ISMB member publications in 2004


Dr Richard Bayliss
[top]

Bayliss R, Sardon T, Ebert J, Lindner D, Vernos I, Conti E (2004) Determinants for Aurora-A Activation and Aurora-B Discrimination by TPX2. Cell Cycle. 3: 404-407.


Dr Tracey Barrett
[top]

Not yet available


Professor Jeremy Brockes [top]

Brockes, J.P. and Kanu, N. The prion protein in cell culture, in Prions and Prion Diseases: Current Perspectives (ed G.C. Telling), Horizon Press (2004), 57-81

Imokawa, Y, Simon, A and Brockes J.P, A critical role for thrombin in vertebrate lens regeneration, Phil. Trans. Roy. Soc. (B) 359, 765-776 (2004)

Imokawa, Y., Gates, P.B., Chang, Y-T., Simon, H-G. and Brockes, J.P. Distinctive expression of Myf5 in relation to differentiation and plasticity of newt muscle cells, International Journal of Developmental Biology 48, 285-291 (2004)

Kumar, A., Velloso, C., Imokawa, Y., and Brockes, J.P. The regenerative plasticity of isolated urodele myofibers and its regulation by Msx1. PLoS Biology 2, 1165-1176 (2004) e218

Moroncini, G., Kanu, N., Solforosi, L., Abalos, G., Telling, G.C., Head, M., Ironside, J., Brockes, J.P., Burton, D.R. and Williamson, A.R. Motif-grafted antibodies containing the replicative interface of cellular PrP are specific for PrPSc, Proc. Natl. Acad. Sci (USA) 101, 10404-10409 (2004)


Professor Steve Caddick
[top]

K. Arentsen, S. Caddick, F. G. N. Cloke, P. B. Hitchcock, A. Herring. (2004) Suzuki-Miyaura Cross-Coupling of Aryl and Alkyl Halides using Palladium/Imidazolium Salt Protocols. Tetrahedron Lett. 45, 3511 – 3515

S. Caddick, F. G. N. Cloke, P. B. Hitchcock, A. K. de K. Lewis. (2004) Unusual Reactivity of a Nickel N-Heterocyclic Carbene Complex: tert-Butyl Cleavage and Silicone Grease Activation. Angew Chem. 43, 5824

S. Caddick, D. Hamza, D. B. Judd, M. T. Reich, S. N. Wadman, J. D. Wilden. (2004) A Novel Route to Functionalized PFP Esters via Rapid Intermolecular Radical Addition to PFP Acrylate Mediated by Ethylpiperidinium Hypophosphite (EPHP). Tetrahedron Lett. 45, 2363 – 2366

S. Caddick, J. D. Wilden, H. D. Bush, D. B. Judd. (2004) Synthesis of Functionalised Sulfonamides via Microwave Assisted Displacement of PFP-Sulfonates with Amines. QSAR Combinatorial Science, 23, 902 – 905

S. Caddick, J. D. Wilden, D. B. Judd. (2004) Direct Synthesis of Sulfonamides and Activated from Sulfonate Esters from Sulfonic Acids.J. Am. Chem. Soc. 126, 1024 – 1025

Z. C. Etheridge, S. Caddick. (2004) Kinetic Resolution of 4, 5-Dihydroxylated Cyclopentenones. Tetrahedron Asymmetry, 15, 503 - 507

M. D. Urbaniak, J. P. Bingham, J. A. Hartley, D. N. Woolfson, S. Caddick. (2004) Improved Stability of Nitrogen-Mustard Derivatives Using apo-Neocarzinostatin. , J. Medicinal Chemistry, 47, 4710-4715


Professor Richard Catlow [top]

Not yet available



Professor Peter Coveney
[top]

M. Al-Ghoul, J. P. Boon and P. V. Coveney, Preface, Phil. Trans. R. Soc. Lond. A, 362, Number 1821, 1551-1552, (2004), DOI: 10.1098/rsta.2004.1417.

S. Barsky, R. Delgado-Buscalioni and P. V. Coveney, "Comparison of Molecular Dynamics with Hybrid Continuum-Molecular Dynamics for a Single Tethered Polymer in a Solvent", Journal of Chemical Physics, 121, Issue 5, 2403-2411, (2004); DOI: 10.1063/1.1767996.
selected for Virtual Journal of Biological Physics Research, 8 (Issue 2, July 15 2004), Fundamental Polymer Statics/Dynamics section; http://www.vjbio.org.

