David Baker
researcher— at University of Washington
USA
Computational Protein Design. University of Washington.
50 papers found
Atomic context-conditioned protein sequence design using LigandMPNN
Nature Methods2025108 citations
Generalized biomolecular modeling and design with RoseTTAFold All-Atom
Science2024710 citations
Computational design of soluble and functional membrane protein analogues
Nature202495 citations
De novo design of pH-responsive self-assembling helical protein filaments
Nature Nanotechnology202455 citations
Sculpting conducting nanopore size and shape through de novo protein design
Science202440 citations
Improving Protein Expression, Stability, and Function with ProteinMPNN
Journal of the American Chemical Society2024242 citations
Enhancing extracellular vesicle cargo loading and functional delivery by engineering protein-lipid interactions
Nature Communications202452 citations
Expansive discovery of chemically diverse structured macrocyclic oligoamides
Science202442 citations
Engineered receptors for soluble cellular communication and disease sensing
Nature202437 citations
Multistate and functional protein design using RoseTTAFold sequence space diffusion
Nature Biotechnology202483 citations
De novo design of modular protein hydrogels with programmable intra- and extracellular viscoelasticity
Proceedings of the National Academy of Sciences202450 citations
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling
Journal of Chemical Theory and Computation202437 citations
Formation, chemical evolution and solidification of the dense liquid phase of calcium (bi)carbonate
Nature Materials202439 citations
De novo design of miniprotein antagonists of cytokine storm inducers
Nature Communications202435 citations
Blueprinting extendable nanomaterials with standardized protein blocks
Nature202453 citations
Designed endocytosis-inducing proteins degrade targets and amplify signals
Nature202492 citations
Four-component protein nanocages designed by programmed symmetry breaking
Nature202436 citations
De novo design of highly selective miniprotein inhibitors of integrins αvβ6 and αvβ8
Nature Communications202336 citations
Fast and versatile sequence-independent protein docking for nanomaterials design using RPXDock
PLoS Computational Biology202335 citations
Accurate computational design of three-dimensional protein crystals
Nature Materials202348 citations
Accurate prediction of protein–nucleic acid complexes using RoseTTAFoldNA
Nature Methods2023309 citations
Directing polymorph specific calcium carbonate formation with de novo protein templates
Nature Communications202338 citations
Single-cell census of human tooth development enables generation of human enamel
Developmental Cell202355 citations
Top-down design of protein architectures with reinforcement learning
Science2023114 citations
Zero‐shot mutation effect prediction on protein stability and function using <scp>RoseTTAFold</scp>
Protein Science202333 citations
Design of Heme Enzymes with a Tunable Substrate Binding Pocket Adjacent to an Open Metal Coordination Site
Journal of the American Chemical Society202371 citations
De novo design of small beta barrel proteins
Proceedings of the National Academy of Sciences202333 citations
De novo design of high-affinity binders of bioactive helical peptides
Nature2023193 citations
Improving de novo protein binder design with deep learning
Nature Communications2023328 citations
Peptide-binding specificity prediction using fine-tuned protein structure prediction networks
Proceedings of the National Academy of Sciences2023108 citations
De novo design of modular peptide-binding proteins by superhelical matching
Nature202373 citations
Design and structural validation of peptide–drug conjugate ligands of the kappa-opioid receptor
Nature Communications202340 citations