University of Dundee

Biological Chemistry and Drug Discovery 2009

Baliani, A., Peal, V., Gros, L., Brun, R., Kaiser, M., Barrett, M. P. and Gilbert, I. H. (2009) Novel functionalized melamine-based nitroheterocycles: synthesis and activity against trypanosomatid parasites. Org Biomol Chem. 7, 1154-1166
doi; 10.1039/b813394h

Cameron, S., Martini, V. P., Iulek, J. and Hunter, W. N. (2009) Geobacillus stearothermophilus 6-phosphogluconate dehydrogenase complexed with 6-phosphogluconate. Acta crystallographica. Section F, Structural biology and crystallization communications. 65, 450-454
doi; 10.1107/S1744309109012767
PMID;2675582  PMC19407374

Chollet, C., Baliani, A., Wong, P. E., Barrett, M. P. and Gilbert, I. H. (2009) Targeted delivery of compounds to Trypanosoma brucei using the melamine motif. Bioorg Med Chem. 17, 2512-2523
doi; 10.1016/j.bmc.2009.01.058

Cole, C., Sobala, A., Lu, C., Thatcher, S. R., Bowman, A., Brown, J. W., Green, P. J., Barton, G. J. and Hutvagner, G. (2009) Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs. RNA. 15, 2147-2160
doi; 10.1261/rna.1738409
PMID;2779667  PMC19850906

Deng, D. M., Urch, J. E., ten Cate, J. M., Rao, V. A., van Aalten, D. M. and Crielaard, W. (2009) Streptococcus mutans SMU.623c codes for a functional, metal-dependent polysaccharide deacetylase that modulates interactions with salivary agglutinin. J Bacteriol. 191, 394-402
doi; 10.1128/JB.00838-08
PMID;2612446  PMC18978064

Dixon, M. J., Nathubhai, A., Andersen, O. A., van Aalten, D. M. and Eggleston, I. M. (2009) Solid-phase synthesis of cyclic peptide chitinase inhibitors: SAR of the argifin scaffold. Org Biomol Chem. 7, 259-268
doi; 10.1039/b815077j
PMID;2657367  PMC19109670

Ferguson, M. A., Mackay, S. M., Ramchandani, S. R., Thurber, J. S., Curran, M. J. and DeGraba, T. J. (2009) Cryptogenic emboli in patients with patent foramen ovale or atrial septal defect associated with the use of nonsteroidal anti-inflammatory drugs. Cardiology. 113, 20-24
doi; 10.1159/000164269

Ferguson, M. A. J., Kinoshita, T. and Hart, G. W. (2009) Glycosylphosphatidylinositol Anchors. In Essentials of Glycobiology (Varki, A., Cummings, R. D., Esko, J. D., Freeze, H. H., Stanley, P., Bertozzi, C. R., Hart, G. W. and Etzler, M. E., eds.), Cold Spring Harbor (NY)
Field, M. C. (2009) Drug screening by crossing membranes: a novel approach to identification of trypanocides. Biochem J. 419, e1-3
doi; 10.1042/BJ20090283

Field, M. C. and Dacks, J. B. (2009) First and last ancestors: reconstructing evolution of the endomembrane system with ESCRTs, vesicle coat proteins, and nuclear pore complexes. Curr Opin Cell Biol. 21, 4-13
doi; 10.1016/

Frearson, J. A. and Collie, I. T. (2009) HTS and hit finding in academia--from chemical genomics to drug discovery. Drug Discov Today. 14, 1150-1158
doi; 10.1016/j.drudis.2009.09.004
PMID;2814004  PMC19793546

Freeman, J. C., Perales, J. B., Woodland, A., Bacchi, C. J., Bowling, T. S., Cleghorn, L., Gamon, C. G., Grimaldi, R., Hauser, D., Mercer, L. T., Nare, B., Nguyen, T. M., Noe, R. A., Rewerts, C. E., Wring, S. A., Wyatt, P. G., Yarlett, N. R., Jacobs, R. T. and Don, R. (2009) Hit to lead and lead optimization of novel small molecules for the treatment of human African trypanosomiasis. Abstracts of Papers of the American Chemical Society. 238.

