Publications
Google Scholar https://scholar.google.com/citations?user=fo9CYkkAAAAJ&hl=en&oi=ao
1.Characterization of a GpsB-associated regulator of PBP1a reveals the organization of the cell wall remodeling complex of Streptococcus pneumoniae. Hugo Millat, Cassandra Lenoir, Cassandra Falcou, Caroline Cluzel, André Zapun, David I Roper. Cécile Morlot, Adrien Ducret and Christophe Grangeasse https://www.biorxiv.org/content/10.1101/2024.06.29.601107v1
2.Structural insights into peptidoglycan hydrolysis by the FtsEX system in Escherichia coli during cell divisionJianweiLi, YutongHe, XinXu, MartinAlcorlo, JianShi, David I.Roper, JuanA. Hermoso, Lok-ToSham, MinLuo bioRxiv 2024.01.16.575974; doi: https://doi.org/10.1101/2024.01.16.575974
3.Discovery and chemical optimisation of a Potent, Bi-cyclic (Bicycle®) Antimicrobial Inhibitor of Escherichia coli PBP3Catherine E.Rowland, HectorNewman, Tazmin T.Martin, RachelDods, NikolaosBournakas, James M.Wagstaff, NickLewis, Steven J.Stanway, MatthewBalmforth, CeliaKessler, Katerinevan Rietschoten, DomBellini, David I.Roper, Adrian J.Lloyd, Christopher G.Dowson, Michael J.Skynner, PaulBeswick, Michael J.Dawson bioRxiv 2024.03.20.581580; doi:https://doi.org/10.1101/2024.03.20.581580.
4.Delivery determinants of an Acinetobacter baumannii type VI secretion system bifunctional peptidoglycan hydrolaseValeriyaBezkorovayna, Brooke K.Hayes, Francesca N.Gillett, AmyWright, David I.Roper, MarinaHarper, SheenaMcGowan, John D.Boyce mBio https://doi.org/10.1128/mbio.02627-24
5.Nygaard, R., Graham, C.L.B., Dufrisne, M.B., Colburn, J.D., Pepe, J., Hydorn, M.A., Corradi, S., Brown, C.M., Ashraf,K.U., Vickery, O.N., Briggs, N.S., Deering, J.J.,Kloss, B.,Botta, B., Clarke, O.B., Columbus, L., Dworkin, J., Stansfeld, P.J., Roper, D.I. &Mancia, F. (2023) Structural basis of peptidoglycan synthesis by E. coli RodA-PBP2 complex.Nature Communications Aug 24;14(1):5151. doi: 10.1038/s41467-023-40483-8
6.Cook J, Baverstock. T., McAndrew.M., Roper, D.I., Stansfeld, P.J. & Crow, A. (2023). Activator-induced conformational changes regulate division-associated peptidoglycan amidases. Proceedings of the National Academy of Sciences (USA) 2023 Jun 13;120(24):e2302580120. doi: 10.1073/pnas.2302580120. Epub 2023 Jun 5.
7.Micelli C., Dai, Y. Raustad, N., Isberg, R.R., Dowson., C.G. Lloyd., A.J. Geisinger E., Crow, A., & Roper D.I. (2023) A conserved zinc-binding site in Acinetobacter baumannii PBP2 required for elongasome-directed bacterial cell shape Proceedings of the National Academy of Sciences (USA) 120 (8) e2215237120 https://doi.org/10.1073/pnas.2215237120.
8.Dhanoa, G.K., Kushnir, I., Qimron, U., Roper, D.I. & Sagona A.P. (2022).Investigating the effect of bacteriophages on bacterial FtsZ localisation.Front Cell Infect Microbiol 2022 Jul 29;12:863712. doi: 10.3389/fcimb.2022.863712.
9.Dowson, A, Lloyd, A.J., Cummings, A., Roper, D.I., Frigerio, L. & Dowson C.G. Plant peptidoglycan precursor biosynthesis: Conservation between moss chloroplasts and Gram-negative bacteria (2022) Plant Physiol.doi: 10.1093/plphys/kiac176.
10.Ashraf, K.U.,Nygaard, R.,Vickery, O.N., Erramilli, K.S., Herrera, C.M.,Thomas H. McConville, Petrou, V.I., Giacometti, S.I., Dufrisne, M.B., Nosol, K., Zinkle, A.P., Graham, C.L.B., Loukeris, M., Kloss, B., Skorupinska-Tudek, K., Swiezewska, E., Roper, D.I., Uhlemann, A-C., Clarke, A.B., Anthony A. Kossiakoff, Trent, M.S., Stansfeld, P.J. & Mancia F. Structural basis of lipopolysaccharide maturation by the O-antigen ligase. Nature. 2022 Apr;604(7905):371-376.
11.Graham, C.G.B., Newman, H., Gilett, F.M., Smart, K., Briggs, N., Banzhaf, M. & Roper, D.I. (2021) A dynamic network of proteins facilitate cell envelope biogenesis in Gram-negative bacteria. International Journal of Molecular Sciences 22(23):12831. doi: 10.3390/ijms222312831.
12.Tran, W; Kusay, A; Hawkins, P; Cheung, C-Y ; Nagalingam, G; Pujari, V; Ford, D ; Stoye, A; Ochoa, J; Audette, R; Hortle, E; Oehlers, S; Charman, S; Linington, R; Rubin, E; Dowson, C.G.; Roper, D.I; Crick, D; Balle, T; Cook, G; Britton, W; Payne, R (2021) Synthetic Sansanmycin Analogues as Potent Mycobacterium tuberculosis Translocase I Inhibitors.Journal of Medicinal Chemistry 64(23):17326-17345. doi: 10.1021/acs.jmedchem.1c01407.