D. M. Benoit, "Fast vibrational self-consistent field calculations through a reduced mode-mode coupling scheme", J. Chem. Phys., 120, 562-573, (2004); DOI: 10.1063/1.1631817.

B. M. Boghosian, P. J. Love, J. Yepez and P. V. Coveney, "Galilean-invariant multi-speed entropic lattice Boltzmann models", Physica D: Nonlinear Phenomena, 192, Issues 1-4, 169-181, (2004); DOI: 10.1016/j.physd.2004.01.018 .

P. Boulet, P. V. Coveney and S. Stackhouse, "Simulation of hydrated Li+-, Na+- and K+-montmorillonite/polymer nanocomposites using large-scale molecular dynamics." Chemical Physics Letters, 389, Issues 4-6, 261-267, (2004); DOI: 10.1016/j.cplett.2004.03.084 .

J. Chin and P. V. Coveney, "Towards tractable toolkits for the Grid: a plea for lightweight, usable middleware." UK e-Science Technical Report, number UKeS-2004-01; available online as PDF or HTML.

J. Chin, P. V. Coveney and S. Jha, "The Current State of the Grid", a book review of "Grid Computing: Making the Global Infrastructure a Reality", by F. Berman, G. Fox, and A. J. G. Hey, Computing in Science and Engineering, 6, Number 5, (2004); available from CiSE.

P. V. Coveney, H. C. Greenwell and M. J. Harvey, "Large-scale MD Simulations for Studying the Interlayer Structure in Cationic and Anionic Clays and Nanocomposite Materials", Geochem. Cosmica Acta, 68, A106, (2004).

P. V. Coveney and M. J. Harvey, "Europe: AG aids RealityGrid and the TeraGyroid Project", AG Focus, Vol 2, Issue 1, page 4, Spring 2004; available online (5.7MB).

P. V. Coveney, J. Vicary, J. Chin, M. J. Harvey, "Introducing WEDS: a WSRF-based Environment for Distributed Simulation", UK e-Science Technical Report , number UKeS-2004-07; available online .

P. V. Coveney, M. Watkinson, A. Whiting, E. S. Boek, "Stabilizing clayey formations", US Patent Number, 6,787,507, Link to US Patent Office website .

G. De Fabritiis, R. Delgardo-Buscalioni and P. V. Coveney, "Energy controlled insertion of polar molecules in dense fluids", J. Chem. Phys. , 121, Issue 24, 12139-12142, (2004), DOI: 10.1063/1.1835957.

R. Delgado-Buscalioni and P. V. Coveney, "Hybrid molecular-continuum fluid dynamics", Phil. Trans. R. Soc. Lond. A, 362, Number 1821, 1639-1654, (2004), DOI: 10.1098/rsta.2004.1401.

N. González-Segredo and P. V. Coveney, "Coarsening dynamics of ternary amphiphilic fluids and the self-assembly of the gyroid and sponge mesophases: Lattice-Boltzmann simulations." Phys. Rev. E, 69, 061501 (2004); DOI: 10.1103/PhysRevE.69.061501;
selected for Virtual Journal of Nanoscale Science & Technology, 9, (Issue 23, June 14 2004), Supramolecular and Biochemical Assembly section; http://www.vjnano.org.

N. González-Segredo and P. V. Coveney, "Self-assembly of the gyroid cubic mesophase: lattice-Boltzmann simulations." Europhys. Lett., 65, 6, 795-801 (2004); DOI: 10.1209/epl/i2003-10129-8, or here.

C. Grindon, S. Harris, T. Evans, K. Novik, P. Coveney and C. Laughton, "Large Scale Molecular Dynamics Simulation of DNA: Implementation and Validation of the Amber98 Forcefield in LAMMPS (Large-scale Atomic/Molecular Massively Parallel Simulator)." Phil. Trans. R. Soc. London Series A, 362, Number 1820, 1373-1386 , (2004); DOI: 10.1098/rsta.2004.1381.

Patrick Grosfils, Jean Pierre Boon, Jonathan Chin, and E. S. Boek, "Structural and dynamical characterization of Hele-Shaw viscous fingering", Phil. Trans. R. Soc. Lond. A, 362, Number 1821, 1723-1734, DOI: 10.1098/rsta.2004.1398.

J. Harting, M. Venturoli and P. V. Coveney, "Large-scale grid-enabled lattice Boltzmann simulations of complex fluid flow in porous media and under shear", Phil. Trans. R. Soc. Lond. A, 362, Number 1821, 1703-1722, DOI: 10.1098/rsta.2004.1402.