Fyfe, P. K., Rao, V. A., Zemla, A., Cameron, S. and Hunter, W. N. (2009) Specificity and mechanism of Acinetobacter baumanii nicotinamidase: implications for activation of the front-line tuberculosis drug pyrazinamide. Angew Chem Int Ed Engl. 48, 9176-9179
doi; 10.1002/anie.200903407
PMID;3465764  PMC19859929

Gabernet-Castello, C., Dacks, J. B. and Field, M. C. (2009) The single ENTH-domain protein of trypanosomes; endocytic functions and evolutionary relationship with epsin. Traffic. 10, 894-911
doi; 10.1111/j.1600-0854.2009.00910.x

Gibellini, F., Hunter, W. N. and Smith, T. K. (2009) The ethanolamine branch of the Kennedy pathway is essential in the bloodstream form of Trypanosoma brucei. Mol Microbiol. 73, 826-843
doi; 10.1111/j.1365-2958.2009.06764.x
PMID;2784872  PMC19555461

Gibson, C. L., Huggan, J. K., Kennedy, A., Kiefer, L., Lee, J. H., Suckling, C. J., Clements, C., Harvey, A. L., Hunter, W. N. and Tulloch, L. B. (2009) Diversity oriented syntheses of fused pyrimidines designed as potential antifolates. Org Biomol Chem. 7, 1829-1842
doi; 10.1039/b818339b

Gigante, F., Kaiser, M., Brun, R. and Gilbert, I. H. (2009) SAR studies on azasterols as potential anti-trypanosomal and anti-leishmanial agents. Bioorg Med Chem. 17, 5950-5961
doi; 10.1016/j.bmc.2009.06.062

Golebiowski, F., Matic, I., Tatham, M. H., Cole, C., Yin, Y., Nakamura, A., Cox, J., Barton, G. J., Mann, M. and Hay, R. T. (2009) System-wide changes to SUMO modifications in response to heat shock. Sci Signal. 2, ra24
doi; 10.1126/scisignal.2000282

Greig, N., Wyllie, S., Patterson, S. and Fairlamb, A. H. (2009) A comparative study of methylglyoxal metabolism in trypanosomatids. FEBS J. 276, 376-386
doi; 10.1111/j.1742-4658.2008.06788.x
PMID;2702497  PMC19076214

Guther, M. L., Beattie, K., Lamont, D. J., James, J., Prescott, A. R. and Ferguson, M. A. (2009) Fate of glycosylphosphatidylinositol (GPI)-less procyclin and characterization of sialylated non-GPI-anchored surface coat molecules of procyclic-form Trypanosoma brucei. Eukaryot Cell. 8, 1407-1417
doi; 10.1128/EC.00178-09
PMID;2747833  PMC19633269

Holloway, G. A., Charman, W. N., Fairlamb, A. H., Brun, R., Kaiser, M., Kostewicz, E., Novello, P. M., Parisot, J. P., Richardson, J., Street, I. P., Watson, K. G. and Baell, J. B. (2009) Trypanothione reductase high-throughput screening campaign identifies novel classes of inhibitors with antiparasitic activity. Antimicrob Agents Chemother. 53, 2824-2833
doi; 10.1128/AAC.01568-08
PMID;2704697  PMC19364854

Hopkins, A. L. (2009) Drug discovery: Predicting promiscuity. Nature. 462, 167-168
doi; 10.1038/462167a

Howard, S., Berdini, V., Boulstridge, J. A., Carr, M. G., Cross, D. M., Curry, J., Devine, L. A., Early, T. R., Fazal, L., Gill, A. L., Heathcote, M., Maman, S., Matthews, J. E., McMenamin, R. L., Navarro, E. F., O'Brien, M. A., O'Reilly, M., Rees, D. C., Reule, M., Tisi, D., Williams, G., Vinkovic, M. and Wyatt, P. G. (2009) Fragment-Based Discovery of the Pyrazol-4-yl Urea (AT9283), a Multitargeted Kinase Inhibitor with Potent Aurora Kinase Activity. Journal of Medicinal Chemistry. 52, 379-388
doi; 10.1021/jm800984v

