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Direct observation of conformational dynamics in intrinsically disordered proteins at the single-molecule level

https://doi.org/10.1101/2025.05.26.656162
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Beyond Mie's Theory I – Nonspherical Particles
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Effects of Fluorophore Attachment on Protein Conformation and Dynamics Studied by spFRET and NMR Spectroscopy
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UCSF ChimeraX : Tools for structure building and analysis
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Laser interferometry of the hydrolytic changes in protein solutions: the refractive index and hydration shells
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Tau in the Pathophysiology of Parkinson’s Disease
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Intrinsically disordered proteins and proteins with intrinsically disordered regions in neurodegenerative diseases
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Sam68, the KH domain-containing superSTAR
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Sequence Determinants of Compaction in Intrinsically Disordered Proteins
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Polyproline-II Helix in Proteins: Structure and Function
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Energy Landscapes of Protein Aggregation and Conformation Switching in Intrinsically Disordered Proteins
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Synaptic oligomeric tau in Alzheimer’s disease — A potential culprit in the spread of tau pathology through the brain
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Single-molecule spectroscopy of protein folding dynamics—expanding scope and timescales
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NMR illuminates intrinsic disorder
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Heterogeneity and Inaccuracy in Protein Structures Solved by X-Ray Crystallography
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Intrinsic Disorder in Cell-signaling and Cancer-associated Proteins
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Understanding the Energy Landscape of Intrinsically Disordered Protein Ensembles
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The Dynamism of Intrinsically Disordered Proteins: Binding-Induced Folding, Amyloid Formation, and Phase Separation
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Conformational Stability at Low Temperatures Using Single Protein Nanoaperture Optical Tweezers
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Optical Monitoring of In Situ Iron Loading into Single, Native Ferritin Proteins
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Structural Flexibility and Disassembly Kinetics of Single Ferritin Molecules Using Optical Nanotweezers
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Improvement of Sensing and Trapping Efficiency of Double Nanohole Apertures via Enhancing the Wedge Plasmon Polariton Modes with Tapered Cusps
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Temperature Measurement in Plasmonic Nanoapertures Used for Optical Trapping
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On the Dielectric “Constant” of Proteins: Smooth Dielectric Function for Macromolecular Modeling and Its Implementation in DelPhi
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Optical Trapping of a Single Protein
inferredcites →https://doi.org/10.1038/nature01060openalex-snapshot
Probing the free-energy surface for protein folding with single-molecule fluorescence spectroscopy
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Structure of the rabbit ryanodine receptor RyR1 at near-atomic resolution
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Structural basis of RNA recognition and dimerization by the STAR proteins T-STAR and Sam68
inferredcites →https://doi.org/10.1038/nphys1422openalex-snapshot
Self-induced back-action optical trapping of dielectric nanoparticles
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Intrinsically unstructured proteins and their functions
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Coupling of autophagy and the mitochondrial intrinsic apoptosis pathway modulates proteostasis and ageing in Caenorhabditis elegans
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The molecular basis for cellular function of intrinsically disordered protein regions
inferredcites →https://doi.org/10.1038/s41586-023-07004-5openalex-snapshot
Conformational ensembles of the human intrinsically disordered proteome
inferredcites →https://doi.org/10.1038/s41586-024-07487-wopenalex-snapshot
Accurate structure prediction of biomolecular interactions with AlphaFold 3
inferredcites →https://doi.org/10.1038/s41592-023-01853-8openalex-snapshot
3DFlex: determining structure and motion of flexible proteins from cryo-EM
