Standout Papers
Citation Impact
Citing Papers
Lessons from application of the UNRES force field to predictions of structures of CASP10 targets
2013
Protein homology model refinement by large-scale energy optimization
2018 StandoutNobel
Origins of coevolution between residues distant in protein 3D structures
2017 StandoutNobel
Computational design of closely related proteins that adopt two well-defined but structurally divergent folds
2020 StandoutNobel
The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach
2021 StandoutNobel
Improving physical realism, stereochemistry, and side‐chain accuracy in homology modeling: Four approaches that performed well in CASP8
2009 StandoutNobel
Rationally Designed Integrin β3 Mutants Stabilized in the High Affinity Conformation
2008 StandoutNobel
Predicting multiple conformations via sequence clustering and AlphaFold2
2023 Nature
Genome-wide identification and analysis of long noncoding RNAs (lncRNAs) during seed development in peanut (Arachis hypogaea L.)
2020
Protein Conformational Switches: From Nature to Design
2012
Coronavirus biology and replication: implications for SARS-CoV-2
2020 Standout
Multistate and functional protein design using RoseTTAFold sequence space diffusion
2024 StandoutNobel
Resolution‐adapted recombination of structural features significantly improves sampling in restraint‐guided structure calculation
2011 StandoutNobel
Nsp3 of coronaviruses: Structures and functions of a large multi-domain protein
2017
An optimized strategy to measure protein stability highlights differences between cold and hot unfolded states
2017
Plant flavonoids: Classification, distribution, biosynthesis, and antioxidant activity
2022 Standout
Food proteins: A review on their emulsifying properties using a structure–function approach
2013 Standout
A Placebo-Controlled Trial of Oral Fingolimod in Relapsing Multiple Sclerosis
2010 Standout
I‐TASSER: Fully automated protein structure prediction in CASP8
2009
The pathogenesis of Friedreich ataxia and the structure and function of frataxin
2009
Discovery of a regioselectivity switch in nitrating P450s guided by molecular dynamics simulations and Markov models
2016 StandoutNobel
How Escherichia coli and Saccharomyces cerevisiae Build Fe/S Proteins
2005
The evolving landscape of biomarkers for checkpoint inhibitor immunotherapy
2019 Standout
Exploiting and engineering hemoproteins for abiological carbene and nitrene transfer reactions
2017 StandoutNobel
Multiscale simulations of protein landscapes: Using coarse‐grained models as reference potentials to full explicit models
2009 StandoutNobel
A computationally engineered RAS rheostat reveals RAS–ERK signaling dynamics
2016 StandoutNobel
The other 90% of the protein: Assessment beyond the Cαs for CASP8 template‐based and high‐accuracy models
2009
The road to fully programmable protein catalysis
2022 StandoutNatureNobel
Oxidative stress and the amyloid beta peptide in Alzheimer’s disease
2017 Standout
High-Resolution Comparative Modeling with RosettaCM
2013 StandoutNobel
Toxic Mechanisms of Five Heavy Metals: Mercury, Lead, Chromium, Cadmium, and Arsenic
2021 Standout
The biochemistry of heme biosynthesis
2008
I-TASSER server: new development for protein structure and function predictions
2015 Standout
Fast learning optimized prediction methodology (FLOPRED) for protein secondary structure prediction
2012
Discrete–continuous duality of protein structure space
2009
A structure-based computational workflow to predict liability and binding modes of small molecules to hERG
2020 StandoutNobel
Considerations and Challenges in Studying Liquid-Liquid Phase Separation and Biomolecular Condensates
2019 Standout
Molecular chaperones in protein folding and proteostasis
2011 StandoutNature
Trends in extreme learning machines: A review
2014 Standout
Mitochondrial iron detoxification is a primary function of frataxin that limits oxidative damage and preserves cell longevity
2005
Hypoxia Rescues Frataxin Loss by Restoring Iron Sulfur Cluster Biogenesis
2019 StandoutNobel
Structured States of Disordered Proteins from Genomic Sequences
2016
Fold space unlimited
2009
De novo design of bioactive protein switches
2019 StandoutNatureNobel
Mitochondrial Membrane Permeabilization in Cell Death
2007 Standout
Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping
2010 StandoutNobel
Engineering Protein Switches: Sensors, Regulators, and Spare Parts for Biology and Biotechnology
2011
Molecular Daisy Chains: Synthesis and Aggregation Studies of an Amphiphilic Molecular Rod
