Protein Science

Cover image for Vol. 23 Issue 10

Edited By: Brian W. Matthews

Impact Factor: 2.861

ISI Journal Citation Reports © Ranking: 2013: 146/291 (Biochemistry & Molecular Biology)

Online ISSN: 1469-896X

Virtual Issue: Protein Folding

Issue 3, July 2010: Protein Folding: Short Question – Long Answer

Arguably, more articles in Protein Science deal with the folding of proteins than any other subject. Solving the protein folding problem also remains as one of the major challenges in biology. This Virtual Issue combines two groups of articles from Protein Science that deal with this subject. The first selections have already established themselves as “citation classics”. The second group of selections includes articles published within the past three years that can be characterized as “up-and-coming citation classics”. Together, these contributions revisit established highlights and provide pointers to future developments.

Introduction to the virtual issue
Brian W. Matthews

Principles of protein folding-A perspective from simple exact models
Ken A. Dill, Sarina Bromberg, Kaizhi Yue, Hue Sun Chan, Klaus M. Ftebig, David P. Yee and Paul D. Thomas

Structure and dynamics of de novo proteins from a designed superfamily of 4-helix bundles
Abigail Go, Seho Kim, Jean Baum and Michael H. Hecht

Molecular dynamics simulations of alanine rich β-sheet oligomers: Insight into amyloid formation
Buyong Ma, Ruth Nussinov

Denaturant m values and heat capacity changes: Relation to changes in accessible surface areas of protein unfolding
Jeffrey K. Myers, C. Nick Pace and J. Martin Scholtz

Helix propensities of the amino acids measured in alanine-based peptides without helix-stabilizing side-chain interactions
Avijit Chakrabartty, Tanja Kortemme and Robert L. Baldwin

Toward quantification of protein backbone-backbone hydrogen bonding energies: An energetic analysis of an amide-to-ester mutation in an α-helix within a protein
Jianmin Gao and Jeffery W. Kelly

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction
Hongyi Zhou and Yaoqi Zhou

The effects of macromolecular crowding on the mechanical stability of protein molecules
Jian-Min Yuan, Chia-Lin Chyan, Huan-Xiang Zhou, Tse-Yu Chung, Haibo Peng, Guanghui Ping and Guoliang Yang

Contact order revisited: Influence of protein size on the folding rate
Dmitry N. Ivankov, Sergiy O. Garbuzynskiy, Eric Alm, Kevin W. Plaxco, David Baker, Alexei V. Finkelstein

The topomer search model: A simple, quantitative theory of two-state protein folding kinetics
Dmitrii E. Makarov, Kevin W. Plaxco

Folding thermodynamics and kinetics of the leucine-rich repeat domain of the virulence factor Internalin B
Naomi Courtemanche, Doug Barrick

Structural characterization of partially folded intermediates of apomyoglobin H64F
Stephan Schwarzinger, Ronaldo Mohana-Borges, Gerard J.A. Kroon, H. Jane Dyson, Peter E. Wright

3D domain swapping: A mechanism for oligomer assembly
Melanie J. Bennett, Michael P. Schlunegger, David Eisenberg

RosettaHoles: Rapid assessment of protein core packing for structure prediction, refinement, design, and validation
Will Sheffler, David Baker

GroEL-mediated protein folding
Wayne A. Fenton, Arthur L. Horwich

The Brichos domain of prosurfactant protein C can hold and fold a transmembrane segment
Hanna Johansson, Maria Eriksson, Kerstin Nordling, Jenny Presto, Jan Johansson

Export chaperone SecB uses one surface of interaction for diverse unfolded polypeptide ligands
Angela A. Lilly, Jennine M. Crane, Linda L. Randall

Escherichia coli maltose-binding protein is uncommonly effective at promoting the solubility of polypeptides to which it is fused
Rachel B. Kapust, David S. Waugh

Deamidation destabilizes and triggers aggregation of a lens protein, βA3-crystallin
Takumi Takata, Julie T. Oxford, Borries Demeler, Kirsten J. Lampi

Crystal structures of truncated alphaA and alphaB crystallins reveal structural mechanisms of polydispersity important for eye lens function
Arthur Laganowsky, Justin L. P. Benesch, Meytal Landau, Linlin Ding, Michael R. Sawaya, Duilio Cascio, Qingling Huang, Carol V. Robinson, Joseph Horwitz, David Eisenberg