Real-time single-molecule studies of the motions of DNA polymerase fingers illuminate DNA synthesis mechanisms

Tethered Fluorophore Motion: Studying Large DNA Conformational Changes by Single-fluorophore Imaging

(2014) Peter F.J. May et al.   BIOPHYSICAL JOURNAL

Both protein dynamics and ligand concentration can shift the binding mechanism between conformational selection and induced fit

(2014) N. Greives et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single molecule insights on conformational selection and induced fit mechanism

(2013) Nikos S. Hatzakis   BIOPHYSICAL CHEMISTRY

Alternating-laser excitation: single-molecule FRET and beyond

(2013) Johannes Hohlbein et al.   CHEMICAL SOCIETY REVIEWS

Dynamics of Site Switching in DNA Polymerase

(2013) Rajan Lamichhane et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A single-molecule dissection of ligand binding to a protein with intrinsic dynamics

(2013) Eunkyung Kim et al.   Nature Chemical Biology

Carcinogenic adducts induce distinct DNA polymerase binding orientations

(2013) Kyle B. Vrtis et al.   NUCLEIC ACIDS RESEARCH

Conformational landscapes of DNA polymerase I and mutator derivatives establish fidelity checkpoints for nucleotide insertion

(2013) Johannes Hohlbein et al.   Nature Communications

Single-Molecule Förster Resonance Energy Transfer Reveals an Innate Fidelity Checkpoint in DNA Polymerase I

(2012) Svitlana Y. Berezhna et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Single-molecule microscopy reveals new insights into nucleotide selection by DNA polymerase I

(2012) Radoslaw P. Markiewicz et al.   NUCLEIC ACIDS RESEARCH

Identifying Molecular Dynamics in Single-Molecule FRET Experiments with Burst Variance Analysis

(2011) Joseph P. Torella et al.   BIOPHYSICAL JOURNAL

Improved Temporal Resolution and Linked Hidden Markov Modeling for Switchable Single-Molecule FRET

(2011) Stephan Uphoff et al.   CHEMPHYSCHEM

The Structure of a High Fidelity DNA Polymerase Bound to a Mismatched Nucleotide Reveals an “Ajar” Intermediate Conformation in the Nucleotide Selection Mechanism

(2011) Eugene Y. Wu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Defining the Limits of Single-Molecule FRET Resolution in TIRF Microscopy

(2010) Seamus J. Holden et al.   BIOPHYSICAL JOURNAL

Characterizing Single-Molecule FRET Dynamics with Probability Distribution Analysis

(2010) Yusdi Santoso et al.   CHEMPHYSCHEM

Techniques used to study the DNA polymerase reaction pathway

(2009) Catherine M. Joyce   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Learning Rates and States from Biophysical Time Series: A Bayesian Approach to Model Selection and Single-Molecule FRET Data

(2009) Jonathan E. Bronson et al.   BIOPHYSICAL JOURNAL

On the Mechanism of Trolox as Antiblinking and Antibleaching Reagent

(2009) Thorben Cordes et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Single-molecule measurements of synthesis by DNA polymerase with base-pair resolution

(2009) Thomas D. Christian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Conformational transitions in DNA polymerase I revealed by single-molecule FRET

(2009) Y. Santoso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Red light, green light: probing single molecules using alternating-laser excitation

(2008) Yusdi Santoso et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Fingers-Closing and Other Rapid Conformational Changes in DNA Polymerase I (Klenow Fragment) and Their Role in Nucleotide Selectivity†

(2008) Catherine M. Joyce et al.   BIOCHEMISTRY

Role of Induced Fit in Enzyme Specificity: A Molecular Forward/Reverse Switch

(2008) Kenneth A. Johnson   JOURNAL OF BIOLOGICAL CHEMISTRY