Sequence Effects on Size, Shape, and Structural Heterogeneity in Intrinsically Disordered Proteins

scientific article published on 15 April 2019

Sequence Effects on Size, Shape, and Structural Heterogeneity in Intrinsically Disordered Proteins is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1021/ACS.JPCB.9B02575
P932PMC publication ID6920032
P698PubMed publication ID30913885

P50authorDebayan ChakrabortyQ56685543
Dave ThirumalaiQ88596136
Upayan BaulQ91189035
P2093author name stringJohn E Straub
Mauro L Mugnai
P2860cites workIntrinsically Disordered Proteins in Human Diseases: Introducing the D 2 ConceptQ22061726
Single-Molecule Studies of Intrinsically Disordered ProteinsQ22061737
A practical guide to small angle X-ray scattering (SAXS) of flexible and intrinsically disordered proteinsQ26796304
Assessing the accuracy of physical models used in protein-folding simulations: quantitative evidence from long molecular dynamics simulationsQ26822885
Relating sequence encoded information to form and function of intrinsically disordered proteinsQ27010644
VMD: visual molecular dynamicsQ27860554
The contribution of intrinsically disordered regions to protein function, cellular complexity, and human diseaseQ28080017
Intrinsic disorder in cell-signaling and cancer-associated proteinsQ28207698
Intrinsically unstructured proteins: re-assessing the protein structure-function paradigmQ29615865
The Unique Domain Forms a Fuzzy Intramolecular Complex in Src Family KinasesQ30008761
Theory of the molecular transfer model for proteins with applications to the folding of the src-SH3 domainQ30010140
Zn(2+)-mediated structure formation and compaction of the "natively unfolded" human prothymosin alpha.Q30325994
Intrinsically disordered proteins: a 10-year recapQ30421421
Predictive atomic resolution descriptions of intrinsically disordered hTau40 and α-synuclein in solution from NMR and small angle scatteringQ45720936
Tertiary contact formation in alpha-synuclein probed by electron transfer.Q45950065
Domain conformation of tau protein studied by solution small-angle X-ray scatteringQ46110550
Role of calcium phosphate nanoclusters in the control of calcification.Q46275509
Size, shape, and flexibility of RNA structuresQ47312629
Liquid phase condensation in cell physiology and diseaseQ47649585
Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water.Q47652761
Conformational Heterogeneity and FRET Data Interpretation for Dimensions of Unfolded ProteinsQ47698068
Proteins associated with diseases show enhanced sequence correlation between charged residuesQ47794425
Significantly Improved Protein Folding Thermodynamics Using a Dispersion-Corrected Water Model and a New Residue-Specific Force FieldQ47985756
Sequence determinants of protein phase behavior from a coarse-grained modelQ48044016
Collapse Precedes Folding in Denaturant-Dependent Assembly of Ubiquitin.Q48050028
Protein collapse is encoded in the folded state architecture.Q48226376
Hydrodynamic radii of native and denatured proteins measured by pulse field gradient NMR techniques.Q52132803
Kirkwood-Buff Approach Rescues Overcollapse of a Disordered Protein in Canonical Protein Force Fields.Q54267278
Developing a molecular dynamics force field for both folded and disordered protein states.Q55310411
Water Dispersion Interactions Strongly Influence Simulated Structural Properties of Disordered Protein StatesQ56873339
Comment on “Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water”Q57090699
Mapping Long-Range Interactions in α-Synuclein using Spin-Label NMR and Ensemble Molecular Dynamics SimulationsQ57976902
Charge fluctuation effects on the shape of flexible polyampholytes with applications to intrinsically disordered proteinsQ58601192
Single-Molecule FRET Spectroscopy and the Polymer Physics of Unfolded and Intrinsically Disordered ProteinsQ59332370
Solution structure of the N-terminal transactivation domain of ERM modified by SUMO-1Q84582466
Dissecting Ubiquitin Folding Using the Self-Organized Polymer ModelQ85505347
Coarse-grained modeling of the intrinsically disordered protein Histatin 5 in solution: Monte Carlo simulations in combination with SAXSQ87366219
Utilizing Coarse-Grained Modeling and Monte Carlo Simulations to Evaluate the Conformational Ensemble of Intrinsically Disordered Proteins and RegionsQ88158700
AWSEM-IDP: A Coarse-Grained Force Field for Intrinsically Disordered ProteinsQ90851922
A comprehensive review and comparison of existing computational methods for intrinsically disordered protein and region predictionQ91111297
Comment on "Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water"Q91239138
A synthetic resilin is largely unstructuredQ30483696
