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Dynamical nonequilibrium molecular dynamics reveals the structural basis for allostery and signal propagation in biomolecular systems
71/71 checkable references clean · checked 2026-07-23
Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.
4 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.
The 71 checked references that resolve
resolves10.3389/fmolb.2019.00117
Large-Scale Conformational Changes and Protein Function: Breaking the in silico Barrier
resolves10.1021/ar5002999
Markov State Models Provide Insights into Dynamic Modulation of Protein Function
resolves10.1021/ci100076j
Molecular Dynamics Simulations and Elastic Network Analysis of Protein Kinase B (Akt/PKB) Inactivation
resolves10.1021/ct4008603
Weighted Implementation of Suboptimal Paths (WISP): An Optimized Algorithm and Tool for Dynamical Network Analysis
resolves10.1021/acscatal.7b02954
Role of Conformational Dynamics in the Evolution of Retro-Aldolase Activity
resolves10.1016/j.bpj.2014.06.015
Differences in Allosteric Communication Pipelines in the Inactive and Active States of a GPCR
resolves10.1146/annurev-biophys-091720-102019
Biomolecular Modeling and Simulation: A Prospering Multidisciplinary Field
resolves10.1103/PhysRevLett.35.789
Direct Computation of Dynamical Response by Molecular Dynamics: The Mobility of a Charged Lennard-Jones Particle
resolves10.1007/978-94-011-3546-7_6
Molecular Dynamics Simulations of Nonequilibrium Phenomena and Rare Dynamical Events
resolves10.1103/PhysRevE.78.021204
Bulk viscosity of the Lennard-Jones system at the triple point by dynamical nonequilibrium molecular dynamics
resolves10.1103/PhysRevA.34.1355
Nonlinear thermal response of a Lennard-Jones fluid near the triple point
resolves10.1039/c1cp20778d
Hydrodynamics from statistical mechanics: combined dynamical-NEMD and conditional sampling to relax an interface between two immiscible liquids
resolves10.1063/1.3174392
Transient hydrodynamical behavior by dynamical nonequilibrium molecular dynamics: The formation of convective cells
resolves10.1103/PhysRevLett.60.128
Shear-Rate Dependence of the Viscosity of Simple Fluids by Nonequilibrium Molecular Dynamics
resolves10.1016/S0009-2614(89)87314-2
Constrained reaction coordinate dynamics for the simulation of rare events
resolves10.1002/pro.650
Structural consequences of ATP hydrolysis on the ABC transporter NBD dimer: Molecular dynamics studies of HlyB
resolves10.1021/jp212148x
Multiphoton Absorption of Myoglobin–Nitric Oxide Complex: Relaxation by D-NEMD of a Stationary State
resolves10.1021/acs.jpclett.5b01348
Continuous and Discontinuous Dynamic Crossover in Supercooled Water in Computer Simulations
resolves10.1016/j.supflu.2017.06.017
Transport properties of mixtures composed of acetone, water, and supercritical carbon dioxide by molecular dynamics simulation
resolves10.1021/acs.langmuir.7b02565
Thermal Diffusion in Binary Mixtures: Transient Behavior and Transport Coefficients from Equilibrium and Nonequilibrium Molecular Dynamics
resolves10.1021/jacs.9b09055
A General Mechanism for Signal Propagation in the Nicotinic Acetylcholine Receptor Family
resolves10.1002/prot.25776
F508del disturbs the dynamics of the nucleotide binding domains of CFTR before and after ATP hydrolysis
resolves10.7554/eLife.66567
Allosteric communication in class A β-lactamases occurs via cooperative coupling of loop dynamics
resolves10.1016/j.str.2019.04.008
Identification of the Initial Steps in Signal Transduction in the α4β2 Nicotinic Receptor: Insights from Equilibrium and Nonequilibrium Simulations
resolves10.1016/0010-4655(95)00042-E
GROMACS: A message-passing parallel molecular dynamics implementation
resolves10.1016/j.softx.2015.06.001
GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers
resolves10.1128/MMBR.00031-07
Structure, Function, and Evolution of Bacterial ATP-Binding Cassette Systems
resolves10.33549/physiolres.930432
Human ATP-binding cassette (ABC) transporters and lipoprotein metabolism.