S. M. Pickles, R. J. Blake, B. M. Boghosian, J. M. Brooke, J. Chin, P. E. L. Clarke, P. V. Coveney, N. González-Segredo, R. Haines, J. Harting, M. Harvey, M. A. S. Jones, M. McKeown, R. L. Pinning, A. R. Porter, K. Roy, M. Riding, "The TeraGyroid Experiment." Proceedings of GGF10, 2004. see GGF website .

S. Stackhouse, P. V. Coveney, and D. M. Benoit, "Density Functional Theory Based Study of the Dehydroxylation Behaviour of Aluminous Dioctahedral 2:1 Layer Type Clay Minerals", J. Phys. Chem. B, 108, (28), 9685-9694, (2004); DOI: 10.1021/jp037608p.

S. Wan, P. V. Coveney and D. Flower, "Large scale molecular dynamics simulations of HLA-A*0201 complexed with a tumour-specific antigenic peptide: Can the α3 and β2m domains be neglected?", Journal of Computational Chemistry, 25 (15), 1803-1813, (2004); DOI: 10.1002/jcc.20100.

J. A. D. Wattis, C. D. Bolton and P. V. Coveney, "The Becker-Döring equations with exponentially size-dependent rate coefficients." J. Phys. A: Math. Gen., 37, 2895-2912 (2004); available online.

J. A. D. Wattis and P. V. Coveney, "Symmetry-breaking in chiral polymerisation," Origins of Life and Evolution of the Biosphere, (in press, 2004) available online.


Dr Rainer Cramer [top]

Not yet available


Dr Andrew Dingley [top]

Differential protein synthesis and expression levels in normal and neoplastic human prostate cells and their regulation by type I and II interferons. K. Nagano, J. R. Masters, A. Akpan, A Yang, S. Corless, C. Wood, C. Hastie, M. Zvelebil, R. Cramer, S. Naaby-Hansen. Oncogene 2004, 23, 1693-1703.


Dr Snezana Djordjevic [top]

Perez E, West AH, Stock AM, Djordjevic S. 'Discrimination between different methylation states of chemotaxis receptor Tar by receptor methyltransferase CheR.' 2004, Biochemistry. 43:953-61.


Dr Paul Driscoll [top]

Harris R., D. Esposito, A. Sankar, J. D. Maman, J. A. Hinks, L. H. Pearl and P. C. Driscoll, The 3D solution structure of the C-terminal region of Ku86 (Ku86CTR), (2004) J. Mol. Biol. 335, 573-582.

Magalhães B. S., R. Harris, M. J. Plevin and P. C. Driscoll, Backbone 1H, 13C, and 15N resonance assignments for a 29kD monomeric variant of Pseudomonas aeruginosa dimethylarginine dimethylaminohydrolase, (2004) J. Biomol. NMR, in press.

Plevin M.J, B. S. Magalhães, A. Sankar, S. J. Perkins and P. C. Driscoll, Characterisation and manipulation of the Pseudomonas aeruginosa dimethylarginine dimethylaminohydrolase monomer-dimer equilibrium, (2004) submitted to J. Mol. Biol.


Professor Jasminka Godovac-Zimmerman [top]

Kleiner, O., and Godovac-Zimmermann, J. Proteomics of Signal Transduction Pathways in Signaling Pathways in Liver Diseases (eds Dufour, J-F., and Clavien, P-A.,) Springer-Verlag GmbH, Heidelberg (2004) in press

Liberatori, S., Canas, B., Tani, C., Bini, L., Buoncore, G., Godovac-Zimmermann, J., Mishra, O. P., Delivoria-Papadopuolos, M., Bracci, R and Pallini, V. Proteomic approach to the identification of VDACs protein isoforms in guinea pig brain synaptosome (2004) Proteomics, in press

Stannard, C., Brown, L. R., and Godovac-Zimmermann, J. New Paradigms in Cellular Function and the Need for Top-Down Proteomics Analyses. Current Proteomics, (2004) 1, 13-25


Dr Helen Hailes [top]

M. J. Colston, H. C. Hailes, E. Stavropoulos, A. C. Hervé, G. Hervé, K. J. Goodworth, A. M. Hill, P. Jenner, P. D. Hart, and R. E. Tascon,"Antimycobacterial Calixarenes Enhance Innate Defense Mechanisms in Murine Macrophages and Induce Control of Mycobacterium tuberculosis Infection in Mice", Infect. Immun. 2004, 72, 6318-6323.

