Patricia Babbitt
Patricia Babbitt
Professor
Verified email at cgl.ucsf.edu
Title
Cited by
Cited by
Year
InterPro in 2017—beyond protein family and domain annotations
RD Finn, TK Attwood, PC Babbitt, A Bateman, P Bork, AJ Bridge, ...
Nucleic acids research 45 (D1), D190-D199, 2017
12202017
InterPro in 2019: improving coverage, classification and access to protein sequence annotations
AL Mitchell, TK Attwood, PC Babbitt, M Blum, P Bork, A Bridge, SD Brown, ...
Nucleic acids research 47 (D1), D351-D360, 2019
9512019
A large-scale evaluation of computational protein function prediction
P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ...
Nature methods 10 (3), 221-227, 2013
8162013
Annotation error in public databases: misannotation of molecular function in enzyme superfamilies
AM Schnoes, SD Brown, I Dodevski, PC Babbitt
PLoS computational biology 5 (12), e1000605, 2009
6562009
Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies
JA Gerlt, PC Babbitt
Annual review of biochemistry 70 (1), 209-246, 2001
5952001
Encyclopedia of computational chemistry
P von Ragué Schleyer, PR Schreiner, HF Schaefer III, WL Jorgensen, ...
4271998
The enolase superfamily: a general strategy for enzyme-catalyzed abstraction of the α-protons of carboxylic acids
PC Babbitt, MS Hasson, JE Wedekind, DRJ Palmer, WC Barrett, GH Reed, ...
Biochemistry 35 (51), 16489-16501, 1996
4041996
Using sequence similarity networks for visualization of relationships across diverse protein superfamilies
HJ Atkinson, JH Morris, TE Ferrin, PC Babbitt
PloS one 4 (2), e4345, 2009
3552009
Understanding enzyme superfamilies: chemistry as the fundamental determinant in the evolution of new catalytic activities
PC Babbitt, JA Gerlt
Journal of Biological Chemistry 272 (49), 30591-30594, 1997
3511997
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Y Jiang, TR Oron, WT Clark, AR Bankapur, D D’Andrea, R Lepore, ...
Genome biology 17 (1), 1-19, 2016
2932016
BayGenomics: a resource of insertional mutations in mouse embryonic stem cells
D Stryke, M Kawamoto, CC Huang, SJ Johns, LA King, CA Harper, ...
Nucleic Acids Research 31 (1), 278-281, 2003
2712003
Evolution of enzyme superfamilies
ME Glasner, JA Gerlt, PC Babbitt
Current opinion in chemical biology 10 (5), 492-497, 2006
2592006
Ancestry of the 4-chlorobenzoate dehalogenase: analysis of amino acid sequence identities among families of acyl: adenyl ligases, enoyl-CoA hydratases/isomerases, and acyl-CoA …
PC Babbitt, GL Kenyon, BM Martin, H Charest, M Slyvestre, JD Scholten, ...
Biochemistry 31 (24), 5594-5604, 1992
2541992
Divergent evolution in the enolase superfamily: the interplay of mechanism and specificity
JA Gerlt, PC Babbitt, I Rayment
Archives of biochemistry and biophysics 433 (1), 59-70, 2005
2142005
Evolutionary potential of (β/α) 8-barrels: functional promiscuity produced by single substitutions in the enolase superfamily
DMZ Schmidt, EC Mundorff, M Dojka, E Bermudez, JE Ness, ...
Biochemistry 42 (28), 8387-8393, 2003
2122003
Can sequence determine function?
JA Gerlt, PC Babbitt
Genome biology 1 (5), 1-10, 2000
2112000
Leveraging enzyme structure− function relationships for functional inference and experimental design: the structure− function linkage database
SCH Pegg, SD Brown, S Ojha, J Seffernick, EC Meng, JH Morris, ...
Biochemistry 45 (8), 2545-2555, 2006
1882006
The structure–function linkage database
E Akiva, S Brown, DE Almonacid, AE Barber 2nd, AF Custer, MA Hicks, ...
Nucleic acids research 42 (D1), D521-D530, 2014
1852014
Novel enzymic hydrolytic dehalogenation of a chlorinated aromatic
JD Scholten, KH Chang, PC Babbitt, H Charest, M Sylvestre, ...
Science 253 (5016), 182-185, 1991
1831991
A functionally diverse enzyme superfamily that abstracts the alpha protons of carboxylic acids
PC Babbitt, GT Mrachko, MS Hasson, GW Huisman, R Kolter, D Ringe, ...
Science 267 (5201), 1159-1161, 1995
1801995
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