Gemma L. Holliday
Cited by
Cited by
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
Metal ions in biological catalysis: from enzyme databases to general principles
C Andreini, I Bertini, G Cavallaro, GL Holliday, JM Thornton
JBIC Journal of Biological Inorganic Chemistry 13, 1205-1218, 2008
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
The Catalytic Site Atlas 2.0: cataloging catalytic sites and residues identified in enzymes
N Furnham, GL Holliday, TAP de Beer, JOB Jacobsen, WR Pearson, ...
Nucleic acids research 42 (D1), D485-D489, 2014
Small molecule subgraph detector (SMSD) toolkit
SA Rahman, M Bashton, GL Holliday, R Schrader, JM Thornton
Journal of cheminformatics 1, 1-13, 2009
Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites
AJM Ribeiro, GL Holliday, N Furnham, JD Tyzack, K Ferris, JM Thornton
Nucleic acids research 46 (D1), D618-D623, 2018
Understanding the functional roles of amino acid residues in enzyme catalysis
GL Holliday, JBO Mitchell, JM Thornton
Journal of molecular biology 390 (3), 560-577, 2009
EC-BLAST: a tool to automatically search and compare enzyme reactions
SA Rahman, SM Cuesta, N Furnham, GL Holliday, JM Thornton
Nature methods 11 (2), 171-174, 2014
Atlas of the radical SAM superfamily: divergent evolution of function using a “plug and play” domain
GL Holliday, E Akiva, EC Meng, SD Brown, S Calhoun, U Pieper, A Sali, ...
Methods in enzymology 606, 1-71, 2018
Exploring the evolution of novel enzyme functions within structurally defined protein superfamilies
N Furnham, I Sillitoe, GL Holliday, AL Cuff, RA Laskowski, CA Orengo, ...
PLoS computational biology 8 (3), e1002403, 2012
A global analysis of function and conservation of catalytic residues in enzymes
AJM Ribeiro, JD Tyzack, N Borkakoti, GL Holliday, JM Thornton
Journal of Biological Chemistry 295 (2), 314-324, 2020
MACiE: exploring the diversity of biochemical reactions
GL Holliday, C Andreini, JD Fischer, SA Rahman, DE Almonacid, ...
Nucleic acids research 40 (D1), D783-D789, 2012
Reaction Decoder Tool (RDT): extracting features from chemical reactions
SA Rahman, G Torrance, L Baldacci, S Martínez Cuesta, F Fenninger, ...
Bioinformatics 32 (13), 2065-2066, 2016
MACiE (Mechanism, Annotation and Classification in Enzymes): novel tools for searching catalytic mechanisms
GL Holliday, DE Almonacid, GJ Bartlett, NM O'Boyle, JW Torrance, ...
Nucleic acids research 35 (suppl_1), D515-D520, 2007
Metal-MACiE: a database of metals involved in biological catalysis
C Andreini, I Bertini, G Cavallaro, GL Holliday, JM Thornton
Bioinformatics 25 (16), 2088-2089, 2009
The structures and physicochemical properties of organic cofactors in biocatalysis
JD Fischer, GL Holliday, SA Rahman, JM Thornton
Journal of molecular biology 403 (5), 803-824, 2010
Evolution of enzymes and pathways for the biosynthesis of cofactors
GL Holliday, JM Thornton, A Marquet, AG Smith, F Rébeillé, R Mendel, ...
Natural product reports 24 (5), 972-987, 2007
Chemical markup, XML, and the world wide web. 6. CMLReact, an XML vocabulary for chemical reactions
GL Holliday, P Murray-Rust, HS Rzepa
Journal of chemical information and modeling 46 (1), 145-157, 2006
The CoFactor database: organic cofactors in enzyme catalysis
JD Fischer, GL Holliday, JM Thornton
Bioinformatics 26 (19), 2496-2497, 2010
[FeFe]-hydrogenase maturation: insights into the role HydE plays in dithiomethylamine biosynthesis
JN Betz, NW Boswell, CJ Fugate, GL Holliday, E Akiva, AG Scott, ...
Biochemistry 54 (9), 1807-1818, 2015
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