H. G. Harvey, A. C. Hervé, H. C. Hailes, and M. P. Attfield, "Synthesis, Crystal Structures, and Modifications of Novel Framework Gallium Diphosphonates", Chemistry of Materials, 2004, 16, 3756-3766.

C. A. Hurley, J. B. Wong, H. C. Hailes, and A. B. Tabor, "Asymmetric Synthesis of Dialkyloxy-3-Alkylammonium Cationic Lipids", J. Org. Chem., 2004, 69, 980-983.

M. J. Writer, B Marshall, M. A. Pilkington-Miksa, S. E. Barker, M. Jacobsen, P. C. Bell, D. H. Lester, A. B. Tabor, H. C. Hailes, N. Klein, and S. L. Hart. "Targeted Gene Delivery to Human Airway Epithelial Cells with Synthetic Vectors Incorporating Novel Targeting Peptides Selected by Phage Display", J. Drug Targeting, 2004, 12 (4), 185-194.


Professor Karl Hale [top]

Not yet available



Professor Elizabeth Hounsell [top]

Not yet available



Dr Stefan Howorka [top]

Not yet available



Professor David Jones
[top]

McGuffin, L.J., Street, S., Bryson, K., Sorensen, S.A., Jones, D.T. (2004) The Genomic Threading Database: a comprehensive resource for structural annotations of the genomes from key organisms. Nucl. Acids Res. 32, D196-199. PubMed

McGuffin, L.J., Street, S., Sorensen, S.A., Jones, D.T. (2004) The genomic threading database. Bioinformatics. 20, 131-132. PubMed

Sodhi, J. S., Bryson, K., McGuffin, L. J., Ward, J. J., Wernisch, L. & Jones, D. T. (2004) Predicting metal binding sites in low resolution structural models. J. Mol. Biol., In press.

Ward, J. J., McGuffin, L. J., Bryson K., Buxton, B. F. & Jones, D. T. (2004) The DISOPRED server for the prediction of protein disorder. Bioinformatics, In press.

Ward, J. J., Sodhi, J. S., McGuffin, L. J., Buxton, B. F., Jones, D. T. (2004) Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. J. Mol. Biol., 337, 635-645. PubMed


Dr Nick Keep [top]

Cohen-Gonsaud, M., Barthe, P., Pommier; F., Harris, R., Driscoll, P.C., Keep, N.H. and Roumestand, C. (2004). Letter to the Editor: 1H, 15N, and 13C chemical shift assignments of the resuscitation promoting factor domain of Rv1009 from Mycobacterium tuberculosis. J. Biomol. NMR 30, 373-374

Cohen-Gonsaud, M., Keep, N.H., Davies, A.P, Ward, J., Henderson, B. and Labesse, G. (2004) Resuscitation promoting factors possess a lysozyme-like domain. Trends in Biochemical Sciences 29-7-10.

Harvey, K., Duguid, I.C., Alldred, M.J., Beatty, .S.E. , Ward, H., Keep, N.H., Lingenfelter, S.E., Pearce, B.R., Lundgren, J., Owen, M.J., Smart, T.G., Lüscher, B., Rees, M.I. and Harvey R.J. (2004). The GDP–GTP Exchange Factor Collybistin: An Essential Determinant of Neuronal Gephyrin Clustering. J. Neuroscience 24, 5816 –5826


Professor John Ladbury [top]

Bergqvist, S., Williams, M. A., O’Brien, R., & Ladbury, J. E. (2004) Heat capacity effects of water molecules and ions at a protein-DNA interface. Journal of Molecular Biology 336, 829-842.

Cliff, M. J., Gutierrez, A., & Ladbury, J. E. (2004) A survey of the year 2003 literature on applications of isothermal titration calorimetry. Journal of Molecular Recognition 17, 513-523.

Lachenmann, M. J., Ladbury, J. E., Dong, J., Huang, K., Carey, P., & Weiss, M. A. (2004) Why zinc fingers prefer zinc: ligand-field symmetry and the hidden thermodynamics of metal-ion selectivity. Biochemistry 43, 13910-13925.

Lachenmann, M. J., Ladbury, J. E., Qian, X., Huang, K., Singh, R., & Weiss, M. A. (2004) The hidden thermodynamics of a zinc finger probed by non-standard repair of a protein crevice. Protein Science – in press.

Ladbury J. E. (2004) Protein-protein recognition in phosphotyrosine-mediated intracellular signaling. In “Proteomics and Protein-Protein Interactions: Biology, Chemistry, Bioinformatics and Drug Design”. Editor G. Waksman - in press

Ladbury, J. E. & Williams, M. A. (2004) The extended interface: measuring non-local effects in biomolecular interactions. Current Opinions in Structural Biology. 14, 562-569.

