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An ILC2-chitinase circuit restores lung homeostasis after epithelial injury.
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- Science Immunology, 2024, v. 9, n. 100, p. 1, doi. 10.1126/sciimmunol.adl2986
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- Article
ORACLE reveals a bright future to fight bacteria.
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- eLife, 2021, p. 1, doi. 10.7554/eLife.68277
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Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta.
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- eLife, 2016, p. 1, doi. 10.7554/eLife.17219
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Cytidine deaminase efficiency of the lentiviral viral restriction factor APOBEC3C correlates with dimerization.
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- Nucleic Acids Research, 2017, v. 45, n. 6, p. 3378, doi. 10.1093/nar/gkx066
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- Article
Large language models generate functional protein sequences across diverse families.
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- Nature Biotechnology, 2023, v. 41, n. 8, p. 1099, doi. 10.1038/s41587-022-01618-2
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A language model beats alphafold2 on orphans.
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- Nature Biotechnology, 2022, v. 40, n. 11, p. 1576, doi. 10.1038/s41587-022-01466-0
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EMRinger: side chain-directed model and map validation for 3D cryo-electron microscopy.
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- Nature Methods, 2015, v. 12, n. 10, p. 943, doi. 10.1038/nmeth.3541
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Integrative, dynamic structural biology at atomic resolution-it's about time.
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- Nature Methods, 2015, v. 12, n. 4, p. 307, doi. 10.1038/nmeth.3324
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Automated identification of functional dynamic contact networks from X-ray crystallography.
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- Nature Methods, 2013, v. 10, n. 9, p. 896, doi. 10.1038/nmeth.2592
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An atypical receiver domain controls the dynamic polar localization of the Myxococcus xanthus social motility protein FrzS.
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- Molecular Microbiology, 2007, v. 65, n. 2, p. 319, doi. 10.1111/j.1365-2958.2007.05785.x
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- Article
Dan Salah Tawfik (1955-2021)--A giant of protein evolution.
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- EMBO Reports, 2021, v. 22, n. 7, p. 1, doi. 10.15252/embr.202153256
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Ligand binding remodels protein side-chain conformational heterogeneity.
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- eLife, 2022, p. 1, doi. 10.7554/eLife.74114
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Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance.
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- eLife, 2022, p. 1, doi. 10.7554/eLife.70017
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Recommendations for accelerating open preprint peer review to improve the culture of science.
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- PLoS Biology, 2024, v. 22, n. 2, p. 1, doi. 10.1371/journal.pbio.3002502
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Inside Cover: One Crystal, Two Temperatures: Cryocooling Penalties Alter Ligand Binding to Transient Protein Sites (ChemBioChem 11/2015).
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- ChemBioChem, 2015, v. 16, n. 11, p. 1526, doi. 10.1002/cbic.201590029
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One Crystal, Two Temperatures: Cryocooling Penalties Alter Ligand Binding to Transient Protein Sites.
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- ChemBioChem, 2015, v. 16, n. 11, p. 1560, doi. 10.1002/cbic.201500196
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- Article
Hidden alternative structures of proline isomerase essential for catalysis.
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- Nature, 2009, v. 462, n. 7273, p. 669, doi. 10.1038/nature08615
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Conserved regulatory motifs in the juxtamembrane domain and kinase N-lobe revealed through deep mutational scanning of the MET receptor tyrosine kinase domain.
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- eLife, 2024, p. 1, doi. 10.7554/eLife.91619
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Automated multiconformer model building for X-ray crystallography and cryo-EM.
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- eLife, 2024, p. 1, doi. 10.7554/eLife.90606
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Structural characterization of ligand binding and pH-specific enzymatic activity of mouse Acidic Mammalian Chitinase.
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- eLife, 2024, p. 1, doi. 10.7554/eLife.89918
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Exposing Hidden Alternative Backbone Conformations in X-ray Crystallography Using qFit.
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- PLoS Computational Biology, 2015, v. 11, n. 10, p. 1, doi. 10.1371/journal.pcbi.1004507
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Rosace: a robust deep mutational scanning analysis framework employing position and mean-variance shrinkage.
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- Genome Biology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s13059-024-03279-7
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DIMPLE: deep insertion, deletion, and missense mutation libraries for exploring protein variation in evolution, disease, and biology.
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- Genome Biology, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s13059-023-02880-6
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Molecular‐dynamics simulation methods for macromolecular crystallography.
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- Acta Crystallographica: Section D, Structural Biology, 2023, v. 79, n. 1, p. 50, doi. 10.1107/S2059798322011871
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From deep TLS validation to ensembles of atomic models built from elemental motions. Addenda and corrigendum.
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- Acta Crystallographica: Section D, Structural Biology, 2016, v. 72, n. 9, p. 1073, doi. 10.1107/S2059798316013048
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High-density grids for efficient data collection from multiple crystals.
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- Acta Crystallographica: Section D, Structural Biology, 2016, v. 72, n. 1, p. 2, doi. 10.1107/S2059798315020847
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- Article
The tumor-associated EpCAM regulates morphogenetic movements through intracellular signaling.
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- Journal of Cell Biology, 2010, v. 191, n. 3, p. 645, doi. 10.1083/jcb.201004074
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State of the structure address on MET receptor activation by HGF.
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- Biochemical Society Transactions, 2021, v. 49, n. 2, p. 645, doi. 10.1042/BST20200394
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Rescue of conformational dynamics in enzyme catalysis by directed evolution.
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- Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-03562-9
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Incorporation of protein flexibility and conformational energy penalties in docking screens to improve ligand discovery.
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- Nature Chemistry, 2014, v. 6, n. 7, p. 575, doi. 10.1038/nchem.1954
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Conformational variation of proteins at room temperature is not dominated by radiation damage.
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- Journal of Synchrotron Radiation, 2017, v. 24, n. 1, p. 73, doi. 10.1107/S1600577516017343
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Automated electron-density sampling reveals widespread conformational polymorphism in proteins.
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- Protein Science: A Publication of the Protein Society, 2010, v. 19, n. 7, p. 1420, doi. 10.1002/pro.423
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Ensemble-based enzyme design can recapitulate the effects of laboratory directed evolution in silico.
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- Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-18619-x
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Of problems and opportunities—How to treat and how to not treat crystallographic fragment screening data.
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- Protein Science: A Publication of the Protein Society, 2022, v. 31, n. 9, p. 1, doi. 10.1002/pro.4391
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qFit 3: Protein and ligand multiconformer modeling for X‐ray crystallographic and single‐particle cryo‐EM density maps.
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- Protein Science: A Publication of the Protein Society, 2021, v. 30, n. 1, p. 270, doi. 10.1002/pro.4001
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Differences in the chitinolytic activity of mammalian chitinases on soluble and insoluble substrates.
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- Protein Science: A Publication of the Protein Society, 2020, v. 29, n. 4, p. 966, doi. 10.1002/pro.3822
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A single inactivating amino acid change in the SARS-CoV-2 NSP3 Mac1 domain attenuates viral replication in vivo.
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- PLoS Pathogens, 2023, v. 19, n. 8, p. 1, doi. 10.1371/journal.ppat.1011614
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Molecular evidence of widespread benzimidazole drug resistance in Ancylostoma caninum from domestic dogs throughout the USA and discovery of a novel β-tubulin benzimidazole resistance mutation.
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- PLoS Pathogens, 2023, v. 18, n. 3, p. 1, doi. 10.1371/journal.ppat.1011146
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