Reduced structural flexibility for an exonuclease deficient DNA polymerase III mutant
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January 2018 |
Crystal Structure of the Catalytic α Subunit of E. coli Replicative DNA Polymerase III
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September 2006 |
cryo-EM structures of the E. coli replicative DNA polymerase reveal its dynamic interactions with the DNA sliding clamp, exonuclease and τ
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October 2015 |
Replisome-Mediated DNA Replication
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June 2001 |
A partial nudged elastic band implementation for use with large or explicitly solvated systems
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December 2009 |
Scalable molecular dynamics with NAMD
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January 2005 |
Modeling of loops in protein structures
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January 2000 |
The Amber biomolecular simulation programs
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January 2005 |
The kinetic and chemical mechanism of high-fidelity DNA polymerases
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May 2010 |
Uncovering universal rules governing the selectivity of the archetypal DNA glycosylase TDG
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May 2018 |
A structural role for the PHP domain in E. coli DNA polymerase III
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January 2013 |
Replicative DNA Polymerases
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June 2013 |
Multiensemble Markov models of molecular thermodynamics and kinetics
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May 2016 |
DNA polymerase III accessory proteins. V. Theta encoded by holE
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June 1993 |
Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 2. Explicit Solvent Particle Mesh Ewald
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August 2013 |
Protein-peptide association kinetics beyond the seconds timescale from atomistic simulations
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October 2017 |
Molecular Recognition of Canonical and Deaminated Bases by P. abyssi Family B DNA Polymerase
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October 2012 |
Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 1. Generalized Born
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April 2012 |
Slow dynamics of a protein backbone in molecular dynamics simulation revealed by time-structure based independent component analysis
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December 2013 |
DNA Polymerase Fidelity: Kinetics, Structure, and Checkpoints †
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November 2004 |
The Escherichia coli preprimosome and DNA B helicase can form replication forks that move at the same rate.
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December 1987 |
Probing molecular kinetics with Markov models: metastable states, transition pathways and spectroscopic observables
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January 2011 |
Self-correcting mismatches during high-fidelity DNA replication
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January 2017 |
Hydrolysis of the 5‘- p -Nitrophenyl Ester of TMP by the Proofreading Exonuclease (ε) Subunit of Escherichia coli DNA Polymerase III †
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April 2002 |
Probing DNA clamps with single-molecule force spectroscopy
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June 2013 |
Proofreading dynamics of a processive DNA polymerase
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August 2009 |
A direct proofreader–clamp interaction stabilizes the Pol III replicase in the polymerization mode
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February 2013 |
The Stationary Bootstrap
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December 1994 |
PyEMMA 2: A Software Package for Estimation, Validation, and Analysis of Markov Models
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October 2015 |
UCSF Chimera?A visualization system for exploratory research and analysis
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January 2004 |
The θ Subunit of Escherichia coli DNA Polymerase III: a Role in Stabilizing the ε Proofreading Subunit
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May 2004 |
Structure of a Sliding Clamp on DNA
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January 2008 |
Progress and challenges in the automated construction of Markov state models for full protein systems
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September 2009 |
Identification of the epsilon-subunit of Escherichia coli DNA polymerase III holoenzyme as the dnaQ gene product: a fidelity subunit for DNA replication.
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December 1983 |
Finding Transition Pathways Using the String Method with Swarms of Trajectories
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March 2008 |
Fidelity of Escherichia coli DNA Polymerase III Holoenzyme
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October 1997 |
Building a Replisome from Interacting Pieces
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October 1999 |
Single‐molecule mechanochemical characterization of E. coli pol III core catalytic activity
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March 2017 |
DNA replication fidelity in Mycobacterium tuberculosis is mediated by an ancestral prokaryotic proofreader
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April 2015 |
Slow dynamics in protein fluctuations revealed by time-structure based independent component analysis: The case of domain motions
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February 2011 |
ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB
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July 2015 |
Structural basis for the 3′-5′ exonuclease activity of Escherichia coli DNA polymerase I: a two metal ion mechanism.
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January 1991 |
Fuzzy spectral clustering by PCCA+: application to Markov state models and data classification
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May 2013 |
Characterization of a Triple DNA Polymerase Replisome
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August 2007 |
Dynamics of Proofreading by the E. coli Pol III Replicase
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January 2018 |
Molecular dynamics flexible fitting: A practical guide to combine cryo-electron microscopy and X-ray crystallography
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October 2009 |
Fast Implementation of the Nudged Elastic Band Method in AMBER
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July 2019 |
Structure of the Replicating Complex of a Pol α Family DNA Polymerase
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June 2001 |
Mechanisms of DNA Polymerases
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June 2009 |
Transition-Path Theory and Path-Finding Algorithms for the Study of Rare Events
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March 2010 |
Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations
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November 2009 |
Dynamical networks in tRNA:protein complexes
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April 2009 |
NetworkView: 3D display and analysis of protein{middle dot}RNA interaction networks
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September 2012 |
DNA Polymerases: Structural Diversity and Common Mechanisms
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June 1999 |
CELLULAR DNA REPLICASES: Components and Dynamics at the Replication Fork
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June 2005 |
Structure of DNA polymerase I Klenow fragment bound to duplex DNA
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April 1993 |
Structural Basis for Proofreading during Replication of the Escherichia coli Chromosome
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April 2002 |
Use of 2-Aminopurine Fluorescence To Examine Conformational Changes during Nucleotide Incorporation by DNA Polymerase I (Klenow Fragment)
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August 2003 |
A consensus view of DNA binding by the C family of replicative DNA polymerases
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December 2008 |
A mechanism for all polymerases
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January 1998 |
Secondary Interaction Interfaces with PCNA Control Conformational Switching of DNA Polymerase PolB from Polymerization to Editing
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May 2016 |
VMD: Visual molecular dynamics
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February 1996 |
Weighted Implementation of Suboptimal Paths (WISP): An Optimized Algorithm and Tool for Dynamical Network Analysis
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January 2014 |