The Role of Oligomerization and Cooperative Regulation in Protein Function: The Case of Tryptophan Synthase

From Induced Fit to Conformational Selection: A Continuum of Binding Mechanism Controlled by the Timescale of Conformational Transitions

(2010) Huan-Xiang Zhou   BIOPHYSICAL JOURNAL

T-Analyst: a program for efficient analysis of protein conformational changes by torsion angles

(2010) Rizi Ai et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Free-Energy-Based Methods for Binding Profile Determination in a Congeneric Series of CDK2 Inhibitors

(2010) Jérémy Fidelak et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Synergistic Regulation and Ligand-Induced Conformational Changes of Tryptophan Synthase

(2009) M. Qaiser Fatmi et al.   BIOCHEMISTRY

Enzymatic Activity versus Structural Dynamics: The Case of Acetylcholinesterase Tetramer

(2009) Alemayehu A. Gorfe et al.   BIOPHYSICAL JOURNAL

Tryptophan synthase: a mine for enzymologists

(2009) Samanta Raboni et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Conformational Ensemble Modulates Cooperativity in the Rate-determining Catalytic Step in the E1 Component of the Escherichia coli Pyruvate Dehydrogenase Multienzyme Complex

(2009) Sachin Kale et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Quantifying Correlations Between Allosteric Sites in Thermodynamic Ensembles

(2009) Christopher L. McClendon et al.   Journal of Chemical Theory and Computation

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Using Multiconformation Continuum Electrostatics to Compare Chloride Binding Motifs in α-Amylase, Human Serum Albumin, and Omp32

(2009) Yifan Song et al.   JOURNAL OF MOLECULAR BIOLOGY

Protein allostery, signal transmission and dynamics: a classification scheme of allosteric mechanisms

(2009) Chung-Jung Tsai et al.   Molecular BioSystems

Protein oligomerization in the bacterial outer membrane (Review)

(2009) Guoyu Meng et al.   MOLECULAR MEMBRANE BIOLOGY

The role of dynamic conformational ensembles in biomolecular recognition

(2009) David D Boehr et al.   Nature Chemical Biology

PRIMO/PRIMONA: A coarse-grained model for proteins and nucleic acids that preserves near-atomistic accuracy

(2009) Srinivasa M. Gopal et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Cell Signaling in Space and Time: Where Proteins Come Together and When They're Apart

(2009) J. D. Scott et al.   SCIENCE

Observing biological dynamics at atomic resolution using NMR

(2009) Anthony K. Mittermaier et al.   TRENDS IN BIOCHEMICAL SCIENCES

Characterisation of the tryptophan synthase alpha subunit in maize

(2008) Verena Kriechbaumer et al.   BMC PLANT BIOLOGY

Structure and Mechanistic Implications of a Tryptophan Synthase Quinonoid Intermediate

(2008) Thomas R. M. Barends et al.   CHEMBIOCHEM

Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy

(2008) Robert J Conrado et al.   CURRENT OPINION IN BIOTECHNOLOGY

An experimentally guided umbrella sampling protocol for biomolecules

(2008) Maria Mills et al.   JOURNAL OF CHEMICAL PHYSICS

The MARTINI Coarse-Grained Force Field: Extension to Proteins

(2008) Luca Monticelli et al.   Journal of Chemical Theory and Computation

Efficient calculation of configurational entropy from molecular simulations by combining the mutual-information expansion and nearest-neighbor methods

(2008) Vladimir Hnizdo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Cooperativity and biological complexity

(2008) Adrian Whitty   Nature Chemical Biology

Entropic contributions and the influence of the hydrophobic environment in promiscuous protein-protein association

(2008) C.-e. A. Chang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms

(2008) K.-i. Okazaki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Allostery and cooperativity revisited

(2008) Qiang Cui et al.   PROTEIN SCIENCE

Tryptophan synthase: the workings of a channeling nanomachine

(2008) Michael F. Dunn et al.   TRENDS IN BIOCHEMICAL SCIENCES