Ladbury, J. E. (2004) Application of isothermal titration calorimetry in the biological sciences: Things are hotting up! Biotechniques – in press

Thomson, J. A., & Ladbury, J. E. (2004) Isothermal titration calorimetry: A tutorial. In “Biocalorimetry II: Applications of Calorimetry in the Biological Sciences” Editors J. E. Ladbury & M. L. Doyle. John Wiley & Sons Ltd. Chichester, Sussex, UK ISBN 0-470-84968-1. pp. 37-58

Yang, J., Roe, S. M., Cliff, M. J., Williams, M. A., Ladbury, J. E. & Barford, D. (2004) Structure of auto-inhibited protein phosphatase 5 reveals mechanism of TPR-mediated enzyme regulation. EMBO Journal – in press


Dr Philip Lowden [top]

Biosynthetic studies on the azinomycins: The pathway to the naphthoate fragment, C. Corre, C.A.S. Landreau, M.Shipman, P.A.S. Lowden, Chem. Commun. 2004, 2600-2601.

The First Biosynthetic Studies of the Azinomycins: Acetate Incorporation into Azinomycin B, C. Corre, P.A.S. Lowden, Chem. Commun. 2004, 990-991.

New Rapamycin Derivatives by Precursor-Directed Biosynthesis, P.A.S. Lowden, G.A. Böhm, S. Metcalfe, J. Staunton, P.F. Leadlay, ChemBioChem 2004, 5, 535-538.


Dr Charles Marson
[top]

Not yet available



Dr Andrew Martin [top]

Harvey, R., Zambon, M., Martin, A. C. R., and Barclay, W.S. (2004)
Restrictions to the adaptation of Influenza A Virus H5 haemagglutinin to the
Human host, Journal of Virology, 78, 502-507

Martin, A.C.R. (2004) PDBSprotEC: A Web-accessible database linking PDB chains to EC numbers via SwissProt, Bioinformatics, 20, 986-988


Dr Nigel Martin [top]

Not yet available


Dr Neil McDonald [top]

Movahedzadeh, F., Smith, D.A., Norman, R.A., Dinadayala, P., Murray-Rust, J. Russell, D.G., Kendall,S.L., Rison,S.A.G., McAlister, M.S.B., Bancroft, B.J., McDonald, N.Q., Daffe, M., Av-Gay, Y. and Stoker. N. The Mycobacterium tuberculosis ino1 gene is essential for growth and virulence. Molecular Microbiology (2004) Feb;51(4):1003-14.

Tilley, S.J., Skippend, A., Murray-Rust, J., Swigart, P.M., Stewart, A., Morgan, C.P., Cockcroft, S. & McDonald, N.Q. Structure-function analysis of human hosphatidylinositol transfer protein alpha bound to phosphatidylinositol. Structure (2004) 12, 317-326.


Professor Boris Mirkin [top]

Not yet available


Dr Carolyn Moores [top]

Mechanism of microtubule stabilization by doublecortin. Mol Cell. 2004 14:833-9. Moores CA, Perderiset M, Francis F, Chelly J, Houdusse A, Milligan RA.

Structure of a kinesin microtubule depolymerization machine. Shipley K, Hekmat-Nejad M, Turner J, Moores C, Anderson R, Milligan R, Sakowicz R, Fletterick, R. EMBO J 2004 Apr 7;23(7):1422-32


Professor David Moss [top]

Clostridium perfringens epsilon-toxin shows structural similarity with the pore forming toxin aerolysin, Cole, A, Gibert, M, Popoff, M, Moss, D, Titball, R and Basak, A, Nature Structural and Molecular Biology, (2004), 11, 797-798.

A Novel predictive technique for the MHC Class II-peptide binding interaction, Davies M N, Sansom, C E, Beazley C and Moss D S, Mol. Medicine, (2004), in press.

Fugu-Human synteny viewer: Web software for automatic annotation and display of synteny between Fugu genomic sequence and Human, Halling-Brown, M, Sansom, C, Moss, D S, Elgar, G and Edwards, Y J K, Nucl. Acid Res., (2004), 32(8), 1-5.



Dr Sylvia Nagl [top]

Chester K, Pedley B, Tolner B, Violet J, Mayer A, Sharma S, Boxer G, Green A, Nagl S, Begent R. (2004). Engineering antibodies for clinical applications in cancer. Tumour Biol. 25:91-98.

