Patricia C. Babbitt

University of California, San Francisco — United States

Materials Science · Physical Sciences

60h-index15.5kcitations182works0.02yr avg
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Research Topics

Enzyme Structure and Function(60), Protein Structure and Dynamics(47), Microbial Metabolic Engineering and Bioproduction(39), Bioinformatics and Genomic Networks(23), Machine Learning in Bioinformatics(18)

Publications178 total

Kinetic and Structural Analysis of Two Linkers in the Tautomerase Superfamily: Analysis and Implications
Biochemistry·2021· 7 citedOpen Access
Parallel molecular mechanisms for enzyme temperature adaptation
Science·2021· 123 citedOpen Access
Structural Basis for the Asymmetry of a 4-Oxalocrotonate Tautomerase Trimer
Biochemistry·2020· 10 citedOpen Access
A strategy for large-scale comparison of evolutionary- and reaction-based classifications of enzyme function
Database·2020· 9 citedOpen Access
Structural, Kinetic, and Mechanistic Analysis of an Asymmetric 4-Oxalocrotonate Tautomerase Trimer
Biochemistry·2019· 9 citedOpen Access
Exploring the sequence, function, and evolutionary space of protein superfamilies using sequence similarity networks and phylogenetic reconstructions
Methods in enzymology on CD-ROM/Methods in enzymology·2019· 25 cited
InterPro in 2019: improving coverage, classification and access to protein sequence annotations
Nucleic Acids Research·2018· 1.5k citedOpen Access
Effusion: prediction of protein function from sequence similarity networks
Bioinformatics·2018· 21 citedOpen Access
Revealing Unexplored Sequence-Function Space Using Sequence Similarity Networks
Biochemistry·2018· 100 citedOpen Access
New computational approaches to understanding molecular protein function
PLoS Computational Biology·2018· 17 citedOpen Access
Atlas of the Radical SAM Superfamily: Divergent Evolution of Function Using a “Plug and Play” Domain
Methods in enzymology on CD-ROM/Methods in enzymology·2018· 121 citedOpen Access
A global view of structure–function relationships in the tautomerase superfamily
Journal of Biological Chemistry·2017· 50 citedOpen Access
Kinetic and structural characterization of a cis -3-Chloroacrylic acid dehalogenase homologue in Pseudomonas sp. UW4: A potential step between subgroups in the tautomerase superfamily
Archives of Biochemistry and Biophysics·2017· 8 citedOpen Access
Evolutionary and molecular foundations of multiple contemporary functions of the nitroreductase superfamily
Proceedings of the National Academy of Sciences·2017· 141 citedOpen Access
An Atlas of Peroxiredoxins Created Using an Active Site Profile-Based Approach to Functionally Relevant Clustering of Proteins
PLoS Computational Biology·2017· 24 citedOpen Access
An approach to functionally relevant clustering of the protein universe: Active site profile‐based clustering of protein structures and sequences
Protein Science·2017· 15 citedOpen Access
Biocuration in the structure–function linkage database: the anatomy of a superfamily
Database·2017· 3 citedOpen Access
Biocuration in the structure–function linkage database: the anatomy of a superfamily
Database·2017· 9 citedOpen Access
3D Motifs
2017· 7 cited
DASP3: identification of protein sequences belonging to functionally relevant groups
BMC Bioinformatics·2016· 6 citedOpen Access
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Frequent Co-authors

J.A. Gerlt(19), Shoshana Brown(10), Steven C. Almo(8), Matthew P. Jacobson(8), Eyal Akiva(7), George L. Kenyon(6), Debra Dunaway‐Mariano(5), Alexandra M. Schnoes(4), Holly J. Atkinson(4), John H. Morris(4), Thomas E. Ferrin(4), B. Hillerich(4), R.D. Seidel(4), Julian Gough(3), Gemma L. Holliday(3), Miriam S. Hasson(3), David R. J. Palmer(3), Dagmar Ringe(3), Conrad C. Huang(3), Susan T. Mashiyama(3)