• Synthetic 6-aryl-2-hydroxy-6-ketohexa-2,4-dienoic acid substrates for C-C hydrolase BphD: investigation of a general base catalytic mechanism. D. M. Speare, S. M. Fleming, M. N. Beckett, J.-J. Li, T. D. H, Bugg, Organic & Biomolecular Chemistry (2004), 2(20), 2942-2950.
• Acid-Base Catalysis in the Extradiol Catechol Dioxygenase Reaction Mechanism: Site-Directed Mutagenesis of His-115 and His  -179 in Escherichia coli 2,3-Dihydroxyphenylpropionate 1,2-Dioxygenase (MhpB). S. Mendel, A. Arndt, T. D. H. Bugg, Biochemistry (2004), 43(42), 13390-13396.
• Diverse catalytic activities in the αβ-hydrolase family of enzymes: activation of H₂O, HCN, H₂O₂, and O₂. T. D. H. Bugg, Bioorganic Chemistry (2004), 32(5), 367-375.
• Phospho-N-acetyl-muramyl-pentapeptide translocase from Escherichia coli: catalytic role of conserved aspartic acid residues. A. J. Lloyd, P. E. Brandish, A. M. Gilbey, T. D. H. Bugg, Journal of Bacteriology (2004), 186(6), 1747-1757.
• Expression, purification, crystallization and preliminary characterization of uridine 5'-diphospho-N-acetylmuramoyl l-alanyl-d-glutamate:lysine ligase (MurE) from Streptococcus pneumoniae 110K/70. A. M. Blewett, A. J. Lloyd, A. Echalier, V. Fueloep, C. G. Dowson, T. D. H. Bugg, D. I. Roper, Acta Crystallographica, Section D: Biological Crystallography (2004), D60(2), 359-361.
• A fluorescent analogue of UDP-N-acetylglucosamine: application for FRET assay of peptidoglycan translocase II (MurG). J.-J. Li, T. D. H. Bugg, Chemical Communications (2004), 2), 182-183.