inferredcites →https://doi.org/10.1038/s41598-019-47558-xopenalex-snapshot
A comprehensive study on genome-wide coexpression network of KHDRBS1/Sam68 reveals its cancer and patient-specific association
inferredcites →https://doi.org/10.1038/s41598-019-50825-6openalex-snapshot
Folding Free Energy Landscape of Ordered and Intrinsically Disordered Proteins
inferredcites →https://doi.org/10.1038/s41598-022-05586-0openalex-snapshot
Modelling of the dynamic polarizability of macromolecules for single-molecule optical biosensing
inferredcites →https://doi.org/10.1038/s42003-022-04154-6openalex-snapshot
The bHLH-zip transcription factor SREBP regulates triterpenoid and lipid metabolisms in the medicinal fungus Ganoderma lingzhi
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Single-molecule FRET for probing nanoscale biomolecular dynamics
inferredcites →https://doi.org/10.1038/s44328-024-00004-zopenalex-snapshot
High-throughput light-induced immunoassay with milliwatt-level laser under one-minute optical antibody-coating on nanoparticle-imprinted substrate
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The development and application of an engineered direct electron transfer enzyme for continuous levodopa monitoring
inferredcites →https://doi.org/10.1039/c1mb05275fopenalex-snapshot
Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
inferredcites →https://doi.org/10.1073/pnas.0809232106openalex-snapshot
Interplay of α-synuclein binding and conformational switching probed by single-molecule fluorescence
inferredcites →https://doi.org/10.1073/pnas.1212167109openalex-snapshot
Rate limit of protein elastic response is tether dependent
inferredcites →https://doi.org/10.1073/pnas.1610137113openalex-snapshot
A functional role for intrinsic disorder in the tau-tubulin complex
inferredcites →https://doi.org/10.1073/pnas.2304302120openalex-snapshot
Systematic identification of conditionally folded intrinsically disordered regions by AlphaFold2
inferredcites →https://doi.org/10.1074/jbc.272.43.27274openalex-snapshot
Specificity and Determinants of Sam68 RNA Binding
inferredcites →https://doi.org/10.1074/jbc.rev118.006493openalex-snapshot
Intrinsically disordered proteins in synaptic vesicle trafficking and release
inferredcites →https://doi.org/10.1093/database/bau102openalex-snapshot
PolyprOnline: polyproline helix II and secondary structure assignment database
inferredcites →https://doi.org/10.1093/nar/gkac1181openalex-snapshot
Cdk1-mediated threonine phosphorylation of Sam68 modulates its RNA binding, alternative splicing activity and cellular functions
inferredcites →https://doi.org/10.1093/nar/gkx460openalex-snapshot
Intrinsically disordered RGG/RG domains mediate degenerate specificity in RNA binding
inferredcites →https://doi.org/10.1110/ps.4210102openalex-snapshot
Natively unfolded proteins: A point where biology waits for physics
inferredcites →https://doi.org/10.1146/annurev-biophys-051013-022754openalex-snapshot
Reconstructing Folding Energy Landscapes by Single-Molecule Force Spectroscopy
inferredcites →https://doi.org/10.1146/annurev-biophys-062215-010915openalex-snapshot
Single-Molecule FRET Spectroscopy and the Polymer Physics of Unfolded and Intrinsically Disordered Proteins
inferredcites →https://doi.org/10.1186/s12964-022-00821-7openalex-snapshot
Intrinsically disordered proteins play diverse roles in cell signaling
inferredcites →https://doi.org/10.1186/s13195-022-01150-0openalex-snapshot
Alpha-synuclein: a pathological factor with Aβ and tau and biomarker in Alzheimer’s disease
inferredcites →https://doi.org/10.1364/boe.5.001886openalex-snapshot
Double nanohole optical tweezers visualize protein p53 suppressing unzipping of single DNA-hairpins
inferredcites →https://doi.org/10.1371/journal.pcbi.1008939openalex-snapshot
How multisite phosphorylation impacts the conformations of intrinsically disordered proteins
inferredcites →https://doi.org/10.1371/journal.pone.0086495openalex-snapshot
Diverse Metastable Structures Formed by Small Oligomers of α-Synuclein Probed by Force Spectroscopy
inferredcites →https://doi.org/10.3390/ijms20174186openalex-snapshot
Structure Determination by Single-Particle Cryo-Electron Microscopy: Only the Sky (and Intrinsic Disorder) is the Limit
inferredcites →https://doi.org/10.3390/polym6102684openalex-snapshot
Intrinsically Disordered Proteins: Where Computation Meets Experiment
inferredcites →https://doi.org/10.3791/68093openalex-snapshot
Monitoring Conformational Dynamics of Single Unmodified Proteins using Plasmonic Nanotweezers
inferredcites →https://doi.org/10.48550/arxiv.2107.06407openalex-snapshot
Watching Single Unmodified Enzymes at Work

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inferred← citeshttps://doi.org/10.1038/s44328-025-00069-4openalex-snapshot
Future directions in all-optical label-free single-molecule sensing
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