13.Briggs, N.S., Bruce,K.E-R, Naskar,N,Winkler M.E. & Roper D.I (2021) The Pneumococcal Divisome: Dynamic Control of Streptococcus pneumoniae Cell Division.Frontiers in Microbiology, Oct 18;12:737396. doi: 10.3389/fmicb.2021.737396
14.Aggarwal, S.D., Lloyd, A.J., Yerneni, S.S., Narciso A.R., ShepherdJ., Roper D.I., DowsonC.G., Filipe S.R., &Hiller, N.L. (2021) A Molecular Link between Cell Wall Biosynthesis, Translation Fidelity and Stringent Response in a Gram-positive Bacteria. Proceedings of the National Academy of Sciences (USA) 118 (14) e20180891
15.York, A, Hinxman, K, del Genio, C, Shearer, J, Khalid, S, Fulop, V, Dowson, C.G., Lloyd, A, Roper D.I. (2021) Structure-based modelling and dynamics of MurM, a Streptococcus pneumoniae penicillin resistance determinant that functions at the cytoplasmic membrane interface. Structure. 1;29(7):731-742.e6.doi: 10.1016/j.str.2021.03.001
16.Bryant J. A., Morris F.C., Knowles, T J.,Maderbocus, R.,Heinz, E.,BoelterG.,Alodaini, D.,Colyer, A.,Wotherspoon, P. J., Staunton K. A., Jeeves. M.,Browning D. F., SevastsyanovichY. R.,Wells, T. J.,Rossiter, A. E.,Bavro V. N., Sridhar. P.,WardD. G.,ChongZ-S.,Icke, C.,Teo, A.,ChengS-S.,Roper D. I.,Lithgow T., CunninghamA. F.,Banzhaf M., Overduin M., & Henderson I. R.(2020) Structure-function analyses of dual-BON domain protein DolP identifies phospholipid binding as a new mechanism for protein localisation.Elife:doi: 10.7554/eLife.62614
17.Cook, J, Bavrestock, T.c, McAndrew, M.B.L, Stansfeld, P.J, Roper, D.I, & Crow, A. (2020) Insight into bacterial cell division from a structure of EnvC bound to the FtsX periplasmic domain. Proceedings of the National Academy of Sciences (USA) Oct 23. pii: 202017134. doi: 10.1073/pnas.2017134117.
18.Lockey C, Edwards RJ, Roper DI, Dixon AM9 (2020). The Extracellular Domain of Two-component System Sensor Kinase VanS from Streptomyces coelicolor Binds Vancomycin at a Newly Identified Binding Site. Scientific Reports. Mar 31;10(1):5727. doi: 10.1038/s41598-020-62557-z.
19.Catherwood, A, Lloyd A.J., Tod, J, Chauhan, S., Slade S., Walkowiak G., Gally, N., Punekar A., Smart K., Rea D., Roper, D.I., Dowson, C.G. (2020) Substrate and stereochemical control of peptidoglycan crosslinking by transpeptidation Journal of the American Chemical Society. 2020 Feb 12. doi: 10.1021/jacs.9b08822.
20.Lee S., Collins R., Lin Y-P., Jamshad M., Broughton C., Harris S., Hanson B., Tognoloni C., Parslow R., Terry A., Rodger A., Smith C.J., Edler K.J., Ford R., Roper D.I., & Dafforn T.R. (2019) Nano encapsulated Escherichia coli Divisome Anchor ZipA and in Complex with FtsZ. Scientific Reports 9, 18712 (2019). https://doi.org/10.1038/s41598-019-54999-x.
21.Kuru, E., Radkov, A., Meng, X., Egan, A., Dowson, A.Booher, G., Breukink, E., Roper, D.I., Cava, F., Vollmer, W., Brun., VanNieuwenhze, M. (2019) Mechanisms of incorporation for D-amino acid probes that target peptidoglycan biosynthesis. ACS Chemical Biology. 2019 Dec 20;14(12):2745-2756. doi: 10.1021/acschembio.9b00664.
22.Cain R., Salimraj R., Punekar A.S., Bellini D., Fishwick, C.W.G., Czaplewski, L., Scott D.J., Harris G.,Dowson C.G.,Lloyd A.J., & RoperD.I., Structure-guided enhancement of selectivity of chemical probe inhibitors targeting bacterial seryl-tRNA synthetase (2019) J. Med. Chem. 2019, 62, 21, 9703-9717.
23.Simpson, D., Hapeshi, A., Rogers, N. J., Brabec, V., Clarkson, G. J., Fox, D., Hrabina, O., Kay, G., King, A., Malina, J., Millard, A., Moat, J., Roper, D. I., Song, H., Waterfield, N., and Scott, P. (2019) Metallohelices that kill Gram-negative pathogens using intracellular antimicrobial peptide pathways. Chemical Science, 2019,10, 9708-9720.
24.Teo, A. C. K., Lee, S. C., Pollock, N. L., Stroud, Z., Hall, S., Thakker, A., Pitt, A. R., Dafforn, T. R., Spickett, C. M., and Roper, D. I. (2019) Analysis of SMALP co-extracted phospholipids shows distinct membrane environments for three classes of bacterial membrane protein. Scientific Reports 9, 1813 (2019) doi:10.1038/s41598-018-37962-0.
