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Author Details

Julie C Mitchell
2001
46
20
PMIDPaper TitleJournal TitlePublished Year
36580595Opinion: Protein folds vs. protein folding: Differing questions, different challenges.Proc Natl Acad Sci U S A2023
35184190Diversity and conservation of plant small secreted proteins associated with arbuscular mycorrhizal symbiosis.Horticulture Research2022
35512391OpenMDlr: parallel, open-source tools for general protein structure modeling and refinement from pairwise distances.2022
36075915Structural and functional characterization of NEMO cleavage by SARS-CoV-2 3CLpro.Nature Communications2022
35868851Identification of Small-Molecule Inhibitors of Fibroblast Growth Factor 23 Signaling via In Silico Hot Spot Prediction and Molecular Docking to α-Klotho.Journal of Chemical Information and Modeling2022
34816264Structural and functional characterization of NEMO cleavage by SARS-CoV-2 3CLpro.2021
37849951Biological Parts for Plant Biodesign to Enhance Land-Based Carbon Dioxide Removal.Biodes Res2021
34077660Hotspot Coevolution Is a Key Identifier of Near-Native Protein Complexes.Journal of Physical Chemistry B2021
32631222iPNHOT: a knowledge-based approach for identifying protein-nucleic acid interaction hot spots.BMC Bioinformatics2020
37849899Plant Biosystems Design Research Roadmap 1.0.Biodes Res2020
31954798Prediction of peptide binding to MHC using machine learning with sequence and structure-based feature sets.Biochimica et Biophysica Acta - General Subjects2020
32878910Combining Three-Dimensional Modeling with Artificial Intelligence to Increase Specificity and Precision in Peptide-MHC Binding Predictions.Journal of Immunology2020
33200117Supercomputer-Based Ensemble Docking Drug Discovery Pipeline with Application to Covid-19.ChemRxiv2020
31819058Solution structure of human myeloid-derived growth factor suggests a conserved function in the endoplasmic reticulum.Nat Commun2019
29688380dbAMEPNI: a database of alanine mutagenic effects for protein-nucleic acid interactions.Database : the journal of biological databases and curation2018
26854760CryptoSite: Expanding the Druggable Proteome by Characterization and Prediction of Cryptic Binding Sites.J Mol Biol2016
27259543DBSI server: DNA binding site identifier.2016
25740680Interolog interfaces in protein-protein docking.Proteins: Structure, Function and Bioinformatics2015
25582852The D0 Ig-like domain plays a central role in the stronger binding of KIR3DL2 to B27 free H chain dimers.Journal of Immunology2015
25202029Structural analysis and modeling reveals new mechanisms governing ESCRT-III spiral filament assembly.Journal of Cell Biology2014
25339443Mitochondrial COQ9 is a lipid-binding protein that associates with COQ7 to enable coenzyme Q biosynthesis.Proc Natl Acad Sci U S A2014
24155158Blind prediction of interfacial water positions in CAPRI.Proteins2014
23873960DBSI: DNA-binding site identifier.Nucleic Acids Research2013
24038640Data-driven models for protein interaction and design.Proteins: Structure, Function and Bioinformatics2013
23760773Using physical potentials and learned models to distinguish native binding interfaces from de novo designed interfaces that do not bind.Proteins: Structure, Function and Bioinformatics2013
23977131Snowflake vitreoretinal degeneration (SVD) mutation R162W provides new insights into Kir7.1 ion channel structure and function.PLoS ONE2013
23843247Community-wide evaluation of methods for predicting the effect of mutations on protein-protein interactions.Proteins2013
22434479Density-cluster NMA: A new protein decomposition technique for coarse-grained normal mode analysis.Proteins: Structure, Function and Bioinformatics2012
21735484KFC2: a knowledge-based hot spot prediction method based on interface solvation, atomic density, and plasticity features.Proteins: Structure, Function and Bioinformatics2011
22001016Community-wide assessment of protein-interface modeling suggests improvements to design methodology.J Mol Biol2011
20607113Generating Uniform Incremental Grids on SO(3) Using the Hopf Fibration.International Journal of Robotics Research2010
20715288ReplicOpter: a replicate optimizer for flexible docking.Proteins: Structure, Function and Bioinformatics2010
20529880chipD: a web tool to design oligonucleotide probes for high-density tiling arrays.Nucleic Acids Res2010
19816556Structure-based predictive models for allosteric hot spots.PLoS Computational Biology2009
19361325CUSA and CUDE: GPU-accelerated methods for estimating solvent accessible surface area and desolvation.Journal of Computational Biology2009
18539611KFC Server: interactive forecasting of protein interaction hot spots.Nucleic Acids Research2008
18723523Optimal design of thermally stable proteins.Bioinformatics2008
17720985Metal reduction kinetics in Shewanella.2007
17914059Synaptotagmin C2A loop 2 mediates Ca2+-dependent SNARE interactions essential for Ca2+-triggered vesicle exocytosis.Mol Biol Cell2007
17554779An automated decision-tree approach to predicting protein interaction hot spots.Proteins: Structure, Function and Bioinformatics2007
16962991TRP1 interacting PDZ-domain protein GIPC forms oligomers and is localized to intracellular vesicles in human melanocytes.Archives of Biochemistry and Biophysics2006
16188273Disruption of shape-complementarity markers to create cytotoxic variants of ribonuclease A.J Mol Biol2005
15595734Charge and hydrophobicity patterning along the sequence predicts the folding mechanism and aggregation of proteins: a computational approach.J Proteome Res2004
12784365Finding needles in haystacks: Reranking DOT results by using shape complementarity, cluster analysis, and biological information.Proteins: Structure, Function and Bioinformatics2003
11297668Protein docking using continuum electrostatics and geometric fit.2001
11449571Rapid atomic density methods for molecular shape characterization.Journal of Molecular Graphics and Modelling2001
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