Intrinsically disordered proteins drive membrane curvatureQ30659014
Dynamic light scattering: a practical guide and applications in biomedical sciences.Q33659644
Sequence-specific random coil chemical shifts of intrinsically disordered proteinsQ33762545
Structure/function implications in a dynamic complex of the intrinsically disordered Sic1 with the Cdc4 subunit of an SCF ubiquitin ligaseQ34074606
Single molecule characterization of α-synuclein in aggregation-prone statesQ34250768
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteinsQ34445775
Balanced Protein-Water Interactions Improve Properties of Disordered Proteins and Non-Specific Protein AssociationQ34503099
Collapse kinetics and chevron plots from simulations of denaturant-dependent folding of globular proteinsQ34977753
Intrinsically disordered proteins in cellular signalling and regulation.Q35510300
Geometrical Frustration in Interleukin-33 Decouples the Dynamics of the Functional Element from the Folding Transition State EnsembleQ35858724
Pair potentials for protein folding: choice of reference states and sensitivity of predicted native states to variations in the interaction schemesQ36281424
A data-driven approach to estimating the number of clusters in hierarchical clustering.Q36346624
The conformational ensembles of α-synuclein and tau: combining single-molecule FRET and simulationsQ36379177
Structure of tumor suppressor p53 and its intrinsically disordered N-terminal transactivation domain.Q36558058
Using fluorescence correlation spectroscopy to study conformational changes in denatured proteinsQ36678193
Cellular strategies for regulating functional and nonfunctional protein aggregationQ36713371
Alpha-synuclein tertiary contact dynamicsQ36844186
Linking folding and bindingQ37373866
Random-coil behavior and the dimensions of chemically unfolded proteinsQ37493905
Accurate optimization of amino acid form factors for computing small-angle X-ray scattering intensity of atomistic protein structures.Q37576156
Intrinsically disordered proteins: regulation and diseaseQ37868137
Structural analysis of intrinsically disordered proteins by small-angle X-ray scatteringQ37938727
How random are intrinsically disordered proteins? A small angle scattering perspectiveQ37951586
Liquid-liquid phase separation in biologyQ38257388
Application of NMR to studies of intrinsically disordered proteins.Q38684152
Molecular Dynamics Simulations of Intrinsically Disordered Proteins: On the Accuracy of the TIP4P-D Water Model and the Representativeness of Protein Disorder Models.Q38860443
Simulations of disordered proteins and systems with conformational heterogeneityQ39042290
Perplexing cooperative folding and stability of a low-sequence complexity, polyproline 2 protein lacking a hydrophobic coreQ39140697
Explaining the structural plasticity of α-synucleinQ39485110
Molecular Dynamics Simulations of Intrinsically Disordered Proteins: Force Field Evaluation and Comparison with Experiment.Q40314001
Structural Ensembles of Intrinsically Disordered Proteins Depend Strongly on Force Field: A Comparison to ExperimentQ40315596
An Adequate Account of Excluded Volume Is Necessary To Infer Compactness and Asphericity of Disordered Proteins by Förster Resonance Energy TransferQ40324073
Decoupling of size and shape fluctuations in heteropolymeric sequences reconciles discrepancies in SAXS vs. FRET measurementsQ41293169
Temperature-dependent structural changes in intrinsically disordered proteins: formation of alpha-helices or loss of polyproline II?Q41975597
Allostery in a disordered protein: oxidative modifications to α-synuclein act distally to regulate membrane bindingQ42726460
Rigor to post-rigor transition in myosin V: link between the dynamics and the supporting architectureQ43095783
Characterization of intrinsically disordered proteins with electrospray ionization mass spectrometry: conformational heterogeneity of alpha-synucleinQ43256880
Impact of the acidic C-terminal region comprising amino acids 109-140 on alpha-synuclein aggregation in vitroQ45194802
P433issue16
P921main subjectheterogeneityQ928498
P304page(s)3462-3474
P577publication date2019-04-15
P1433published inJournal of Physical Chemistry BQ668669
P1476titleSequence Effects on Size, Shape, and Structural Heterogeneity in Intrinsically Disordered Proteins
P478volume123

Reverse relations

cites work (P2860)
Q94481584An analytical theory to describe sequence-specific inter-residue distance profiles for polyampholytes and intrinsically disordered proteins
Q89835013Flexible Players within the Sheaths: The Intrinsically Disordered Proteins of Myelin in Health and Disease

Search more.