25.Pollock, N. L., Rai, M., Simon, K. S., Hesketh, S. J., Teo, A. C. K., Parmar, M., Sridhar, P., Collins, R., Lee, S. C., Stroud, Z. N., Bakker, S. E., Muench, S. P., Barton, C. H., Hurlbut, G., Roper, D. I., Smith, C. J. I., Knowles, T. J., Spickett, C. M., East, J. M., Postis, V., and Dafforn, T. R. (2019) SMA-PAGE: A new method to examine complexes of membrane proteins using SMALP nano-encapsulation and native gel electrophoresis. Biochim Biophys Acta Biomembr 10.1016/j.bbamem.2019.05.011.
26.Massarweh, A., Bosco, M., Chantret, I., Léger, T., Jamal, L., Roper, D. I., Dowson, C. G., Busca, P., Bouhss, A., Gravier-Pelletier, C., and Moore, S. E. H. (2019) Bacterial Lipid II Analogs: Novel In Vitro Substrates for Mammalian Oligosaccharyl Diphosphodolichol Diphosphatase (DLODP) Activities. Molecules 24, 2135.
27.Ábrányi-Balogh P, P. L., Imre T, Szijj P, Scarpino A, Hrast M, Mitrović A, Fonovič UP, Németh K, Barreteau H, Roper DI, Horváti K, Ferenczy GG, Kos J, Ilaš J, Gobec S, Keserű GM. (2018) A road map for prioritizing warheads for cysteine targeting covalent inhibitors. European journal of Medicinal Chemistry 160, 94-107.
28.Vajs J, Proud C, Brozovic A, Gazvoda M, Lloyd A, Roper DI, Osmak M,Kosmrlj J & Dowson C.G.(2017) Diaryltriazenes as antibacterial agents against methicillin resistant Staphylococcus aureus (MRSA) and Mycobacterium smegmatis. European Journal of Medicinal Chemistry. 2017;127:223-34.
29.Punekar A., Samsudin F., Lloyd A.J., Dowson C.G., Scott D.J., Khalid S. & Roper D.I. (2018) The role of the jaw subdomain of peptidoglycan glycosyltransferases for lipid II polymerization. The Cell Surface Jun;2:54-66.doi: 10.1016/j.tcsw.2018.06.002.
30.Hrast. M, Jukič. M, Patin D, Tod. J, Dowson C.G., Roper D.I., Barreteau. H, Gobec S. (2018) In silico identification, synthesis and biological evaluation of novel tetrazole inhibitors of MurB.Chem Biol Drug Des. Jan 24. doi: 10.1111/cbdd.13172.
31.Batson S, de Chiara C, Majce, V, Lloyd, A.J., Gobec, S, Rea, D, Fulop V, Thoroughgood, C.W., Dowson, C.G., Simmons, K.J. Fishwick, C.W.G. De Carvalho, L.P.S. & Roper, D.I. (2017) Inhibition of D-Ala:D-Ala ligase through a phosphorylated form of the antibiotic, D-cycloserine. Nature CommunicationsDec 5;8(1):1939. doi: 10.1038/s41467-017-02118-7.
32.Sychantha, D., Jones, C. S., Little, D. J., Moynihan, P. J., Robinson, H., Galley, N. F., Roper, D. I., Dowson, C. G., Howell, P. L., Clarke, A. J. (2017) In vitro characterization of the antivirulence target of Gram-positive pathogens, peptidoglycan O-acetyltransferase A (OatA). PLOS Pathogens 13(10): e1006667.
33.Tran AT, Watson, EE,Pujari, V, Conroy, T Dowman, LJ,. Giltrap, AM, Pang, A, Wong, WR, Linington, RG, Mahapatra, S, Saunders, J, Charman, SA, West, NP, Bugg, TDH, Tod, J, Dowson, CG, Roper, D.I., Crick, DC, Britton, WJ, &. Payne, RJ (2017) Sansanmycin Natural Product Analogues as Potent and Selective Anti-Mycobacterials that Inhibit Lipid I Biosynthesis.Nature Communications Mar 1;8:14414. doi: 10.1038/ncomms14414.
34.Calvez, Philippe , Breukink, Eefjan, Roper, D. I., Dib, Mélanie, Contreras Marte, Carlos and Zapun, André. (2017) Substitutions in PBP2b from β-lactam resistant Streptococcus pneumoniae have different effects on enzymatic activity and drug reactivity. Journal of Biological Chemistry 2017 Jan 6. pii: jbc.M116.764696. doi: 10.1074/jbc.M116.764696.
35.Vajs, Jure, Proud, Conor, Brozovic, Anamaria, Gazvoda, Martin, Lloyd, Adrian J., Roper, D I., Osmak, Maja, Košmrlj, Janez and Dowson, Christopher G. (2017) Diaryltriazenes as antibacterial agents against methicillin resistant Staphylococcus aureus (MRSA) and Mycobacterium smegmatis. European Journal of Medicinal Chemistry, 127. pp. 223-234. ISSN 0223-5234.
36.Usha, V., Lloyd, A. J., Roper, D. I., Dowson, C. G., Kozlov, G., Gehring, K., Chauhan, S., Imam, H. T., Blindauer, C. A., and Besra, G. S. (2016) Reconstruction of diaminopimelic acid biosynthesis allows characterisation of Mycobacterium tuberculosis N-succinyl-L,L-diaminopimelic acid desuccinylase, Scientific reports 2016 Mar 15;6:23191. doi: 10.1038/srep23191.
