Interdomain Contacts Control Native State Switching of RfaH on a Dual-Funneled Landscape

Mechanism of the All-α to All-β Conformational Transition of RfaH-CTD: Molecular Dynamics Simulation and Markov State Model

(2014) Shanshan Li et al.   Journal of Chemical Theory and Computation

Molecular Dynamics Investigations of the α-Helix to β-Barrel Conformational Transformation in the RfaH Transcription Factor

(2014) Jeevan B. GC et al.   JOURNAL OF PHYSICAL CHEMISTRY B

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

(2013) Sander Pronk et al.   BIOINFORMATICS

Interdomain contacts control folding of transcription factor RfaH

(2013) Sushil Kumar Tomar et al.   NUCLEIC ACIDS RESEARCH

An Autoinhibited State in the Structure of Thermotoga maritima NusG

(2013) Johanna Drögemüller et al.   STRUCTURE

An α Helix to β Barrel Domain Switch Transforms the Transcription Factor RfaH into a Translation Factor

(2012) Björn M. Burmann et al.   CELL

From A to B: A ride in the free energy surfaces of protein G domains suggests how new folds arise

(2012) Ludovico Sutto et al.   JOURNAL OF CHEMICAL PHYSICS

A Nexus for Gene Expression—Molecular Mechanisms of Spt5 and NusG in the Three Domains of Life

(2012) Finn Werner   JOURNAL OF MOLECULAR BIOLOGY

Mirror Images as Naturally Competing Conformations in Protein Folding

(2012) Jeffrey K. Noel et al.   JOURNAL OF PHYSICAL CHEMISTRY B

The Shadow Map: A General Contact Definition for Capturing the Dynamics of Biomolecular Folding and Function

(2012) Jeffrey K. Noel et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Protein frustratometer: a tool to localize energetic frustration in protein molecules

(2012) M. Jenik et al.   NUCLEIC ACIDS RESEARCH

Massive conformation change in the prion protein: Using dual-basin structure-based models to find misfolding pathways

(2012) Jesse P. Singh et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Transformation

(2012) Stefan H. Knauer et al.   RNA Biology

The Protein-Folding Problem, 50 Years On

(2012) K. A. Dill et al.   SCIENCE

Native-State Interconversion of a Metamorphic Protein Requires Global Unfolding

(2011) Robert C. Tyler et al.   BIOCHEMISTRY

Architecture of the RNA polymerase-Spt4/5 complex and basis of universal transcription processivity

(2011) Fuensanta W Martinez-Rucobo et al.   EMBO JOURNAL

SMOG@ctbp: simplified deployment of structure-based models in GROMACS

(2010) Jeffrey K. Noel et al.   NUCLEIC ACIDS RESEARCH

Lymphotactin: How a protein can adopt two folds

(2009) Carlo Camilloni et al.   JOURNAL OF CHEMICAL PHYSICS

Two Structurally Independent Domains of E. coli NusG Create Regulatory Plasticity via Distinct Interactions with RNA Polymerase and Regulators

(2009) Rachel Anne Mooney et al.   JOURNAL OF MOLECULAR BIOLOGY

Direct single-molecule observation of a protein living in two opposed native structures

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

The Jpred 3 secondary structure prediction server

(2008) C. Cole et al.   NUCLEIC ACIDS RESEARCH

Interconversion between two unrelated protein folds in the lymphotactin native state

(2008) Robbyn L. Tuinstra et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA