Standout Papers
- RosettaDock in CAPRI rounds 6–12 (2007)
- Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home (2007)
- A conserved structural motif mediates formation of the periplasmic rings in the type III secretion system (2009)
- Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping (2010)
- Rosetta in CAPRI rounds 13–19 (2010)
- RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design (2011)
- Modeling Symmetric Macromolecular Structures in Rosetta3 (2011)
- A Vast Repertoire of Dscam Binding Specificities Arises from Modular Interactions of Variable Ig Domains (2007)
- Determination of the Structures of Symmetric Protein Oligomers from NMR Chemical Shifts and Residual Dipolar Couplings (2011)
- Interactions of the Transmembrane Polymeric Rings of the Salmonella enterica Serovar Typhimurium Type III Secretion System (2010)
- Computational Design of Self-Assembling Protein Nanomaterials with Atomic Level Accuracy (2012)
- Prediction of the structure of symmetrical protein assemblies (2007)
- A Double S Shape Provides the Structural Basis for the Extraordinary Binding Specificity of Dscam Isoforms (2008)
- Simultaneous prediction of protein folding and docking at high resolution (2009)
- Emergence of symmetry in homooligomeric biological assemblies (2008)
Citation Impact
Citing Papers
Selective targeting of engineered T cells using orthogonal IL-2 cytokine-receptor complexes
2018 StandoutScienceNobel
Confirmation of intersubunit connectivity and topology of designed protein complexes by native MS
2018 StandoutNobel
An enumerative algorithm for de novo design of proteins with diverse pocket structures
2020 StandoutNobel
Nature of the protein universe
2009 StandoutNobel
A general-purpose protein design framework based on mining sequence–structure relationships in known protein structures
2019
Generation of ordered protein assemblies using rigid three-body fusion
2021 StandoutNobel
Global analysis of protein folding using massively parallel design, synthesis, and testing
2017 StandoutScienceNobel
Protein homology model refinement by large-scale energy optimization
2018 StandoutNobel
Transferrin receptor targeting by de novo sheet extension
2021 StandoutNobel
Tight and specific lanthanide binding in a de novo TIM barrel with a large internal cavity designed by symmetric domain fusion
2020 StandoutNobel
Computational design of closely related proteins that adopt two well-defined but structurally divergent folds
2020 StandoutNobel
Computational design of a protein crystal
2012
Automated de novo prediction of native-like RNA tertiary structures
2007 StandoutNobel
Accurate computational design of multipass transmembrane proteins
2018 StandoutScienceNobel
De novo design of picomolar SARS-CoV-2 miniprotein inhibitors
2020 StandoutScienceNobel
Rapid and automated design of two-component protein nanomaterials using ProteinMPNN
2024 StandoutNobel
Four-component protein nanocages designed by programmed symmetry breaking
2024 StandoutNatureNobel
Hierarchical design of pseudosymmetric protein nanocages
2024 StandoutNatureNobel
Assembly of complex viruses exemplified by a halophilic euryarchaeal virus
2019
De novo design of modular and tunable protein biosensors
2021 StandoutNatureNobel
A suite of designed protein cages using machine learning and protein fragment-based protocols
2024
Mutational scanning reveals the determinants of protein insertion and association energetics in the plasma membrane
2016
Two-tier supramolecular encapsulation of small molecules in a protein cage
2020
The enabled state of DNA nanotechnology
2013
Biomolecular magic-angle spinning solid-state NMR: recent methods and applications
2013
Improved molecular replacement by density- and energy-guided protein structure optimization
2011 StandoutNatureNobel
Computational Design of a Protein-Based Enzyme Inhibitor
2013 StandoutNobel
Atomic model of the type III secretion system needle
2012 StandoutNatureNobel
Control of repeat-protein curvature by computational protein design
2015 StandoutNobel
RosettaScripts: A Scripting Language Interface to the Rosetta Macromolecular Modeling Suite
2011 StandoutNobel
An Integrated Framework Advancing Membrane Protein Modeling and Design
2015
A comparison of successful and failed protein interface designs highlights the challenges of designing buried hydrogen bonds
2012
The design of symmetric protein nanomaterials comes of age in theory and practice
2016
Protein–protein interaction and quaternary structure
2008
Principles for designing ordered protein assemblies
2012
Designed proteins induce the formation of nanocage-containing extracellular vesicles
2016 Nature
Accurate design of co-assembling multi-component protein nanomaterials
2014 StandoutNatureNobel
High-resolution structure of the Shigella type-III secretion needle by solid-state NMR and cryo-electron microscopy
2014 StandoutNobel
Engineering the entropy-driven free-energy landscape of a dynamic nanoporous protein assembly
2018
Directed enzyme evolution: beyond the low-hanging fruit
2012
High-Resolution Comparative Modeling with RosettaCM
2013 StandoutNobel
Role of the Biomolecular Energy Gap in Protein Design, Structure, and Evolution
2012 StandoutNobel
Principles for designing ideal protein structures
2012 StandoutNatureNobel
Efficient sampling of protein conformational space using fast loop building and batch minimization on highly parallel computers
2012 StandoutNobel
Protein structure prediction: when is it useful?
2009
Protein folding and de novo protein design for biotechnological applications
2013
Structure of a designed protein cage that self-assembles into a highly porous cube
2014
Rational design of α-helical tandem repeat proteins with closed architectures
2015 StandoutNatureNobel
High-resolution structure prediction and the crystallographic phase problem
2007 StandoutNatureNobel
Computational design of self-assembling cyclic protein homo-oligomers
2016 StandoutNobel
The coming of age of de novo protein design
2016 StandoutNatureNobel
Design of biologically active binary protein 2D materials
2021 StandoutNatureNobel
Bioengineered protein-based nanocage for drug delivery
2016
Expansion of the eukaryotic proteome by alternative splicing
2010 StandoutNature
De Novo Proteins with Life-Sustaining Functions Are Structurally Dynamic
2015
Self-assembling protein nanoparticles in the design of vaccines
2015
Four Small Puzzles That Rosetta Doesn't Solve
2011
The Origin of Consistent Protein Structure Refinement from Structural Averaging
2015 StandoutNobel
A Pareto-Optimal Refinement Method for Protein Design Scaffolds
2013 StandoutNobel
De novo design of a fluorescence-activating β-barrel
2018 StandoutNatureNobel
Practical approaches to designing novel protein assemblies
2013
High-Resolution Microtubule Structures Reveal the Structural Transitions in αβ-Tubulin upon GTP Hydrolysis
2014 StandoutNobel
Improved low-resolution crystallographic refinement with Phenix and Rosetta
2013 StandoutNobel
Design of multi-scale protein complexes by hierarchical building block fusion
2021 StandoutNobel
Emerging themes in the computational design of novel enzymes and protein–protein interfaces
2012
CASP9 assessment of free modeling target predictions
2011
Theoretical and Computational Protein Design
2011
De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy
2015 StandoutNobel
De novo protein design: how do we expand into the universe of possible protein structures?
2015
Exploring the repeat protein universe through computational protein design
2015 StandoutNatureNobel
Controlling protein assembly on inorganic crystals through designed protein interfaces
2019 StandoutNatureNobel
Automatically Fixing Errors in Glycoprotein Structures with Rosetta
2018
Protein sequence design with a learned potential
2022
Proteins evolve on the edge of supramolecular self-assembly
2017 Nature
A General Computational Approach for Repeat Protein Design
2014 StandoutNobel
Scientific Benchmarks for Guiding Macromolecular Energy Function Improvement
2013 StandoutNobel
Design of a single-chain polypeptide tetrahedron assembled from coiled-coil segments
2013
An accurate binding interaction model in de novo computational protein design of interactions: If you build it, they will bind
2013
Exploitation of binding energy for catalysis and design
2009 StandoutNatureNobel
Accurate design of megadalton-scale two-component icosahedral protein complexes
2016 StandoutScienceNobel
Precise assembly of complex beta sheet topologies from de novo designed building blocks
2015 StandoutNobel
Diffusion-Limited Cargo Loading of an Engineered Protein Container
2015
Structure of a designed tetrahedral protein assembly variant engineered to have improved soluble expression
2015 StandoutNobel
Relaxation of backbone bond geometry improves protein energy landscape modeling
2013 StandoutNobel
Rational HIV Immunogen Design to Target Specific Germline B Cell Receptors
2013 StandoutScienceNobel
De novo design of modular protein hydrogels with programmable intra- and extracellular viscoelasticity
2024 StandoutNobel
Design and Characterization of an Icosahedral Protein Cage Formed by a Double-Fusion Protein Containing Three Distinct Symmetry Elements
2020
Constructing arrays of proteins
2013
Significant Refinement of Protein Structure Models Using a Residue-Specific Force Field
2015
De novo design of protein homo-oligomers with modular hydrogen-bond network–mediated specificity
2016 StandoutScienceNobel
Metal-Mediated Affinity and Orientation Specificity in a Computationally Designed Protein Homodimer
2011
High thermodynamic stability of parametrically designed helical bundles
2014 StandoutScienceNobel
Self-Assembling Cages from Coiled-Coil Peptide Modules
2013 Science
Symmetry‐Directed Self‐Assembly of a Tetrahedral Protein Cage Mediated by de Novo‐Designed Coiled Coils