37.Broughton CE, Roper DI, van den Berg HA, Rodger A (2016) Beyond the Discovery Void: New targets for antibacterial compounds. Science Progress 99(2), 1 – 35.
38.Teo, A. & Roper, D.I.(2015) Core Steps of Membrane Bound Peptidoglycan Biosynthesis: Recent Advances, Insight and Opportunities. Antibiotics 4(4), 495-520.
39.Kaner, R.A. Allison, S.J. Faulkner, A.D. Phillips, R.M. Roper, D.I. Shepherd, S.L. Simpson, D.H. Waterfield, N.R. & Scott P.(2015) Anticancer metallohelices: nanomolar potency and high selectivity. Chemical Science., 2016,7, 951-958.
40.Dow, C.E, van den Burg, H.A, Roper, D.I, & Roger, A. (2015) Biological insights from a simulation model of the critical FtsZ accumulation required for prokaryotic cell division. Biochemistry 2015 Jun 23;54(24):3803-13.
41.Zuegg. J, Muldoon. C, Adamson. G, McKeveney. D, Thanh. G.L, Premraj. R, Becker. M.B,Cheng, Elliott. A.G, Huang. J.X, Butler. M.S, Bajaj. M, Joachim. M, Seifert, Singh. L, Galley. N.F, Roper. D.I, Lloyd. A.J, Dowson. C.G, Cheng T.J, Cheng W.C, Demon D, Meyer E, Meuterman W, &. Cooper M.C, (2015) Carbohydrate scaffolds as glycosyltransferase inhibitors with in vivo antibacterial activity. Nature Communications.Jul 21;6:7719.
42.Li Q, Cheng W, Morlot C, Bai XH, Jiang YL, Wang W, Roper DI, Vernet T, Dong YH, Chen Y, Zhou CZ. (2015) Full-length structure of the major autolysin LytA. Acta Crystallogr D Biol Crystallogr. Jun;71(Pt 6):1373-81.
43.Faulkner AD, Kaner, RA, Abdallah QMA, Clarkson G, Fox DJ, Gurnani P, Howsonm SE, Phillips RM, Roper D.I. Simpson D, & Scott P. (2014) Asymmetric ‘triplex’ metallohelices with high and selective activity against cancer cells Nature Chemistry (9):797-803.
44.Rodolis, MT, Mihalyi, A, O’Reilly, AM, Slikas J, Roper D.I., Hancock, REW, & Bugg, TDH. (2014).Identification of a Novel Inhibition Site in Translocase MraY based upon the Site of Interaction with Lysis Protein E from Bacteriophage f174. Chembiochem. 15(9):1300-8.
45.Braddick, D, Sandhu S, Roper D.I., Chappell MJ, Bugg TDH. (2014) Observation of the time-course for peptidoglycan lipid II polymerisation by Staphylococcus aureus monofunctional transglycosylase (2014) Microbiology. 2014 May 23. pii: mic.0.079442-0. doi: 10.1099/mic.0.079442-0.
46.Galley NF, O’Reilly AM, & Roper D.I. (2014) Prospects for novel inhibitors of peptidoglycan transglycosylases. Bioorganic Chemistry.May 21. 2014 Aug;55:16-26.
47.Paulin S, Jamshad M, Dafforn T, Garcia-Lara J, Foster S, Galley NF, Roper D.I. Rosado H, Taylor P.(2014) Surfactant-Free Purification of Membrane Protein Complexes from Bacteria: Application to the Penicillin Binding Protein Complex PBP2/PBP2a of Staphylococcus aureus. Nanotechnology.Jun 27;25(28):285101.
48.Meigh L, Rodgers TL, Cann MJ, Roper D.I., and Dale N. (2013) CO2 directly modulates connexin 26 by formation of a carbamate bridge between subunits. (2013) eLife Nov 12;2:e01213. doi: 10.7554/eLife.01213.
49.Zapun A, Philippe J, Abrahams KA, Signor L, Roper D.I., Breukink E, and Vernet T, (2013) In-vitroreconstitution of peptidoglycan assembly from the Gram-positive pathogen Streptococcus pneumonia” ACS Chemical Biology8(12):2688-96.
50.Ruane KM, Lloyd, AJ, Fulop V, Dowson, CG, Barreteau H, Boniface A, Dementin S, Blanot D, Mengin-Lecreulx D, Gobec S, Dessen A, & Roper D.I. (2013) Specificity Determinants for Lysine Incorporation in Staphylococcus aureus Peptidoglycan as Revealed by the Structure of a MurE Ternary Complex Journal of Biological Chemistry 46, 33439-33448.
51.Lloyd A.J, Potter N.J, Fishwick C.W.G, Roper D.I. & Dowson C.G. (2013) Adenosine Tetraphosphoadenosine Consumption Drives a Continuous ATP-Release Assay for Catalysis by Aminoacyl-tRNA Synthetases and other Adenylate forming Enzymes. ACS Chemical Biology 8 (10), pp 2157–2163.
52.Valegard K, Iqbal A, Kershaw NJ, Ivison D, Genereux C, Dubus A, Blikstad C, Demetriades M, Hopkinson RJ, Lloyd AJ, Roper DI, Schofield CJ, Andersson I, & McDonough, MA. (2013) Structural and mechanistic studies of the orf12 gene product from the clavulanic acid biosynthesis pathway, Acta crystallographica. Section D, Biological crystallography 69, 1567-1579.
