Gemma L. Holliday

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Janet M ThorntonSenior Scientist, European Molecular Biology Laboratory - European Institute of Bioinformatics (EMBLVerified email at ebi.ac.uk
S. Asad RahmanBioInception LabsVerified email at bioinceptionlabs.com
John MitchellReader in Chemistry, University of St AndrewsVerified email at st-andrews.ac.uk
Patricia BabbittProfessorVerified email at cgl.ucsf.edu
Nicholas FurnhamLondon School of Hygiene and Tropical MedicineVerified email at cryst.bioc.cam.ac.uk
Daniel E. AlmonacidCSO, Digbi HealthVerified email at digbihealth.com
Claudia AndreiniResearcher, Magnetic Resonance Center (CERM) - Dipartimento di Chimica, Università di FirenzeVerified email at cerm.unifi.it
Julia D. FischerF. Hoffmann-La Roche AGVerified email at roche.com
Noel M. O'BoyleComputational Chemist, Nxera Pharma, Cambridge, UKVerified email at soseiheptares.com
Jonathan D. TyzackEMBL-EBIVerified email at ebi.ac.uk
Sergio Martínez CuestaData Sciences & Quantitative Biology, AstraZenecaVerified email at astrazeneca.com
William PearsonU. of VirginiaVerified email at virginia.edu
Tom FerrinProfessor of Pharmaceutical Chemistry, UCSFVerified email at cgl.ucsf.edu
Roman A LaskowskiEuropean Bioinformatics Institute (EBI)Verified email at ebi.ac.uk
Christine OrengoProfessor of Bioinformatics, University College LondonVerified email at biochem.ucl.ac.uk
Christoph SteinbeckFriedrich-Schiller-University JenaVerified email at uni-jena.de
Tjaart de BeerF. Hoffman-La Roche LtdVerified email at roche.com
Matthew BashtonThe Hub for Biotechnology in the Built Environment, Faculty of Health and Life Sciences, NorthumbriaVerified email at northumbria.ac.uk
Martin J WarrenProf of Biochemistry, University of KentVerified email at kent.ac.uk
Henry S. RzepaEmeritus Professor of Computational Chemistry, Imperial College LondonVerified email at imperial.ac.uk

Gemma L. Holliday

AstraZeneca

Verified email at astrazeneca.com

Chemical biology enzyme reaction mechanisms M-CSA/MACiE active site amino acid residues


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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	1596	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	1314	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	265	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	210	2014
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	200	2018
Small molecule subgraph detector (SMSD) toolkit SA Rahman, M Bashton, GL Holliday, R Schrader, JM Thornton Journal of cheminformatics 1, 1-13, 2009	195	2009
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	178	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	143	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	133	2018
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	108	2020
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	101	2016
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	100	2012
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	91	2012
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	88	2010
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	86	2009
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	85	2007
The CoFactor database: organic cofactors in enzyme catalysis JD Fischer, GL Holliday, JM Thornton Bioinformatics 26 (19), 2496-2497, 2010	80	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	78	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	76	2006
[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	64	2015

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