resolves10.1146/annurev-biochem-011520-105201
Structural and Mechanistic Principles of ABC Transporters
resolves10.1016/j.biocel.2014.04.001
Understanding how cystic fibrosis mutations disrupt CFTR function: From single molecules to animal models
resolves10.1038/s41586-019-1391-0
Conformation space of a heterodimeric ABC exporter under turnover conditions
resolves10.1016/j.neuron.2016.03.032
Emerging Molecular Mechanisms of Signal Transduction in Pentameric Ligand-Gated Ion Channels
resolves10.1016/j.bcp.2013.07.001
Structural insights into Cys-loop receptor function and ligand recognition
resolves10.1016/j.neuropharm.2014.12.006
The nicotinic acetylcholine receptor and its prokaryotic homologues: Structure, conformational transitions & allosteric modulation
resolves10.1126/science.1099420
Nicotine Activation of α4* Receptors: Sufficient for Reward, Tolerance, and Sensitization
resolves10.1038/nature03694
Nicotine reinforcement and cognition restored by targeted expression of nicotinic receptors
resolves10.1016/j.tips.2004.04.006
Nicotinic acetylcholine receptors and the regulation of neuronal signalling
resolves10.1038/s41586-018-0081-7
Structural principles of distinct assemblies of the human α4β2 nicotinic receptor
resolves10.1016/j.neuron.2020.03.012
Structure of the Native Muscle-type Nicotinic Receptor and Inhibition by Snake Venom Toxins
resolves10.1016/j.cell.2021.02.049
Structure and gating mechanism of the α7 nicotinic acetylcholine receptor
resolves10.3389/fmolb.2018.00016
Structural and Mechanistic Basis for Extended-Spectrum Drug-Resistance Mutations in Altering the Specificity of TEM, CTX-M, and KPC β-lactamases
resolves10.1021/acs.biochem.8b00480
Multiscale Simulations of Clavulanate Inhibition Identify the Reactive Complex in Class A β-Lactamases and Predict the Efficiency of Inhibition
resolves10.1021/acs.jmedchem.9b00728
Heteroaryl Phosphonates as Noncovalent Inhibitors of Both Serine- and Metallocarbapenemases
resolves10.1038/ncomms12965
Modelling proteins’ hidden conformations to predict antibiotic resistance
resolves10.1074/jbc.M109.053819
Structural and Biochemical Evidence That a TEM-1 β-Lactamase N170G Active Site Mutant Acts via Substrate-assisted Catalysis
resolves10.1128/JCM.42.1.269-275.2004
Effects of Inoculum and β-Lactamase Activity in AmpC- and Extended-Spectrum β-Lactamase (ESBL)-Producing
<i>Escherichia coli</i>
and
<i>Klebsiella pneumoniae</i>
Clinical Isolates Tested by Using NCCLS ESBL Methodology
The 4 references without a DOI — listed, not checked
no DOI — not checkedD.J. Huggins et al., Biomolecular simulations: from dynamics and mechanisms to computational assays of biological activity. WIREs Comput. Mol. Sci. e1393, 1–23 (2018)
no DOI — not checkedD. Case et al., AMBER 2020. (University of California, San Francisco)(2020)
no DOI — not checkedI.B. Holland et al., Type I protein secretion-deceptively simple yet with a wide range of mechanistic variability across the family. EcoSal Plus 2016, 7 (2016)
no DOI — not checkedA. Gharpure et al., Agonist Selectivity and ion permeation in the $$\upalpha 3\upbeta 4$$ ganglionic nicotinic receptor. Neuron 2019, 104 (2019)
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