53.Majce V, Ruane KM, Gobec S, Roper DI.(2013) Crystallization and preliminary X-ray analysis of a UDP-MurNAc-tripeptide D-alanyl-D-alanine-adding enzyme (PaMurF) from Pseudomonas aeruginosa. Acta cryst F 69:503-5.
54.Roper DI & Tame, JRH.“Chapter 769-Penicillin binding Protein 4” in Handbook of proteolytic enzymes. (ed) Barrett, A. J., Rawlings, N. D., and Woessner, J. F. 3rd ed. Elsevier Academic Press, Amsterdam; London. (2013) pp 3472-3475.
55.Pacheco-Gomez, R., Cheng, X., Hicks, M. R., Smith, C. J., Roper, D. I., Addinall, S., Rodger, A., and Dafforn, T. R. (2013), Tetramerization of ZapA is required for FtsZ bundling Biochemical Journal 449, 795-802.
56.Dow, C. E., Rodger, A., Roper, D. I.,and van den Berg, H. A. (2013) A model of membrane contraction predicting initiation and completion of bacterial cell division, Integrated Biology (Camb) 5, 778-795.
57.Yoshida, H., Kawai, F., Obayashi, E., Akashi, S., Roper, D. I. Tame, J. R., and Park, S. Y. (2012) Crystal structures of penicillin-binding protein 3 (PBP3) from methicillin-resistant Staphylococcus aureus in the apo and cefotaxime-bound forms, Journal of Molecular Biology 423, 351-364.
58.Turner, D. J., Portman, I., Dafforn, T. R., Rodger, A., Roper, D. I. , Smith, C. J., and Turner, M. S. (2012). The Mechanics of FtsZ Fibers. (2012), Biophysical Journal102, 731-738.
59.Pacheo-Gomez, R. Roper, D.I,Dafforn, T. & Rodger, A. (2011) The pH dependence of polymerization and bundling by the essential bacterial cytoskeletal protein FtsZ Plos One 6, e19369.
60.Bugg, T.D.H., Braddick, D., Lloyd, A.J., Dowson, C.G. & Roper, D.I.(2011) Bacterial Cell Wall Assembly: Still an Attractive Antibacterial Target. Trends in Biotechnology. 2011 Apr;29(4):167-73.
61.Hattersley JG, Pérez-Velázquez J, Chappell MJ, Bearup D, Roper D.I. Dowson C, Bugg T, Evans ND. (2010) Indistinguishability and identifiability of kinetic models for the MurC reaction in peptidoglycan biosynthesis.Comput Methods Programs Biomed. 104(2):70-80. doi: 10.1016/j.cmpb.2010.07.009.
62.Batson, S, Rea D., Fulop, V & Roper D.I.(2010) Crystallization and preliminary X-ray analysis of a D-alanyl-D-alanine ligase (EcDdlB) from Escherichia coli. Acta Crystallogr F Biol Crystallogr 66(Pt 4):405-408.
63.Kawai F, Clarke TB, Roper D.I,Han GJ, Hwang KY, Unzai S, Obayashi E, Park SY, Tame JR. (2010) Crystal Structures of Penicillin-Binding Proteins 4 and 5 from Haemophilus influenzae.Journal of Molecular Biology. 396(3): 634-45.
64.Usha, V., Dover, L. G., Roper, D. I.,Futterer, K., and Besra, G. S. (2009) Structure of the diaminopimelate epimerase DapF from Mycobacterium tuberculosis, Acta Crystallogr D Biol Crystallogr 65, 383-387.
65.Sova, M., Cadez, G., Turk, S., Majce, V., Polanc, S., Batson, S., Lloyd, A. J., Roper, D. I.,Fishwick, C. W., and Gobec, S. (2009) Design and synthesis of new hydroxyethylamines as inhibitors of D-alanyl-D-lactate ligase (VanA) and D-alanyl-D-alanine ligase (DdlB), Bioorg Med Chem Lett 19, 1376-1379.
66.Paradis-Bleau, C., Lloyd, A., Sanschagrin, F., Maaroufi, H., Clarke, T., Blewett, A., Dowson, C., Roper, D. I.,Bugg, T. D., and Levesque, R. C. (2009) Pseudomonas aeruginosa MurE amide ligase: enzyme kinetics and peptide inhibitor, Biochemical Journal 421, 263-272.
67.Cressina, E., Lloyd, A. J., De Pascale, G., James Mok, B., Caddick, S., Roper, D. I., Dowson, C. G., and Bugg, T. D. (2009) Inhibition of tRNA-dependent ligase MurM from Streptococcus pneumoniae by phosphonate and sulfonamide inhibitors, Bioorg Med Chem 17, 3443-3455.
68.Clarke, T. B., Kawai, F., Park, S. Y., Tame, J. R., Dowson, C. G., and Roper, D. I. (2009) Mutational analysis of the substrate specificity of Escherichia coli penicillin binding protein 4, Biochemistry 48, 2675-2683.
69.Usha, V., Dover, L. G., Roper, D.I.and Besra, G. S. (2008) Characterization of Mycobacterium tuberculosis diaminopimelic acid epimerase: paired cysteine residues are crucial for racemization, FEMS Microbiol Lett 280, 57-63.
