Published in Structure on April 01, 2005
Low-frequency normal modes that describe allosteric transitions in biological nanomachines are robust to sequence variations. Proc Natl Acad Sci U S A (2006) 1.90
Dynamics of allosteric transitions in GroEL. Proc Natl Acad Sci U S A (2006) 1.88
Optimization and evaluation of a coarse-grained model of protein motion using x-ray crystal data. Biophys J (2006) 1.62
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Src kinase activation: A switched electrostatic network. Protein Sci (2006) 1.40
Common mechanism of pore opening shared by five different potassium channels. Biophys J (2006) 1.40
Determination of network of residues that regulate allostery in protein families using sequence analysis. Protein Sci (2006) 1.35
Implications of the quaternary twist allosteric model for the physiology and pathology of nicotinic acetylcholine receptors. Proc Natl Acad Sci U S A (2006) 1.32
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Allosteric transitions in the chaperonin GroEL are captured by a dominant normal mode that is most robust to sequence variations. Biophys J (2007) 1.31
An electrostatic network and long-range regulation of Src kinases. Protein Sci (2008) 1.30
Ligand-induced global transitions in the catalytic domain of protein kinase A. Proc Natl Acad Sci U S A (2009) 1.25
Mechanical network in titin immunoglobulin from force distribution analysis. PLoS Comput Biol (2009) 1.25
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Comparison of mode analyses at different resolutions applied to nucleic acid systems. Biophys J (2005) 1.14
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Structure-based predictive models for allosteric hot spots. PLoS Comput Biol (2009) 0.98
RNA polymerase II flexibility during translocation from normal mode analysis. Proteins (2010) 0.97
Evol and ProDy for bridging protein sequence evolution and structural dynamics. Bioinformatics (2014) 0.94
Recombinant viral RdRps can initiate RNA synthesis from circular templates. RNA (2005) 0.93
Large-scale evaluation of dynamically important residues in proteins predicted by the perturbation analysis of a coarse-grained elastic model. BMC Struct Biol (2009) 0.89
A combinatorial approach to detect coevolved amino acid networks in protein families of variable divergence. PLoS Comput Biol (2009) 0.88
ATPase subdomain IA is a mediator of interdomain allostery in Hsp70 molecular chaperones. PLoS Comput Biol (2014) 0.88
Conformational dynamics of a regulator of G-protein signaling protein reveals a mechanism of allosteric inhibition by a small molecule. ACS Chem Biol (2013) 0.87
Identification of a new motif in family B DNA polymerases by mutational analyses of the bacteriophage t4 DNA polymerase. J Mol Biol (2010) 0.87
Conformational dynamics data bank: a database for conformational dynamics of proteins and supramolecular protein assemblies. Nucleic Acids Res (2010) 0.83
Computational simulation strategies for analysis of multisubunit RNA polymerases. Chem Rev (2013) 0.82
Effective harmonic potentials: insights into the internal cooperativity and sequence-specificity of protein dynamics. PLoS Comput Biol (2013) 0.81
Allosteric transitions in biological nanomachines are described by robust normal modes of elastic networks. Curr Protein Pept Sci (2009) 0.81
Discriminating binding mechanisms of an intrinsically disordered protein via a multi-state coarse-grained model. J Chem Phys (2014) 0.79
The intrinsic dynamics and function of nickel-binding regulatory protein: insights from elastic network analysis. Biophys J (2008) 0.79
Structure-Based Statistical Mechanical Model Accounts for the Causality and Energetics of Allosteric Communication. PLoS Comput Biol (2016) 0.78
A hinge migration mechanism unlocks the evolution of green-to-red photoconversion in GFP-like proteins. Structure (2015) 0.78
Exploring the contribution of collective motions to the dynamics of forced-unfolding in tubulin. Biophys J (2010) 0.78
Weak intra-ring allosteric communications of the archaeal chaperonin thermosome revealed by normal mode analysis. Biophys J (2012) 0.77
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Integrative Modeling of Macromolecular Assemblies from Low to Near-Atomic Resolution. Comput Struct Biotechnol J (2015) 0.76
Conformational Motions and Functionally Key Residues for Vitamin B12 Transporter BtuCD-BtuF Revealed by Elastic Network Model with a Function-Related Internal Coordinate. Int J Mol Sci (2015) 0.75
Evolutionary Conserved Positions Define Protein Conformational Diversity. PLoS Comput Biol (2016) 0.75
Ultraslow Water-Mediated Transmembrane Interactions Regulate the Activation of A2A Adenosine Receptor. Biophys J (2016) 0.75
DNA Polymerase Conformational Dynamics and the Role of Fidelity-Conferring Residues: Insights from Computational Simulations. Front Mol Biosci (2016) 0.75
Conformational Dynamics of Response Regulator RegX3 from Mycobacterium tuberculosis. PLoS One (2015) 0.75
Evaluating the effect of mutations and ligand binding on transthyretin homotetramer dynamics. PLoS One (2017) 0.75
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Allosteric transitions in the chaperonin GroEL are captured by a dominant normal mode that is most robust to sequence variations. Biophys J (2007) 1.31
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Probing the instabilities in the dynamics of helical fragments from mouse PrPC. Proc Natl Acad Sci U S A (2004) 1.31
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