2013 StandoutNobel
Biomolecular modeling and simulation: a field coming of age
2011
Practical aspects of NMR signal assignment in larger and challenging proteins
2013
I-TASSER: a unified platform for automated protein structure and function prediction
2010 Standout
RosettaEPR: An integrated tool for protein structure determination from sparse EPR data
2010
The L-Cysteine Desulfurase NFS1 Is Localized in the Cytosol where it Provides the Sulfur for Molybdenum Cofactor Biosynthesis in Humans
2013
Evolutionary Dynamics on Protein Bi-stability Landscapes can Potentially Resolve Adaptive Conflicts
2012
Design of protein conformational switches
2006
Small-molecule ligand docking into comparative models with Rosetta
2013
Acidic residues of yeast frataxin have an essential role in Fe–S cluster assembly
2006
On the Universe of Protein Folds
2013 StandoutNobel
Pfam: The protein families database in 2021
2020 Standout
Arsenic Binding to Proteins
2013
MolProbity: More and better reference data for improved all‐atom structure validation
2017 Standout
Mechanisms of Cell Protection by Heme Oxygenase-1
2010 Standout
Food protein functionality: A comprehensive approach
2011
Structure of a designed tetrahedral protein assembly variant engineered to have improved soluble expression
2015 StandoutNobel
Epistasis in protein evolution
2016
Overcoming an optimization plateau in the directed evolution of highly efficient nerve agent bioscavengers
2017 StandoutNobel
Iron(II) Binding to Amyloid-β, the Alzheimer’s Peptide
2011
Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently
2014
One contact for every twelve residues allows robust and accurate topology‐level protein structure modeling
2013 StandoutNobel
Insights from molecular dynamics simulations for computational protein design
2017
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview
2007 Standout
A Collective Variable for the Efficient Exploration of Protein Beta-Sheet Structures: Application to SH3 and GB1
2009
Classification of Intrinsically Disordered Regions and Proteins
2014 Standout
Toward Accurate Screening in Computer-Aided Enzyme Design
2009 StandoutNobel
Sampling and energy evaluation challenges in ligand binding protein design
2017 StandoutNobel
Neurodegeneration in Friedreich’s Ataxia: From Defective Frataxin to Oxidative Stress
2013
Reversible Photocontrol of Biological Systems by the Incorporation of Molecular Photoswitches
2013 StandoutNobel
Metamorphic proteins mediate evolutionary transitions of structure
2010
PLUMED 2: New feathers for an old bird
2013 Standout
Mutation in the Fe–S scaffold protein Isu bypasses frataxin deletion
2011
Relative Tolerance of an Enzymatic Molten Globule and Its Thermostable Counterpart to Point Mutation
2008
The Mononuclear Molybdenum Enzymes
2014 Standout
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design
2017 StandoutNobel
Oncogenic cancer/testis antigens: prime candidates for immunotherapy
2015
Transient Tertiary Structure Formation within the Ribosome Exit Port
2010
PTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data
2013 Standout
Emerging coronaviruses: Genome structure, replication, and pathogenesis
2020 Standout
Improving the Efficiency of Ligand-Binding Protein Design with Molecular Dynamics Simulations
2019 StandoutNobel
Enhanced Modeling via Network Theory: Adaptive Sampling of Markov State Models
2010
Works of Yanan He being referenced
NMR structures of two designed proteins with high sequence identity but different fold and function
2008
A minimal sequence code for switching protein structure and function
2009
The design and characterization of two proteins with 88% sequence identity but different structure and function
2007
Mutational Tipping Points for Switching Protein Folds and Functions
2012
Resonance assignments and secondary structure prediction of the As(III) metallochaperone ArsD in solution
2010
De novo structure generation using chemical shifts for proteins with high‐sequence identity but different folds
2010 StandoutNobel
The Cancer/Testis Antigen Prostate-associated Gene 4 (PAGE4) Is a Highly Intrinsically Disordered Protein
2011
Identification and Characterization of microRNAs from Peanut (Arachis hypogaea L.) by High-Throughput Sequencing
2011
Yeast Frataxin Solution Structure, Iron Binding, and Ferrochelatase Interaction,
2004
Solution NMR Structures of IgG Binding Domains with Artificially Evolved High Levels of Sequence Identity but Different Folds,
2005