70.Rea, D., Hovington, R., Rakus, J. F., Gerlt, J. A., Fulop, V., Bugg, T. D., and Roper, D. I.(2008) Crystal structure and functional assignment of YfaU, a metal ion dependent class II aldolase from Escherichia coli K12, Biochemistry 47, 9955-9965.
71.Lloyd, A. J., Gilbey, A. M., Blewett, A. M., De Pascale, G., El Zoeiby, A., Levesque, R. C., Catherwood, A. C., Tomasz, A., Bugg, T. D., Roper, D. I.and Dowson, C. G. (2008) Characterization of tRNA-dependent peptide bond formation by MurM in the synthesis of Streptococcus pneumoniae peptidoglycan, J Biol Chem 283, 6402-6417.
72.De Pascale, G., Lloyd, A. J., Schouten, J. A., Gilbey, A. M., Roper, D. I., Dowson, C. G., and Bugg, T. D.(2008) Kinetic characterization of lipid II-Ala:alanyl-tRNA ligase (MurN) from Streptococcus pneumoniae using semisynthetic aminoacyl-lipid II substrates, J Biol Chem 283, 34571-34579.
73.Alderwick, L. J., Dover, L. G., Veerapen, N., Gurcha, S. S., Kremer, L., Roper, D. I., Pathak, A. K., Reynolds, R. C., and Besra, G. S. (2008) Expression, purification and characterisation of soluble GlfT and the identification of a novel galactofuranosyltransferase Rv3782 involved in priming GlfT-mediated galactan polymerisation in Mycobacterium tuberculosis, Protein Expr Purif 58, 332-341.
74.Small, E., Marrington, R., Rodger, A., Scott, D. J., Sloan, K., Roper, D.I, Dafforn, T. R., and Addinall, S. G. (2007) FtsZ polymer-bundling by the Escherichia coli ZapA orthologue, YgfE, involves a conformational change in bound GTP, Journal of Molecular Biology 369, 210-221.
75.Rea, D., Fulop, V., Bugg, T. D., and Roper, D. I. (2007) Structure and mechanism of HpcH: a metal ion dependent class II aldolase from the homoprotocatechuate degradation pathway of Escherichia coli, Journal of Molecular Biology 373, 866-876.
76.Lysenko, E. S., Clarke, T. B., Shchepetov, M., Ratner, A. J., Roper, D. I., Dowson, C. G., and Weiser, J. N. (2007) Nod1 signalling overcomes resistance of S. pneumoniae to opsonophagocytic killing, PLoS Pathog 3, e118.
77.Lee, S. C., Stoilova-McPhie, S., Baxter, L., Fulop, V., Henderson, J., Rodger, A., Roper, D. I., Scott, D. J., Smith, C. J., and Morgan, J. A. (2007) Structural characterisation of the insecticidal toxin XptA1, reveals a 1.15 MDa tetramer with a cage-like structure, Journal of Molecular Biology 366, 1558-1568.
78.Izumi, A., Rea, D., Adachi, T., Unzai, S., Park, S. Y., Roper, D. I., and Tame, J. R. (2007) Structure and mechanism of HpcG, a hydratase in the homoprotocatechuate degradation pathway of Escherichia coli, Journal of Molecular Biology 370, 899-911.
79.Cressina, E., Lloyd, A. J., De Pascale, G., Roper, D. I., Dowson, C. G., and Bugg, T. D. (2007) Adenosine phosphonate inhibitors of lipid II: alanyl tRNA ligase MurM from Streptococcus pneumoniae, Bioorg Med Chem Lett 17, 4654-4656.
80.Usha, V., Dover, L. G., Roper, D. I., Lloyd, A. J., and Besra, G. S. (2006) Use of a codon alteration strategy in a novel approach to cloning the Mycobacterium tuberculosis diaminopimelic acid epimerase, FEMS Microbiol Lett. 262, 39-47.
81.Totemeyer, S., Sheppard, M., Lloyd, A., Roper, D., Dowson, C., Underhill, D., Murray, P., Maskell, D., and Bryant, C. (2006) IFN-gamma enhances production of nitric oxide from macrophages via a mechanism that depends on nucleotide oligomerization domain-2, J Immunol 176, 4804-4810.
82.Schouten, J. A., Bagga, S., Lloyd, A. J., de Pascale, G., Dowson, C. G., Roper, D. I & Bugg, T. D. (2006) Fluorescent reagents for in vitro studies of lipid-linked steps of bacterial peptidoglycan biosynthesis: derivatives of UDPMurNAc-pentapeptide containing d-cysteine at position 4 or 5, Mol Biosyst 2, 484-491.
83.Kishida, H., Unzai, S., Roper, D. I., Lloyd, A., Park, S. Y., and Tame, J. R. (2006) Crystal structure of penicillin binding protein 4 (dacB) from Escherichia coli, both in the native form and covalently linked to various antibiotics, Biochemistry 45, 783-792.
84.Bugg, T. D., Lloyd, A. J., and Roper, D. I.(2006) Phospho-MurNAc-pentapeptide translocase (MraY) as a target for antibacterial agents and antibacterial proteins, Infect Disord Drug Targets 6, 85-106.
85.Adachi, T., Izumi, A., Rea, D., Park, S. Y., Tame, J. R., and Roper, D. I (2006) Expression, purification and crystallization of 2-oxo-hept-4-ene-1,7-dioate hydratase (HpcG) from Escherichia coli C, Acta Crystallogr Sect F Struct Biol Cryst Commun 62, 1010-1012.