Hung, A. W., Silvestre, H. L., Wen, S., Ciulli, A., Blundell, T. L. and Abell, C. (2009) Application of fragment growing and fragment linking to the discovery of inhibitors of Mycobacterium tuberculosis pantothenate synthetase. Angew Chem Int Ed Engl. 48, 8452-8456
doi; 10.1002/anie.200903821

Hunter, W. N. (2009) Structure-based ligand design and the promise held for antiprotozoan drug discovery. J Biol Chem. 284, 11749-11753
doi; 10.1074/jbc.R800072200
PMID;2673241  PMC19103598

Hurtado-Guerrero, R., Schuttelkopf, A. W., Mouyna, I., Ibrahim, A. F., Shepherd, S., Fontaine, T., Latge, J. P. and van Aalten, D. M. (2009) Molecular mechanisms of yeast cell wall glucan remodeling. J Biol Chem. 284, 8461-8469
doi; 10.1074/jbc.M807990200
PMID;2659204  PMC19097997

Izquierdo, L., Atrih, A., Rodrigues, J. A., Jones, D. C. and Ferguson, M. A. (2009) Trypanosoma brucei UDP-glucose:glycoprotein glucosyltransferase has unusual substrate specificity and protects the parasite from stress. Eukaryot Cell. 8, 230-240
doi; 10.1128/EC.00361-08
PMID;2643610  PMC19114500

Izquierdo, L., Nakanishi, M., Mehlert, A., Machray, G., Barton, G. J. and Ferguson, M. A. (2009) Identification of a glycosylphosphatidylinositol anchor-modifying beta1-3 N-acetylglucosaminyl transferase in Trypanosoma brucei. Mol Microbiol. 71, 478-491
doi; 10.1111/j.1365-2958.2008.06542.x

Izquierdo, L., Schulz, B. L., Rodrigues, J. A., Guther, M. L., Procter, J. B., Barton, G. J., Aebi, M. and Ferguson, M. A. (2009) Distinct donor and acceptor specificities of Trypanosoma brucei oligosaccharyltransferases. EMBO J. 28, 2650-2661
doi; 10.1038/emboj.2009.203
PMID;2722254  PMC19629045

Large, C. H., Kalinichev, M., Lucas, A., Carignani, C., Bradford, A., Garbati, N., Sartori, I., Austin, N. E., Ruffo, A., Jones, D. N., Alvaro, G. and Read, K. D. (2009) The relationship between sodium channel inhibition and anticonvulsant activity in a model of generalised seizure in the rat. Epilepsy Res. 85, 96-106
doi; 10.1016/j.eplepsyres.2009.02.018

Martin, D. M., Miranda-Saavedra, D. and Barton, G. J. (2009) Kinomer v. 1.0: a database of systematically classified eukaryotic protein kinases. Nucleic Acids Res. 37, D244-250
doi; 10.1093/nar/gkn834
PMID;2686601  PMC18974176

Martins-Duarte, E. S., Jones, S. M., Gilbert, I. H., Atella, G. C., de Souza, W. and Vommaro, R. C. (2009) Thiolactomycin analogues as potential anti-Toxoplasma gondii agents. Parasitol Int. 58, 411-415
doi; 10.1016/j.parint.2009.08.004

McCarthy, O., Musso-Buendia, A., Kaiser, M., Brun, R., Ruiz-Perez, L. M., Johansson, N. G., Pacanowska, D. G. and Gilbert, I. H. (2009) Design, synthesis and evaluation of novel uracil acetamide derivatives as potential inhibitors of Plasmodium falciparum dUTP nucleotidohydrolase. Eur J Med Chem. 44, 678-688
doi; 10.1016/j.ejmech.2008.05.018

