Design of coiled-coil protein-origami cages that self-assemble in vitro and in vivo

Ribosomal proteins as documents of the transition from unstructured (poly)peptides to folded proteins

(2017) Andrei N. Lupas et al.   JOURNAL OF STRUCTURAL BIOLOGY

Modulation of Coiled-Coil Dimer Stability through Surface Residues while Preserving Pairing Specificity

(2017) Igor Drobnak et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Design of virus-based nanomaterials for medicine, biotechnology, and energy

(2016) Amy M. Wen et al.   CHEMICAL SOCIETY REVIEWS

Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy

(2016) J.M. de la Rosa-Trevín et al.   JOURNAL OF STRUCTURAL BIOLOGY

Design of a hyperstable 60-subunit protein icosahedron

(2016) Yang Hsia et al.   NATURE

Designer nanoscale DNA assemblies programmed from the top down

(2016) R. Veneziano et al.   SCIENCE

Design principles for rapid folding of knotted DNA nanostructures

(2016) Vid Kočar et al.   Nature Communications

SMOG 2: A Versatile Software Package for Generating Structure-Based Models

(2016) Jeffrey K. Noel et al.   PLoS Computational Biology

Designing and defining dynamic protein cage nanoassemblies in solution

(2016) Y.-T. Lai et al.   Science Advances

Self-assembling protein nanoparticles in the design of vaccines

(2016) Jacinto López-Sagaseta et al.   Computational and Structural Biotechnology Journal

Designed Ankyrin Repeat Proteins (DARPins): Binding Proteins for Research, Diagnostics, and Therapy

(2015) Andreas Plückthun   Annual Review of Pharmacology and Toxicology

MDTraj: A Modern Open Library for the Analysis of Molecular Dynamics Trajectories

(2015) Robert T. McGibbon et al.   BIOPHYSICAL JOURNAL

Rational Design of an Epstein-Barr Virus Vaccine Targeting the Receptor-Binding Site

(2015) Masaru Kanekiyo et al.   CELL

DNA rendering of polyhedral meshes at the nanoscale

(2015) Erik Benson et al.   NATURE

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

Protein misfolding and dysregulated protein homeostasis in autoinflammatory diseases and beyond

(2015) Amma F. Agyemang et al.   Seminars in Immunopathology

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

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

A Set of Computationally Designed Orthogonal Antiparallel Homodimers that Expands the Synthetic Coiled-Coil Toolkit

(2014) Christopher Negron 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

The nature of protein folding pathways

(2014) S. Walter Englander et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TOPOFOLD, the designed modular biomolecular folds: polypeptide-based molecular origami nanostructures following the footsteps of DNA

(2014) Vid Kočar et al.   Wiley Interdisciplinary Reviews-Nanomedicine and Nanobiotechnology

A pattern matching approach to the automatic selection of particles from low-contrast electron micrographs

(2013) V. Abrishami et al.   BIOINFORMATICS

Self-assembling influenza nanoparticle vaccines elicit broadly neutralizing H1N1 antibodies

(2013) Masaru Kanekiyo et al.   NATURE

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

(2013) Helena Gradišar et al.   Nature Chemical Biology

Comprehensive macromolecular conformations mapped by quantitative SAXS analyses

(2013) Greg L Hura et al.   NATURE METHODS

Self-Assembling Cages from Coiled-Coil Peptide Modules

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

The Native GCN4 Leucine-Zipper Domain Does Not Uniquely Specify a Dimeric Oligomerization State

(2012) Kaylyn M. Oshaben et al.   BIOCHEMISTRY

NLRP3 inflammasome activation in macrophage cell lines by prion protein fibrils as the source of IL-1β and neuronal toxicity

(2012) Iva Hafner-Bratkovič et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

New developments in theATSASprogram package for small-angle scattering data analysis

(2012) Maxim V. Petoukhov et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

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

(2012) N. P. King et al.   SCIENCE

Virus-like particles as a highly efficient vaccine platform: Diversity of targets and production systems and advances in clinical development

(2012) Natasha Kushnir et al.   VACCINE

Functional Patterning of DNA Origami by Parallel Enzymatic Modification

(2011) Kasper Jahn et al.   BIOCONJUGATE CHEMISTRY

ProDy: Protein Dynamics Inferred from Theory and Experiments

(2011) A. Bakan et al.   BIOINFORMATICS

StavroX—A Software for Analyzing Crosslinked Products in Protein Interaction Studies

(2011) Michael Götze et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Challenges and opportunities for structural DNA nanotechnology

(2011) Andre V. Pinheiro et al.   Nature Nanotechnology

Nanomaterials Based on DNA

(2010) Nadrian C. Seeman   Annual Review of Biochemistry

Scatter: software for the analysis of nano- and mesoscale small-angle scattering

(2010) S. Förster et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

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

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

Model-Based Thermodynamic Analysis of Reversible Unfolding Processes

(2010) Igor Drobnak et al.   JOURNAL OF PHYSICAL CHEMISTRY B

A clustering approach to multireference alignment of single-particle projections in electron microscopy

(2010) C.O.S. Sorzano et al.   JOURNAL OF STRUCTURAL BIOLOGY

FoXS: a web server for rapid computation and fitting of SAXS profiles

(2010) D. Schneidman-Duhovny et al.   NUCLEIC ACIDS RESEARCH

Production of recombinant proteins by microbes and higher organisms

(2009) Arnold L. Demain et al.   BIOTECHNOLOGY ADVANCES

DAMMIF, a program for rapidab-initioshape determination in small-angle scattering

(2009) Daniel Franke et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

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

(2009) Gevorg Grigoryan et al.   NATURE

Self-assembly of DNA into nanoscale three-dimensional shapes

(2009) Shawn M. Douglas et al.   NATURE

Probing the “Dark Matter” of Protein Fold Space

(2009) William R. Taylor et al.   STRUCTURE

The leucine-rich repeat structure

(2008) J. Bella et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Ligand binding by repeat proteins: natural and designed

(2008) T GROVE et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Hierarchical self-assembly of DNA into symmetric supramolecular polyhedra

(2008) Yu He et al.   NATURE

Silica crystals and aluminum salts activate the NALP3 inflammasome through phagosomal destabilization

(2008) Veit Hornung et al.   NATURE IMMUNOLOGY

CC+: a relational database of coiled-coil structures

(2008) O. D. Testa et al.   NUCLEIC ACIDS RESEARCH