2017
Structural DNA Nanotechnology: State of the Art and Future Perspective
2014
Computational design and experimental verification of a symmetric protein homodimer
2015
Accurate protein structure modeling using sparse NMR data and homologous structure information
2012 StandoutNobel
The NMR–Rosetta capsid model of M13 bacteriophage reveals a quadrupled hydrophobic packing epitope
2015 StandoutNobel
Generalized ensemble methods for de novo structure prediction
2009 StandoutNobel
Macromolecular Modeling with Rosetta
2008 StandoutNobel
Cryo‐EM model validation using independent map reconstructions
2013 StandoutNobel
Metal‐dependent assembly of a protein nano‐cage
2019
Self-Assembling Nano-Architectures Created from a Protein Nano-Building Block Using an Intermolecularly Folded Dimeric de Novo Protein
2015
Computational design of mechanically coupled axle-rotor protein assemblies
2022 StandoutScienceNobel
De novo design of small beta barrel proteins
2023 StandoutNobel
Designed Protein Cages as Scaffolds for Building Multienzyme Materials
2020
A general strategy to construct small molecule biosensors in eukaryotes
2015 StandoutNobel
Control over overall shape and size in de novo designed proteins
2015 StandoutNobel
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design
2017 StandoutNobel
Flexible, symmetry-directed approach to assembling protein cages
2016
Design of a hyperstable 60-subunit protein icosahedron
2016 StandoutNatureNobel
Determination of solution structures of proteins up to 40 kDa using CS-Rosetta with sparse NMR data from deuterated samples
2012 StandoutNobel
Essentials of de novo protein design: Methods and applications
2018
De novo design of protein homodimers containing tunable symmetric protein pockets
2022 StandoutNobel
Structure and Flexibility of Nanoscale Protein Cages Designed by Symmetric Self-Assembly
2013
Metal templated design of protein interfaces
2009
Designing Two-Dimensional Protein Arrays through Fusion of Multimers and Interface Mutations
2015 StandoutNobel
Top-down design of protein architectures with reinforcement learning
2023 StandoutScienceNobel
Computational design of a symmetric homodimer using β-strand assembly
2011
Coiled-Coil-Mediated Assembly of an Icosahedral Protein Cage with Extremely High Thermal and Chemical Stability
2019
Protein Assembly by Design
2021
Reconfigurable asymmetric protein assemblies through implicit negative design
2022 StandoutScienceNobel
Geometric Principles for Designing Highly Symmetric Self-Assembling Protein Nanomaterials
2017
A complete rule set for designing symmetry combination materials from protein molecules
2020
Structural basis for gating charge movement in the voltage sensor of a sodium channel
2011 StandoutNobel
Design of ordered two-dimensional arrays mediated by noncovalent protein-protein interfaces
2015 StandoutScienceNobel
Works of Ingemar André being referenced
Computational Design of Self-Assembling Protein Nanomaterials with Atomic Level Accuracy
2012 StandoutScienceNobel
Simultaneous prediction of protein folding and docking at high resolution
2009 StandoutNobel
Emergence of symmetry in homooligomeric biological assemblies
2008 StandoutNobel
Modeling Symmetric Macromolecular Structures in Rosetta3
2011 StandoutNobel
Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home
2007 StandoutNobel
A Vast Repertoire of Dscam Binding Specificities Arises from Modular Interactions of Variable Ig Domains
2007 StandoutNobel
A De Novo Designed Coiled-Coil Peptide with a Reversible pH-Induced Oligomerization Switch
2016
Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping
2010 StandoutNobel
Computational design of protein self-assembly
2016
Computational De Novo Design of a Self-Assembling Peptide with Predefined Structure
2014
RosettaDock in CAPRI rounds 6–12
2007 StandoutNobel
A conserved structural motif mediates formation of the periplasmic rings in the type III secretion system
2009 StandoutNobel
Computational design of a leucine-rich repeat protein with a predefined geometry
2014
Prediction of the structure of symmetrical protein assemblies
2007 StandoutNobel
Determination of the Structures of Symmetric Protein Oligomers from NMR Chemical Shifts and Residual Dipolar Couplings
2011 StandoutNobel
RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design
2011 StandoutNobel