McDowall, M. D., Scott, M. S. and Barton, G. J. (2009) PIPs: human protein-protein interaction prediction database. Nucleic Acids Res. 37, D651-656
doi; 10.1093/nar/gkn870
PMID;2686497  PMC18988626

Mehlert, A. and Ferguson, M. A. (2009) Proteomic scale high-sensitivity analyses of GPI membrane anchors. Glycoconj J. 26, 915-921
doi; 10.1007/s10719-008-9116-x
PMID;2791486  PMC18330699

Mpamhanga, C. P., Spinks, D., Tulloch, L. B., Shanks, E. J., Robinson, D. A., Collie, I. T., Fairlamb, A. H., Wyatt, P. G., Frearson, J. A., Hunter, W. N., Gilbert, I. H. and Brenk, R. (2009) One scaffold, three binding modes: novel and selective pteridine reductase 1 inhibitors derived from fragment hits discovered by virtual screening. J Med Chem. 52, 4454-4465
doi; 10.1021/jm900414x
PMID;2966039  PMC19527033

Musso-Buendia, J. A., Vidal, A. E., Kasinthan, G., Nguyen, C., Carrero-Lerida, J., Ruiz-Perez, L. M., Wilson, K., Johansson, N. G., Gilbert, I. H. and Gonzalez-Pacanowska, D. (2009) Kinetic properties and inhibition of the dimeric dUTPase-dUDPase from Campylobacter jejuni. J Enzyme Inhib Med Chem. 24, 111-116
doi; 10.1080/14756360801915476

Nakayasu, E. S., Yashunsky, D. V., Nohara, L. L., Torrecilhas, A. C., Nikolaev, A. V. and Almeida, I. C. (2009) GPIomics: global analysis of glycosylphosphatidylinositol-anchored molecules of Trypanosoma cruzi. Mol Syst Biol. 5, 261
doi; 10.1038/msb.2009.13
PMID;2683718  PMC19357640

Nett, I. R., Davidson, L., Lamont, D. and Ferguson, M. A. (2009) Identification and specific localization of tyrosine-phosphorylated proteins in Trypanosoma brucei. Eukaryot Cell. 8, 617-626
doi; 10.1128/EC.00366-08
PMID;2669198  PMC19181871

Nett, I. R., Martin, D. M., Miranda-Saavedra, D., Lamont, D., Barber, J. D., Mehlert, A. and Ferguson, M. A. (2009) The phosphoproteome of bloodstream form Trypanosoma brucei, causative agent of African sleeping sickness. Mol Cell Proteomics. 8, 1527-1538
doi; 10.1074/mcp.M800556-MCP200
PMID;2716717  PMC19346560

Nicoletti, S., Seifert, K. and Gilbert, I. H. (2009) N-(2-hydroxypropyl)methacrylamide-amphotericin B (HPMA-AmB) copolymer conjugates as antileishmanial agents. Int J Antimicrob Agents. 33, 441-448
doi; 10.1016/j.ijantimicag.2008.10.013
PMID;2669511  PMC19097763

Oprea, T. I., Bologa, C. G., Boyer, S., Curpan, R. F., Glen, R. C., Hopkins, A. L., Lipinski, C. A., Marshall, G. R., Martin, Y. C., Ostopovici-Halip, L., Rishton, G., Ursu, O., Vaz, R. J., Waller, C., Waldmann, H. and Sklar, L. A. (2009) A crowdsourcing evaluation of the NIH chemical probes. Nat Chem Biol. 5, 441-447
doi; 10.1038/nchembio0709-441
PMID;3596119  PMC19536101

Patterson, S., Jones, D. C., Shanks, E. J., Frearson, J. A., Gilbert, I. H., Wyatt, P. G. and Fairlamb, A. H. (2009) Synthesis and evaluation of 1-(1-(Benzo[b]thiophen-2-yl)cyclohexyl)piperidine (BTCP) analogues as inhibitors of trypanothione reductase. ChemMedChem. 4, 1341-1353
doi; 10.1002/cmdc.200900098
PMID;2929374  PMC19557802

