pH-sensitive residues in the p19 RNA silencing suppressor protein from carnation Italian ringspot virus affect siRNA binding stability

Unraveling a Trap-and-Trigger Mechanism in the pH-Sensitive Self-Assembly of Spider Silk Proteins

(2012) Jason A. Wallace et al.   Journal of Physical Chemistry Letters

Constant pH Molecular Dynamics Simulations of Nucleic Acids in Explicit Solvent

(2011) Garrett B. Goh et al.   Journal of Chemical Theory and Computation

Continuous Constant pH Molecular Dynamics in Explicit Solvent with pH-Based Replica Exchange

(2011) Jason A. Wallace et al.   Journal of Chemical Theory and Computation

Probing pH-Dependent Dissociation of HdeA Dimers

(2011) Bin W. Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Predicting extreme pKa shifts in staphylococcal nuclease mutants with constant pH molecular dynamics

(2011) Evan J. Arthur et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Progress in the prediction of pKa values in proteins

(2011) Emil Alexov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Toward accurate prediction of pKa values for internal protein residues: The importance of conformational relaxation and desolvation energy

(2011) Jason A. Wallace et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Uncovering Specific Electrostatic Interactions in the Denatured States of Proteins

(2010) Jana K. Shen   BIOPHYSICAL JOURNAL

Protein mediated miRNA detection and siRNA enrichment using p19

(2010) Jingmin Jin et al.   BIOTECHNIQUES

Coupling Constant pH Molecular Dynamics with Accelerated Molecular Dynamics

(2010) Sarah L. Williams et al.   Journal of Chemical Theory and Computation

Constant pH Replica Exchange Molecular Dynamics in Biomolecules Using a Discrete Protonation Model

(2010) Yilin Meng et al.   Journal of Chemical Theory and Computation

A Method To Determine Residue-Specific Unfolded-State pKaValues from Analysis of Stability Changes in Single Mutant Cycles

(2010) Jana K. Shen   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Cysteine residues of Carnation Italian Ringspot virus p19 suppressor of RNA silencing maintain global structural integrity and stability for siRNA binding

(2009) Jenny Cheng et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Studies of a viral suppressor of RNA silencing p19-CFP fusion protein: A FRET-based probe for sensing double-stranded fluorophore tagged small RNAs

(2009) Roger Koukiekolo et al.   BIOPHYSICAL CHEMISTRY

Recognition Mechanism of siRNA by Viral p19 Suppressor of RNA Silencing: A Molecular Dynamics Study

(2009) Zhen Xia et al.   BIOPHYSICAL JOURNAL

λ-Dynamics free energy simulation methods

(2009) Jennifer L. Knight et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

CHARMM: The biomolecular simulation program

(2009) B. R. Brooks et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Molecular Dynamics at Constant pH and Reduction Potential: Application to Cytochromec3

(2009) Miguel Machuqueiro et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Multiscale simulations of protein landscapes: Using coarse-grained models as reference potentials to full explicit models

(2009) Benjamin M. Messer et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Acidic range titration of HEWL using a constant-pH molecular dynamics method

(2008) Miguel Machuqueiro et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Argonaute proteins: key players in RNA silencing

(2007) Gyorgy Hutvagner et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY