The coming of age of de novo protein design

De Novo Proteins with Life-Sustaining Functions Are Structurally Dynamic

(2016) Grant S. Murphy et al.   JOURNAL OF MOLECULAR BIOLOGY

Fast Knoevenagel Condensations Catalyzed by an Artificial Schiff-Base-Forming Enzyme

(2016) Xavier Garrabou et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Design of a hyperstable 60-subunit protein icosahedron

(2016) Yang Hsia et al.   NATURE

De novo design of protein homo-oligomers with modular hydrogen-bond network-mediated specificity

(2016) S. E. Boyken et al.   SCIENCE

Design of structurally distinct proteins using strategies inspired by evolution

(2016) T. M. Jacobs et al.   SCIENCE

Accurate design of megadalton-scale two-component icosahedral protein complexes

(2016) J. B. Bale et al.   SCIENCE

A Computationally Designed Hemagglutinin Stem-Binding Protein Provides In Vivo Protection from Influenza Independent of a Host Immune Response

(2016) Merika Treants Koday et al.   PLoS Pathogens

Protein design: Past, present, and future

(2015) Lynne Regan et al.   BIOPOLYMERS

Rational design of α-helical tandem repeat proteins with closed architectures

(2015) Lindsey Doyle et al.   NATURE

Exploring the repeat protein universe through computational protein design

(2015) TJ Brunette et al.   NATURE

De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy

(2015) Po-Ssu Huang et al.   Nature Chemical Biology

Control of repeat-protein curvature by computational protein design

(2015) Keunwan Park et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Computational design and experimental verification of a symmetric protein homodimer

(2015) Yun Mou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Control over overall shape and size in de novo designed proteins

(2015) Yu-Ru Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The nature of chemical innovation: new enzymes by evolution

(2015) Frances H. Arnold   QUARTERLY REVIEWS OF BIOPHYSICS

Design of ordered two-dimensional arrays mediated by noncovalent protein-protein interfaces

(2015) S. Gonen et al.   SCIENCE

Control of repeat-protein curvature by computational protein design

(2015) Keunwan Park et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Large-scale determination of previously unsolved protein structures using evolutionary information

(2015) Sergey Ovchinnikov et al.   eLife

CCBuilder: an interactive web-based tool for building, designing and assessing coiled-coil protein assemblies

(2014) C. W. Wood et al.   BIOINFORMATICS

Structural DNA Nanotechnology: State of the Art and Future Perspective

(2014) Fei Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Proof of principle for epitope-focused vaccine design

(2014) Bruno E. Correia et al.   NATURE

Accurate design of co-assembling multi-component protein nanomaterials

(2014) Neil P. King et al.   NATURE

Bioluminescent sensor proteins for point-of-care therapeutic drug monitoring

(2014) Rudolf Griss et al.   Nature Chemical Biology

Computational design of a leucine-rich repeat protein with a predefined geometry

(2014) Sebastian Rämisch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo design of a transmembrane Zn2+-transporting four-helix bundle

(2014) Nathan H. Joh et al.   SCIENCE

Computational design of water-soluble α-helical barrels

(2014) Andrew R. Thomson et al.   SCIENCE

High thermodynamic stability of parametrically designed helical bundles

(2014) Po-Ssu Huang et al.   SCIENCE

Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information

(2014) Sergey Ovchinnikov et al.   eLife

Computational Enzyme Design

(2013) Gert Kiss et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Design of Protein Catalysts

(2013) Donald Hilvert   Annual Review of Biochemistry

The enabled state of DNA nanotechnology

(2013) Veikko Linko et al.   CURRENT OPINION IN BIOTECHNOLOGY

De novo enzymes by computational design

(2013) Hajo Kries et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

An accurate binding interaction model in de novo computational protein design of interactions: If you build it, they will bind

(2013) Nir London et al.   JOURNAL OF STRUCTURAL BIOLOGY

Computational design of ligand-binding proteins with high affinity and selectivity

(2013) Christine E. Tinberg et al.   NATURE

Evolution of a designed retro-aldolase leads to complete active site remodeling

(2013) Lars Giger et al.   Nature Chemical Biology

Design of a single-chain polypeptide tetrahedron assembled from coiled-coil segments

(2013) Helena Gradišar et al.   Nature Chemical Biology

Assessing the utility of coevolution-based residue-residue contact predictions in a sequence- and structure-rich era

(2013) H. Kamisetty et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Self-Assembling Cages from Coiled-Coil Peptide Modules

(2013) J. M. Fletcher et al.   SCIENCE

Protein folding and de novo protein design for biotechnological applications

(2013) George A. Khoury et al.   TRENDS IN BIOTECHNOLOGY

Directed enzyme evolution: beyond the low-hanging fruit

(2012) Moshe Goldsmith et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Principles for designing ideal protein structures

(2012) Nobuyasu Koga et al.   NATURE

A comparison of successful and failed protein interface designs highlights the challenges of designing buried hydrogen bonds

(2012) P. Benjamin Stranges et al.   PROTEIN SCIENCE

Computational Design of Self-Assembling Protein Nanomaterials with Atomic Level Accuracy

(2012) N. P. King et al.   SCIENCE

Increasing Sequence Diversity with Flexible Backbone Protein Design: The Complete Redesign of a Protein Hydrophobic Core

(2012) Grant S. Murphy et al.   STRUCTURE

A Basis Set of de Novo Coiled-Coil Peptide Oligomers for Rational Protein Design and Synthetic Biology

(2012) Jordan M. Fletcher et al.   ACS Synthetic Biology

A de novo peptide hexamer with a mutable channel

(2011) Nathan R Zaccai et al.   Nature Chemical Biology

De Novo Designed Proteins from a Library of Artificial Sequences Function in Escherichia Coli and Enable Cell Growth

(2011) Michael A. Fisher et al.   PLoS One

De Novo Enzyme Design Using Rosetta3

(2011) Florian Richter et al.   PLoS One

RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design

(2011) Po-Ssu Huang et al.   PLoS One

Computational Design of Virus-Like Protein Assemblies on Carbon Nanotube Surfaces

(2011) G. Grigoryan et al.   SCIENCE

Protein binding specificity versus promiscuity

(2010) Gideon Schreiber et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Probing Designability via a Generalized Model of Helical Bundle Geometry

(2010) Gevorg Grigoryan et al.   JOURNAL OF MOLECULAR BIOLOGY

De novo design of orthogonal peptide pairs forming parallel coiled-coil heterodimers

(2010) Helena Gradišar et al.   JOURNAL OF PEPTIDE SCIENCE

A Synthetic Coiled-Coil Interactome Provides Heterospecific Modules for Molecular Engineering

(2010) Aaron W. Reinke et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Protein design automation

(2010) Bassil I. Dahiyat et al.   PROTEIN SCIENCE

Evaluation and ranking of enzyme designs

(2010) Gert Kiss et al.   PROTEIN SCIENCE

An exciting but challenging road ahead for computational enzyme design

(2010) David Baker   PROTEIN SCIENCE

Learning generative models for protein fold families

(2010) Sivaraman Balakrishnan et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Directed evolution: new parts and optimized function

(2009) Michael J Dougherty et al.   CURRENT OPINION IN BIOTECHNOLOGY

The structure and function of G-protein-coupled receptors

(2009) Daniel M. Rosenbaum et al.   NATURE

Design of protein-interaction specificity gives selective bZIP-binding peptides

(2009) Gevorg Grigoryan et al.   NATURE