Haley J., Mason L. J., Nagl S., Giles I., Latchman D. S., Isenberg D. A., Rahman A. (2004). Somatic mutations to arginine residues affect the binding of human monoclonal antibodies to DNA, histones, SmD and Ro antigen. Molecular Immunology 40:745-58.

Nagl, S. B. et al. (2004). Macromolecules, genomes and ourselves in Paton R. C. et al. (eds.), Computation in Cells and Tissues: Perspectives and Tools of Thought, Springer Series on Natural Computation, Springer Verlag.

Patel M. and S. Nagl (2004). MicroCore: Mapping genome expression to cell pathways and networks. Comparative and Functional Genomics 5: 75-78. C Xia, S Watton, S Nagl, J Samuel, J Lovegrove, J Cheshire, and P Woo Novel sites in the p65 subunit of NF-kappaB interact with TFIIB to facilitate NF-kappaB induced transcription. FEBS Lett, Mar 2004; 561(1-3): 217-22.

C Xia, S Watton, S Nagl, J Samuel, J Lovegrove, J Cheshire, and P Woo. Novel sites in the p65 subunit of NF-kappaB interact with TFIIB to facilitate NF-kappaB induced transcription. FEBS Lett,
Mar 2004; 561(1-3): 217-22.



Professor Christine Orengo [top]

Not yet available



Dr Elena Orlova [top]

Okorokov, A, Orlova, EV, Kingsbury, SR, Bagneris, C, Gohlke, U, Williams, GH & Stoeber, K (2004) Molecular structure of human geminin. Nature Struct. Mol. Biol. 11, 1021-1022.

Orlova, EV & Saibil, HR (2004) Structure determination of macromolecular assemblies by single-particle analysis of cryo-electron micrographs. Current Opin. Struct. Biol. 14, 584-590.

White, HE, Saibil, HR, Ignatiou, A & Orlova, EV (2004) Recognition and separation of single particles with size variation by statistical analysis of their images. J. Mol. Biol. 336, 453-460.


Professor Steve Perkins [top]

Deam, S., Uprichard, J., Eaton, J. T., Perkins, S. J., Dasani, H., Hanley, J. and Dolan, G. (2004). Factor X Cardiff and Factor X Newcastle Upon Tyne: two new factor X mutations associated with low activity and antigen levels. Thromb. Haemost. 92, 1161-1163.

Furtado, P. B., Whitty, P.W., Robertson, A., Eaton, J. T., Almogren, A., Kerr, M.A., Woof, J.M. & Perkins, S. J. (2004) Solution structure determination of human IgA2 by X-ray and neutron scattering and analytical ultracentrifugation and constrained modelling: a comparison with human IgA1. J. Mol. Biol. 338, 921-941.

Plevin, M. J., Magalhaes, B. S., Sankar, A., Perkins, S. J. & Driscoll, P. C. (2004) Characterisation and manipulation of a monomer-dimer equilibrium in Pseudomonas aeruginosa dimethylarginine dimethylaminohydrolase. J. Mol. Biol. 341, 171-184.

Sun, Z., Reid, K. B. M. and. Perkins, S. J. (2004) The multidomain solution structures of the complement protein properdin dimer and trimer by X-ray scattering, analytical ultracentrifugation and constrained modeling. J. Mol. Biol. 343, 1327-1343.


Professor Peter Rich [top]

Iwaki, M. and Rich, P.R. (2004) Direct Detection of Formate-Ligation in Cytochrome c Oxidase by ATR-FTIR Spectroscopy, J. Amer. Chem. Soc., 126, 2386-2389.

Iwaki, M., Osyczka, A., Moser, C.C., Dutton, P.L. and Rich, P.R. (2004) ATR-FTIR spectroscopy studies of iron-sulfur protein and cytochrome c1 in Rhodobacter capsulatus cytochrome bc1 complex, Biochemistry, 43, 9477-9486.

Rich, P.R. (2004) The Quinone Chemistry of bc Complexes, Biochim. Biophys. Acta Bioenergetics, 1658, 165-171.At


Professor David Saggerson [top]

Not yet available


Professor Helen Saibil [top]

Haslbeck, M., Ignatiou, A., Saibil, H., Helmich, S., Frenzl, E., Stromer, T. & Buchner, J. (2004). A domain in the N-terminal part of Hsp26 is essential for chaperone function and oligomerization. J. Mol. Biol. 343, 445-455.

E.V. Orlova & H.R. Saibil (2004). Structure determination of macromolecular assemblies by single particle analysis of cryo-electron micrographs. Curr. Opinion Struct. Biol. 14, 584-590.