86.Saidijam, M., Bettaney, K. E., Szakonyi, G., Psakis, G., Shibayama, K., Suzuki, S., Clough, J. L., Blessie, V., Abu-Bakr, A., Baumberg, S., Meuller, J., Hoyle, C. K., Palmer, S. L., Butaye, P., Walravens, K., Patching, S. G., O'Reilly, J., Rutherford, N. G., Bill, R. M., Roper, D. I.,Phillips-Jones, M. K., and Henderson, P. J. (2005) Active membrane transport and receptor proteins from bacteria, Biochem Soc Trans 33, 867-872.
87.Rodger, A., Marrington, R., Roper, D., and Windsor, S. (2005) Circular dichroism spectroscopy for the study of protein-ligand interactions, Methods Mol Biol 305, 343-364.
88.Rea, D., Fulop, V., Bugg, T. D., and Roper, D. I. (2005) Expression, purification and preliminary crystallographic analysis of 2,4-dihydroxy-hepta-2-ene-1,7-dioate aldolase (HpcH) from Escherichia coli C, Acta Crystallogr Sect F Struct Biol Cryst Commun 61, 821-824.
89.Chen, H. A., Simpson, P., Huyton, T., Roper, D.I., and Matthews, S. (2005) Solution structure and interactions of the Escherichia coli cell division activator protein CedA, Biochemistry 44, 6738-6744.
90.Besong, G. E., Bostock, J. M., Stubbings, W., Chopra, I., Roper, D. I., Lloyd, A. J., Fishwick, C. W., and Johnson, A. P. (2005) A de novo designed inhibitor of D-Ala-D-Ala ligase from E. coli, Angew Chem Int Ed Engl 44, 6403-6406.
91.Addinall, S. G., Johnson, K. A., Dafforn, T., Smith, C., Rodger, A., Gomez, R. P., Sloan, K., Blewett, A., Scott, D. J., and Roper, D. I (2005) Expression, purification and crystallization of the cell-division protein YgfE from Escherichia coli, Acta Crystallogr Sect F Struct Biol Cryst Commun 61, 305-307.
92.Rodger, A.; Marrington, R.; Roper, D.I. and Windsor, S. “Circular dichroism spectroscopy for the study of protein ligand interactions” in Protein–Ligand Interactions: Methods and Protocols, Uli Nienhaus (ed) in Methods in Molecular Biology / Methods in Molecular Medicine The Humana Press Inc., New Jersey (2005): 305:343-364.
93.Vevodova, J., Graham, R. M., Raux, E., Schubert, H. L., Roper, D. I.,Brindley, A. A., Ian Scott, A., Roessner, C. A., Stamford, N. P., Elizabeth Stroupe, M., Getzoff, E. D., Warren, M. J., and Wilson, K. S. (2004) Structure/function studies on a S-adenosyl-L-methionine-dependent uroporphyrinogen III C methyltransferase (SUMT), a key regulatory enzyme of tetrapyrrole biosynthesis, Journal of Molecular Biology344, 419-433.
94.Lloyd, A. J., Huyton, T., Turkenburg, J., and Roper, D. I. (2004) Refinement of Haemophilus influenzae diaminopimelic acid epimerase (DapF) at 1.75 A resolution suggests a mechanism for stereo control during catalysis, Acta Crystallogr D Biol Crystallogr 60, 397-400.
95.Blewett, A. M., Lloyd, A. J., Echalier, A., Fulop, V., Dowson, C. G., Bugg, T. D., and Roper, D. I. (2004) Expression, purification, crystallization and preliminary characterization of uridine 5'-diphospho-N-acetylmuramoyl L-alanyl-D-glutamate:lysine ligase (MurE) from Streptococcus pneumoniae 110K/70, Acta Crystallogr D Biol Crystallogr 60, 359-361.
96.Willems, R. J., Top, J., Smith, D. J., Roper, D. I.,North, S. E., and Woodford, N. (2003) Mutations in the DNA mismatch repair proteins MutS and MutL of oxazolidinone-resistant or -susceptible Enterococcus faecium, Antimicrob Agents Chemother 47, 3061-3066.
97.Pudney, P. D., Buckley, S. L., Sidebottom, C. M., Twigg, S. N., Sevilla, M. P., Holt, C. B., Roper, D.I.,Telford, J. H., McArthur, A. J., and Lillford, P. J. (2003) The physico-chemical characterization of a boiling stable antifreeze protein from a perennial grass (Lolium perenne), Arch Biochem Biophys 410, 238-245.
98.Wright, A., Blewett, A., Fulop, V., Cooper, R., Burrows, S., Jones, C., and Roper, D.I. (2002) Expression, purification, crystallization and preliminary characterization of an HHED aldolase homologue from Escherichia coli K12, Acta Crystallogr D Biol Crystallogr 58, 2191-2193.
99.Tame, J. R., Namba, K., Dodson, E. J., and Roper, D. I. (2002) The crystal structure of HpcE, a bifunctional decarboxylase/isomerase with a multifunctional fold, Biochemistry 41, 2982-2989.
100.Cox, R. J., Durston, J., and Roper, D. I. (2002) Synthesis and in vitro enzyme activity of an oxa analogue of azi-DAP, Journal of the Chemical Society-Perkin Transactions 1, 1029-1035.