Perez-Pineiro, R., Burgos, A., Jones, D. C., Andrew, L. C., Rodriguez, H., Suarez, M., Fairlamb, A. H. and Wishart, D. S. (2009) Development of a novel virtual screening cascade protocol to identify potential trypanothione reductase inhibitors. J Med Chem. 52, 1670-1680
doi; 10.1021/jm801306g
PMID;2659691  PMC19296695

Ramsden, N. L., Buetow, L., Dawson, A., Kemp, L. A., Ulaganathan, V., Brenk, R., Klebe, G. and Hunter, W. N. (2009) A structure-based approach to ligand discovery for 2C-methyl-D-erythritol-2,4-cyclodiphosphate synthase: a target for antimicrobial therapy. J Med Chem. 52, 2531-2542
doi; 10.1021/jm801475n
PMID;2669732  PMC19320487

Richardson, J. L., Nett, I. R., Jones, D. C., Abdille, M. H., Gilbert, I. H. and Fairlamb, A. H. (2009) Improved tricyclic inhibitors of trypanothione reductase by screening and chemical synthesis. ChemMedChem. 4, 1333-1340
doi; 10.1002/cmdc.200900097
PMID;2929371  PMC19557801

Schulz, M., Lamont, D., Muthu, T., Hussain, Z. and Balakrishnan, V. (2009) Metastasis of breast cancer to a lumbar spinal nerve root ganglion. Spine (Phila Pa 1976). 34, E735-739
doi; 10.1097/BRS.0b013e3181ae26cc

Scott, M. S., Avolio, F., Ono, M., Lamond, A. I. and Barton, G. J. (2009) Human miRNA precursors with box H/ACA snoRNA features. PLoS Comput Biol. 5, e1000507
doi; 10.1371/journal.pcbi.1000507
PMID;2730528  PMC19763159

Spinks, D., Shanks, E. J., Cleghorn, L. A., McElroy, S., Jones, D., James, D., Fairlamb, A. H., Frearson, J. A., Wyatt, P. G. and Gilbert, I. H. (2009) Investigation of trypanothione reductase as a drug target in Trypanosoma brucei. ChemMedChem. 4, 2060-2069
doi; 10.1002/cmdc.200900262
PMID;2855869  PMC19924760

Torrie, L. S., Wyllie, S., Spinks, D., Oza, S. L., Thompson, S., Harrison, J. R., Gilbert, I. H., Wyatt, P. G., Fairlamb, A. H. and Frearson, J. A. (2009) Chemical validation of trypanothione synthetase: a potential drug target for human trypanosomiasis. J Biol Chem. 284, 36137-36145
doi; 10.1074/jbc.M109.045336
PMID;2794729  PMC19828449

Waterhouse, A. M., Procter, J. B., Martin, D. M., Clamp, M. and Barton, G. J. (2009) Jalview Version 2--a multiple sequence alignment editor and analysis workbench. Bioinformatics. 25, 1189-1191
doi; 10.1093/bioinformatics/btp033
PMID;2672624  PMC19151095

Watson, J., Wright, S., Lucas, A., Clarke, K. L., Viggers, J., Cheetham, S., Jeffrey, P., Porter, R. and Read, K. D. (2009) Receptor occupancy and brain free fraction. Drug Metab Dispos. 37, 753-760
doi; 10.1124/dmd.108.022814

Wyatt, P. G. (2009) The emerging academic drug-discovery sector. Future Medicinal Chemistry. 1, 1013-1017
doi; 10.4155/fmc.09.78

Wyllie, S., Oza, S. L., Patterson, S., Spinks, D., Thompson, S. and Fairlamb, A. H. (2009) Dissecting the essentiality of the bifunctional trypanothione synthetase-amidase in Trypanosoma brucei using chemical and genetic methods. Mol Microbiol. 74, 529-540
doi; 10.1111/j.1365-2958.2009.06761.x
PMID;2784880  PMC19558432