B.T. Sewell, R.B. Best, S. Chen, A.M. Roseman, G.W. Farr, A.L. Horwich & H.R. Saibil. (2004) A mutant chaperonin with rearranged inter-ring electrostatic contacts and temperature-sensitive dissociation. Nature Struct. Mol. Biol. 11, 1128-1133.

Smith CJ, Dafforn TR, Kent H, Sims CA, Khubchandani-Aswani K, Zhang L, Saibil HR, Pearse BM. (2004). Location of auxilin within a clathrin cage.' J Mol Biol. 336, 461-471.

White, HE, Saibil, HR, Ignatiou, A & Orlova, EV. (2004) 'Recognition and separation of single particles with size variation by statistical analysis of their images.' J. Mol. Biol. 336, 453-460.


Dr Renos Savva
[top]

dos Reis, M.; Savva, R. and Wernisch, L. (2004) Solving the Riddle of Codon Usage Preferences: a Test for Translational Selection. Nucleic Acids Research, 32, pp. 5036-5044.


Dr David Selwood
[top]

Not yet available


Professor Elizabeth Shephard [top]

Not yet available


Dr Adrian Shepherd
[top]

Not yet available


Dr Christine Slingsby [top]

Ageing and vision: structure, stability and function of lens crystallins. Bloemendal, H., de Jong, W., Jaenicke, R., Lubsen, N.H., Slingsby, C. and Tardieu, A. (2004) Progress Biophys & Mol. Biol. 86, 407-485.

The P23T cataract mutation causes loss of solubility of folded gD-crystallin. Evans, P., Wyatt, K., Wistow, G.J., Bateman, O. A., Wallace, B.A. and Slingsby, C. (2004) J. Mol. Biol. 343, 435-444.

Lee, D., Fefeu, S., Edo-Ukeh, A., Orengo, C. & Slingsby, C. EyeSite: A Semi-Automated Database of Protein Families in the Eye. (2004) Nucleic Acids Research, 32, D148-D152

Purkiss, A.G., Macdonald, J.T., Goodfellow, J.M. and Slingsby, C. Comparison of Generalised Born/Surface Area with periodic boundary simulations to study protein unfolding. (2004) Molecular Simulation, 30, 335-342

Characterisation of the G91del CRYBA1/3-crystallin protein: a cause of human inherited cataract. Reddy, M.A., Bateman, O.A., Chakarova, C., Ferris, J., Berry, V., Lomas, E.,Sarra, R., Smith, M.A., Moore, A.T., Bhattacharya, S.S. and Slingsby, C. (2004) Hum. Mol. Genetics, 13, 945-953."

Sulfur in human crystallins. Srikanthan, D., Bateman, O.A., Purkiss, A.G. and Slingsby, C. (2004) Exp Eye Res.79, 823-831.

Wallace, B.A., Wien, F., Miles, A.J., Lees, J.G., Evans, P., Wistow, G.J. and Slingsby, C. Biomedical applications of synchrotron radiation circular dichroism spectroscopy: Identification of mutant proteins associated with disease and development of a reference database for fold motifs. (2004) Faraday Discussion 126, 237-243.


Dr Alethia Tabor [top]

Not yet available


Professor Gabriel Waksman [top]

T.M. Lohman*, J. Hsieh, N.K. Maluf, W. Cheng, A.L. Lucius, C.J. Fisher, K.M. Brendza, S. Korolev, and G.Waksman (2004). DNA helicases, motors that move along nucleic acids: lessons from the SF1 helicase superfamily. The Enzymes Vol 23. 304-371.

L. Terradot, Nathan Durnell, Ming Li, Daming Li, Jeremiah Ory, Agnes Labigne, Pierre Legrain, Frederic Colland, G. Waksman* (2004). Biochemical characterization of protein complexes from the Helicobacter pylori protein interaction map: strategies for complex formation and evidence for novel interactions within type IV secretion systems. Molec Cell Proteomics. 3:809-819.

A.O. Pineda, Zhi-Wei Chen, Sonia Caccia, Savvas N. Savvides, G. Waksman, F. Scott Mathews, and Enrico Di Cera* (2004). The anticoagulant thrombin mutant W215A/E217A has a collapsed primary specificity pocket. J. Biol. Chem. 279(38):39824-8.

H. Remaut and G. Waksman* (2004). Structural Biology of Bacterial pathogenesis. Current Opinion Structural Biology. 14:161-170.