101.Antson, A. A., Smith, D. J., Roper, D. I., Lewis, S., Caves, L. S., Verma, C. S., Buckley, S. L., Lillford, P. J., and Hubbard, R. E. (2001) Understanding the mechanism of ice binding by type III antifreeze proteins, Journal of Molecular Biology. 305, 875-889.
102.Healy, V. L., Lessard, I. A., Roper, D. I.,Knox, J. R., and Walsh, C. T. (2000) Vancomycin resistance in enterococci: reprogramming of the D-ala-D-Ala ligases in bacterial peptidoglycan biosynthesis, Chem Biol 7, R109-119.
103.Roper, D. I.,Huyton, T., Vagin, A., and Dodson, G. (2000) The molecular basis of vancomycin resistance in clinically relevant Enterococci: crystal structure of D-alanyl-D-lactate ligase (VanA), Proc Natl Acad Sci U S A 97, 8921-8925.
104.Major, G. N., Notarianni, G. B., Ross, S. J., Case, M. C., Brannigan, J. A., Roper, D. I., Potter, P. M., Brent, T. P., and Moody, P. C. E. (1999) Evidence for autoproteolysis of substrate-inactivated O-6-methylguanine-DNA methyltransferase following DNA repair, British Journal of Cancer 81, 576-576.
105.Huyton, T., and Roper, D. I. (1999) Crystallization and preliminary X-ray characterization of VanA from Enterococcus faecium BM4147: towards the molecular basis of bacterial resistance to the glycopeptide antibiotic vancomycin, Acta Crystallogr D Biol Crystallogr 55, 1481-1483.
106.Sukhanova, A., Grokhovsky, S., Zhuze, A., Roper, D. and Bronstein, I. (1998) Human DNA-topoisomerase I activity is affected by bis-netropsin's binding to DNA minor groove, Biochemistry and Molecular Biology International 44, 997-1010.
107.Gardiner, L. P., Roper, D. I., Hammonds, T. R., and Maxwell, A. (1998) The N-terminal domain of human topoisomerase II alpha is a DNA-dependent ATPase, Biochemistry 37, 16997-17004
108.Subramanya, H. S., Roper, D. I., Dauter, Z., Dodson, E. J., Davies, G. J., Wilson, K. S., and Wigley, D. B. (1996) Enzymatic ketonization of 2-hydroxymuconate: specificity and mechanism investigated by the crystal structures of two isomerases, Biochemistry 35, 792-802.
109.Jervis, T. J., Roper, D. I., and Glover, I. D. (1996) Crystallization and preliminary X-ray analysis of a bifunctional enzyme: HHDD isomerase/OPET decarboxylase from Escherichia coli, Acta Crystallogr D Biol Crystallogr 52, 1036-1038.
110.Roper, D. I.,Stringfellow, J. M., and Cooper, R. A. (1995) Sequence of the hpcC and hpcG genes of the meta-fission homoprotocatechuic acid pathway of Escherichia coli C: nearly 40% amino-acid identity with the analogous enzymes of the catechol pathway, Gene 156, 47-51.
111.Roper, D. I.,Subramanya, H. S., Shingler, V., and Wigley, D. B. (1994) Preliminary crystallographic analysis of 4-oxalocrotonate tautomerase reveals the oligomeric structure of the enzyme, Journal of Molecular Biology243, 799-801.
112.Cameron, A. D., Roper, D. I.,Moreton, K. M., Muirhead, H., Holbrook, J. J., and Wigley, D. B. (1994) Allosteric activation in Bacillus stearothermophilus lactate dehydrogenase investigated by an X-ray crystallographic analysis of a mutant designed to prevent tetramerization of the enzyme, Journal of Molecular Biology238, 615-625.
113.Roper, D. I., Fawcett, T., and Cooper, R. A. (1993) The Escherichia coli C homoprotocatechuate degradative operon: hpc gene order, direction of transcription and control of expression, Mol Gen Genet 237, 241-250.
114.Roper, D. I., and Cooper, R. A. (1993) Purification, nucleotide sequence and some properties of a bifunctional isomerase/decarboxylase from the homoprotocatechuate degradative pathway of Escherichia coli C, Eur J Biochem 217, 575-580.
115.Roper, D. I.,Moreton, K. M., Wigley, D. B., and Holbrook, J. J. (1992) The structural consequences of exchanging tryptophan and tyrosine residues in B. stearothermophilus lactate dehydrogenase, Protein Eng 5, 611-615.
116.Roper, D. I. & Cooper, R. A. (1990) Purification, some properties and nucleotide sequence of 5-carboxymethyl-2-hydroxymuconate isomerase of Escherichia coli C, FEBS Lett 266, 63-66.
117.Roper, D. I.and Cooper, R. A. (1990) Subcloning and nucleotide sequence of the 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase gene from Escherichia coli C, FEBS Lett 275, 53-57.
118.Wigley, D. B., Roper, D. I., and Cooper, R. A. (1989) Preliminary crystallographic analysis of 5-carboxymethyl-2-hydroxymuconate isomerase from Escherichia coli, Journal of Molecular Biology210, 881-882
External PhD viva invitations:
PhD Viva service for >20 internal PhD examinations and have served as external examiner at UEA, NIMR, UCL, Aberystwyth, Bristol, Birmingham, Nottingham, Leicester, Leeds, Newcastle, Sheffield, Norwegian University of Life Sciences, Aas, Norway, Universite Joseph Fourier, Grenoble, France