Progress in computational protein design

SM Lippow, B Tidor - Current opinion in biotechnology, 2007 - Elsevier
Current progress in computational structure-based protein design is reviewed in the areas of
methodology and applications. Foundational advances include new potential functions …

Better library design: data‐driven protein engineering

JF Chaparro‐Riggers, KM Polizzi… - Biotechnology …, 2007 - Wiley Online Library
Data‐driven protein engineering is increasingly used as an alternative to rational design
and combinatorial engineering because it uses available knowledge to limit library size …

Coevolutionary signals across protein lineages help capture multiple protein conformations

F Morcos, B Jana, T Hwa… - Proceedings of the …, 2013 - National Acad Sciences
A long-standing problem in molecular biology is the determination of a complete functional
conformational landscape of proteins. This includes not only proteins' native structures, but …

Metabolomics, modelling and machine learning in systems biology–towards an understanding of the languages of cells: delivered on 3 July 2005 at the 30th FEBS …

DB Kell - The FEBS journal, 2006 - Wiley Online Library
The newly emerging field of systems biology involves a judicious interplay between high‐
throughput 'wet'experimentation, computational modelling and technology development …

A focused antibody library for selecting scFvs expressed at high levels in the cytoplasm

P Philibert, A Stoessel, W Wang, AP Sibler, N Bec… - BMC …, 2007 - Springer
Background Intrabodies are defined as antibody molecules which are ectopically expressed
inside the cell. Such intrabodies can be used to visualize or inhibit the targeted antigen in …

Advances in computational protein design

S Park, X Yang, JG Saven - Current opinion in structural biology, 2004 - Elsevier
Computational protein design continues to experience a variety of methodological
advances. Several improvements have been suggested for the objective functions used to …

Limitations of yeast surface display in engineering proteins of high thermostability

S Park, Y Xu, XF Stowell, F Gai… - … Design and Selection, 2006 - academic.oup.com
Engineering proteins that can fold to unique structures remains a challenge. Protein stability
has previously been engineered via the observed correlation between thermal stability and …

Design of functional ferritin-like proteins with hydrophobic cavities

J Swift, WA Wehbi, BD Kelly, XF Stowell… - Journal of the …, 2006 - ACS Publications
Ferritin four-helix bundle subunits self-assemble to create a stable multimer with a large
central hydrophilic cavity where metal ions bind. To explore the versatility of this reaction …

Computational protein design: engineering molecular diversity, nonnatural enzymes, nonbiological cofactor complexes, and membrane proteins

JG Saven - Current opinion in chemical biology, 2011 - Elsevier
Computational and theoretical methods are advancing protein design as a means to create
and investigate proteins. Such efforts further our capacity to control, design and understand …

[HTML][HTML] Computational design of membrane proteins

JM Perez-Aguilar, JG Saven - Structure, 2012 - cell.com
Membrane proteins are involved in a wide variety of cellular processes, and are typically
part of the first interaction a cell has with extracellular molecules. As a result, these proteins …