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Author Details

Patricia C Babbitt
University of California san francisco
1984
148
53
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
34019384Kinetic and Structural Analysis of Two Linkers in the Tautomerase Superfamily: Analysis and Implications.Biochemistry2021
34019384Kinetic and Structural Analysis of Two Linkers in the Tautomerase Superfamily: Analysis and Implications.Biochemistry2021
33674467Parallel molecular mechanisms for enzyme temperature adaptation.Science2021
33674467Parallel molecular mechanisms for enzyme temperature adaptation.Science2021
32242662Structural Basis for the Asymmetry of a 4-Oxalocrotonate Tautomerase Trimer.Biochemistry2020
32242662Structural Basis for the Asymmetry of a 4-Oxalocrotonate Tautomerase Trimer.Biochemistry2020
32449511A strategy for large-scale comparison of evolutionary- and reaction-based classifications of enzyme function.Database (Oxford)2020
32449511A strategy for large-scale comparison of evolutionary- and reaction-based classifications of enzyme function.Database (Oxford)2020
30398656InterPro in 2019: improving coverage, classification and access to protein sequence annotations.Nucleic Acids Res2019
31744546The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.Genome Biol2019
30398656InterPro in 2019: improving coverage, classification and access to protein sequence annotations.Nucleic Acids Res2019
30084920Effusion: prediction of protein function from sequence similarity networks.Bioinformatics2019
31074977Structural, Kinetic, and Mechanistic Analysis of an Asymmetric 4-Oxalocrotonate Tautomerase Trimer.Biochemistry2019
31072492Exploring the sequence, function, and evolutionary space of protein superfamilies using sequence similarity networks and phylogenetic reconstructions.Methods Enzymol2019
31744546The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.Genome Biol2019
30084920Effusion: prediction of protein function from sequence similarity networks.Bioinformatics2019
31074977Structural, Kinetic, and Mechanistic Analysis of an Asymmetric 4-Oxalocrotonate Tautomerase Trimer.Biochemistry2019
31072492Exploring the sequence, function, and evolutionary space of protein superfamilies using sequence similarity networks and phylogenetic reconstructions.Methods Enzymol2019
29184004A global view of structure-function relationships in the tautomerase superfamily.J Biol Chem2018
30097089Atlas of the Radical SAM Superfamily: Divergent Evolution of Function Using a "Plug and Play" Domain.Methods Enzymol2018
30052428Revealing Unexplored Sequence-Function Space Using Sequence Similarity Networks.Biochemistry2018
29184004A global view of structure-function relationships in the tautomerase superfamily.J Biol Chem2018
29621256New computational approaches to understanding molecular protein function.PLoS Comput Biol2018
30052428Revealing Unexplored Sequence-Function Space Using Sequence Similarity Networks.Biochemistry2018
30097089Atlas of the Radical SAM Superfamily: Divergent Evolution of Function Using a "Plug and Play" Domain.Methods Enzymol2018
29621256New computational approaches to understanding molecular protein function.PLoS Comput Biol2018
27812939Evaluating Functional Annotations of Enzymes Using the Gene Ontology.Methods Mol Biol2017
28605775Biocuration in the structure-function linkage database: the anatomy of a superfamily.Database (Oxford)2017
28365730Biocuration in the structure-function linkage database: the anatomy of a superfamily.Database (Oxford)2017
29078300Evolutionary and molecular foundations of multiple contemporary functions of the nitroreductase superfamily.Proc Natl Acad Sci U S A2017
29111295Kinetic and structural characterization of a cis-3-Chloroacrylic acid dehalogenase homologue in Pseudomonas sp. UW4: A potential step between subgroups in the tautomerase superfamily.Arch Biochem Biophys2017
27899635InterPro in 2017-beyond protein family and domain annotations.Nucleic Acids Res2017
28187133An Atlas of Peroxiredoxins Created Using an Active Site Profile-Based Approach to Functionally Relevant Clustering of Proteins.PLoS Comput Biol2017
28054422An approach to functionally relevant clustering of the protein universe: Active site profile-based clustering of protein structures and sequences.Protein Sci2017
27812939Evaluating Functional Annotations of Enzymes Using the Gene Ontology.Methods Mol Biol2017
28365730Biocuration in the structure-function linkage database: the anatomy of a superfamily.Database (Oxford)2017
28187133An Atlas of Peroxiredoxins Created Using an Active Site Profile-Based Approach to Functionally Relevant Clustering of Proteins.PLoS Comput Biol2017
29078300Evolutionary and molecular foundations of multiple contemporary functions of the nitroreductase superfamily.Proc Natl Acad Sci U S A2017
29111295Kinetic and structural characterization of a cis-3-Chloroacrylic acid dehalogenase homologue in Pseudomonas sp. UW4: A potential step between subgroups in the tautomerase superfamily.Arch Biochem Biophys2017
28605775Biocuration in the structure-function linkage database: the anatomy of a superfamily.Database (Oxford)2017
28054422An approach to functionally relevant clustering of the protein universe: Active site profile-based clustering of protein structures and sequences.Protein Sci2017
27899635InterPro in 2017-beyond protein family and domain annotations.Nucleic Acids Res2017
27650333Molecular Diversity of Terpene Synthases in the Liverwort Marchantia polymorpha.Plant Cell2016
27650333Molecular Diversity of Terpene Synthases in the Liverwort Marchantia polymorpha.Plant Cell2016
27604469An expanded evaluation of protein function prediction methods shows an improvement in accuracy.Genome Biol2016
27835946DASP3: identification of protein sequences belonging to functionally relevant groups.BMC Bioinformatics2016
27604469An expanded evaluation of protein function prediction methods shows an improvement in accuracy.Genome Biol2016
27835946DASP3: identification of protein sequences belonging to functionally relevant groups.BMC Bioinformatics2016
25513739Covalent docking predicts substrates for haloalkanoate dehalogenase superfamily phosphatases.Biochemistry2015
25820941Key challenges for the creation and maintenance of specialist protein resources.Proteins2015
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Collaborators

University of Illinois at Urbana-Champaign
Co-authored papers 36
University of California san francisco
Co-authored papers 32
Albert Einstein College of Medicine
Co-authored papers 20
Department of Pharmaceutical Chemistry, University of California San Francisco
Co-authored papers 17
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Co-authored papers 15
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Co-authored papers 13
Department of Pharmaceutical Chemistry, University of California San Francisco
Co-authored papers 12
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 12
University of California san francisco
Co-authored papers 11
Department of Pharmaceutical Chemistry, University of California San Francisco
Co-authored papers 11
Texas A&M University, College Station
Co-authored papers 9
University of New Mexico
Co-authored papers 7
University of California San Francisco
Co-authored papers 7
University of California san francisco
Co-authored papers 6
Albert Einstein College of Medicine
Co-authored papers 5
University College London, Institute of Structural and Molecular Biology
Co-authored papers 5
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 5
Medical Research Council Laboratory of Molecular Biology
Co-authored papers 5
Texas A&M University, College Station
Co-authored papers 5
Cue BioPharma Inc.
Co-authored papers 5
Co-authored papers 4
University of California San Francisco
Co-authored papers 4
European Bioinformatics Institute
Co-authored papers 4
University College London
Co-authored papers 4
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 4
Albert Einstein College of Medicine
Co-authored papers 4
Iowa State University
Co-authored papers 4
College of Agricultural and Life Sciences, University of Wisconsin-Madison
Co-authored papers 4
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Harvard Medical School
Co-authored papers 4