Solvent viscosity and friction in protein folding dynamicsQ37738918
How, when and why proteins collapse: the relation to foldingQ37959224
Consistent View of Polypeptide Chain Expansion in Chemical Denaturants from Multiple Experimental MethodsQ39432831
Exploring the role of internal friction in the dynamics of unfolded proteins using simple polymer modelsQ39460391
CHARMM36m: an improved force field for folded and intrinsically disordered proteinsQ40299880
Slow Internal Dynamics and Charge Expansion in the Disordered Protein CGRP: A Comparison with AmylinQ40583242
Modulation of Folding Internal Friction by Local and Global Barrier HeightsQ41576344
P433issue10
P407language of work or nameEnglishQ1860
P304page(s)E1833-E1839
P577publication date2017-02-21
P1433published inProceedings of the National Academy of Sciences of the United States of AmericaQ1146531
P1476titleIntegrated view of internal friction in unfolded proteins from single-molecule FRET, contact quenching, theory, and simulations
P478volume114

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cites work (P2860)
Q58765484A proline switch explains kinetic heterogeneity in a coupled folding and binding reaction
Q52803895Butane dihedral angle dynamics in water is dominated by internal friction.
Q47621056Combining short- and long-range fluorescence reporters with simulations to explore the intramolecular dynamics of an intrinsically disordered protein.
Q90597328Common Functions of Disordered Proteins across Evolutionary Distant Organisms
Q92531936Disordered RNA chaperones can enhance nucleic acid folding via local charge screening
Q91560007Experimental Protein Molecular Dynamics: Broadband Dielectric Spectroscopy coupled with nanoconfinement
Q52375447Extreme disorder in an ultrahigh-affinity protein complex.
Q90459885Friction-Limited Folding of Disulfide-Reduced Monomeric SOD1
Q49990719Hypothesis: structural heterogeneity of the unfolded proteins originating from the coupling of the local clusters and the long-range distance distribution.
Q57044271Intramolecular Diffusion in α-Synuclein: It Depends on How You Measure It
Q64084482Microsecond sub-domain motions and the folding and misfolding of the mouse prion protein
Q57047532Origin of Internal Friction in Disordered Proteins Depends on Solvent Quality
Q102053743Polyelectrolyte interactions enable rapid association and dissociation in high-affinity disordered protein complexes
Q91820539Position-, disorder-, and salt-dependent diffusion in binding-coupled-folding of intrinsically disordered proteins
Q59332330Rapid Microfluidic Dilution for Single-Molecule Spectroscopy of Low-Affinity Biomolecular Complexes
Q48061494Rapid Microfluidic Dilution for Single-Molecule Spectroscopy of Low-Affinity Biomolecular Complexes.
Q64945196Recent Advances in Computational Protocols Addressing Intrinsically Disordered Proteins.
Q58575706Single Molecule FRET: A Powerful Tool to Study Intrinsically Disordered Proteins
Q64059566Spontaneous Switching among Conformational Ensembles in Intrinsically Disordered Proteins
Q96687783The SARS-CoV-2 nucleocapsid protein is dynamic, disordered, and phase separates with RNA
Q107112189The SARS-CoV-2 nucleocapsid protein is dynamic, disordered, and phase separates with RNA
Q56979229Transient Secondary and Tertiary Structure Formation Kinetics in the Intrinsically Disordered State of α-Synuclein from Atomistic Simulations
Q47424409Transition path times reveal memory effects and anomalous diffusion in the dynamics of protein folding.
Q90009177Ultrafast dynamics-driven biomolecular recognition where fast activities dictate slow events

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