F.G. Sauer, H. Remaut, S.J. Hultgren, and G. Waksman* (2004). Fiber assembly by the chaperone-usher pathway. Biochem. Biophys. Acta. 1694: 259-267.

S.N. Savvides, S. Raghunathan, K. Fütterer, A.G. Kozlov, T.M. Lohman, and G. Waksman* (2004). The C-terminal domain of full length E. coli SSB is disordered even when bound to DNA. Protein Science. 13(7):1942-7.

G. Waksman*, S. Kumaran, and O. Lubman (2004). Thermodynamics of SH2 domain binding. In: Molecular Interpretation of Binding Thermodynamics. Editor: John Ladbury. John Wiley and Sons, Ltd. Chapter 8; 151-173.

G. Waksman*, S. Kumaran, and O. Lubman (2004). SH2 domains: Role, Structure, and Implications for Molecular Medicine. Exp. Rev. Mol. Med. 6:1-18.

G. Waksman and J. Kuriyan* (2004). Structure and specificity of the SH2 domain. Cell. 116:S45-48.

H-J Yeo, S.E. Cotter, S. Laarmann, T. Juehne, J.W. St. Geme, III*, and G. Waksman* (2004). Structural basis for host recognition by the Haemophilus influenzae Hia autotransporter. EMBO Journal. 23(6):1245-56.

H-J. Yeo, and G. Waksman* (2004). Unveiling molecular scaffolds of the type IV secretion system. Journal of Bacteriology. 186(7):1919-1926.



Professor Bonnie Wallace [top]

Cronin, N., O’Reilly, A., Duclohier, H., and Wallace, B.A. (2004) Structural and functional effects of deglycosylation on voltage-gated sodium channels. Biophysical J. 86:168a.

Duclohier, H., Alder, G.M., Bashford, C.L., Brckner, H., Chugh, J.K., and Wallace, B.A. (2004). Conductance Studies on Trichotoxin_A50E and Implications for Channel Structure. Biophysical J. 87:1705-1710.

Evans, P., Wyatt, K., Wistow, G.J., Bateman, O.A., Wallace, B.A., and Slingsby, C. (2004) The P23T Cataract Mutation Causes Loss of Solubility of Folded gD-Crystallin. J. Mol. Biology. 343:435-444.

Lees, J.G., Smith, B.R., Wien, F., Miles, A.J., and Wallace, B.A.. (2004) CDtool - An Integrated Software Package for Circular Dichroism Spectroscopic Data Processing, Analysis and Archiving. Analytical Biochemistry 332:285-289.

Miles, A.J., Wien, F., Lees, J.G., Rodger, A., Janes, R.W., and Wallace, B.A. (2004) A method for calibration and standardisation of synchrotron radiation circular dichroism (SRCD) and conventional circular dichroism spectrophotometers and its applications to protein secondary structure analyses. Biophysical Journal 86:358a.

Miles, A.J., Wien, F., and Wallace, B.A. (2004) Redetermination of the Extinction Coefficient of Camphor-b-Sulfonic Acid, a Calibration Standard for Circular Dichroism Spectroscopy. Analytical Biochemistry 335:338-339.

Wallace, B.A., Wien, F., Miles, A.J., Lees, J.G., Hoffman, S.V., Evans, P., Wistow, G.J., and Slingsby, C. (2004) Biomedical applications of synchrotron radiation circular dichroism spectroscopy: Identification of mutant proteins associated with disease and development of a reference database for fold motifs. Faraday Discussions 17:653-661.

Whitmore, L. and Wallace, B.A. (2004) Analysis of Peptaibol Sequence Composition: Implications for in vivo Synthesis and Channel Formation. European Biophysics Journal. Eur. Biophys J 33:233-237.

Whitmore, L., and Wallace, B.A. (2004) The Peptaibol Database: A database for sequences and structures of naturally occurring peptaibols. Nucleic Acids Research, 32: D593-D594.

Whitmore, L. and Wallace, B.A. (2004) DICHROWEB, An Online Server For Protein Secondary Structure Analyses from Circular Dichroism Spectroscopic Data. Nucleic Acids Research, 32:W668-673.



Dr Lorenz Wernisch
[top]

dos Reis, M.; Savva, R. and Wernisch, L. (2004) Solving the Riddle of Codon Usage Preferences: a Test for Translational Selection. Nucleic Acids Research, 32, pp. 5036-5044.

 

 





 
 
   
     
Institute of Structural Molecular Biology, University of London
Last modifi
ed July 2005 by t.hoe@ismb.lon.ac.uk