Alan Cooper

Professor of Biophysical Chemistry

Publications

*

2001:-

• C. Hammann, A. Cooper, D. M. J. Lilley (2001). Thermodynamics of ion-induced RNA folding in the hammerhead ribozyme: An isothermal titration calorimetric study. Biochemistry 40, 1423-1429.
• D. Brockwell, L. Yu, S. Cooper, S. McCleland, A. Cooper, D. Attwood, S. J. Gaskell, J. Barber (2001). Physicochemical consequences of the perdeuteriation of glutathione S-transferase from S. japonicum. Protein Sci. 10, 572-580.

2000:-

• Cooper, A. (2000). Heat capacity of hydrogen-bonded networks: An alternative view of protein folding thermodynamics. Biophys.Chem. 85, 25-39.
• Cooper, A. (2000). Microcalorimetry of protein-DNA interactions. In: "DNA-Protein Interactions - a practical approach" (eds. A.Travers & M.Buckle; OUP) pp.125-139.
• A. Cooper, M. A. Nutley, A. Wadood, Differential scanning microcalorimetry in S. E. Harding and B. Z. Chowdhry (Eds.), Protein-Ligand Interactions: hydrodynamics and calorimetry. Oxford University Press, Oxford New York, (2000) p 287-318.
• Xia, Y., Spence, H.J., Moore, J., Heaney, N., McDermott, L., Cooper, A., Watson, D.G., Mei, B., Komuniecki, R., and Kennedy, M.W. (2000). The ABA-1 allergen of Ascaris lumbricoides : Sequence polymorphism, stage and tissue-specific expression, lipid binding function, and protein biophysical properties. Parasitology 120, 211-224.
• Lee T.A.T., Cooper A., Apkarian R.P., Conticello V.P. (2000). Thermo-reversible self-assembly of nanoparticles derived from elastin-mimetic polypeptides. Advanced Materials 12, 1105-1110.
• Ward GD, Watson IA, Stewart-Tull DES, Wardlaw AC, Wang RK, Nutley MA, Cooper A (2000). Bactericidal action of high-power Nd : YAG laser light on Escherichia coli in saline suspension. J.Applied Microbiol. 89, 517-525.
• Gokce, I., Raggett, E. M., Hong, Q., Virden, R., Cooper, A. & Lakey, J. H. (2000). The TolA-recognition Site of Colicin N. ITC, SPR and Stopped-flow Fluorescence Define a Crucial 27-residue Segment. J.Mol.Biol. 304(4), 621-632.

1999:-

• D.McPhail, A.Cooper & A.Freer (1999). Crystallization and preliminary X-ray crystallographic analysis of a vancomycin-N-acetyl-D-ala-D-ala complex. Acta Cryst. D55, 534-535.
• J.McHarg, S.M.Kelly, N.C.Price, A.Cooper, J.A.Littlechild (1999). Site-directed mutagenesis of proline 204 in the 'hinge' region of yeast phosphoglycerate kinase. Eur.J.Biochem. 259, 939-945.
• A.Cooper (1999). Thermodynamics of protein folding and stability. "Protein: A Comprehensive Treatise", Volume 2, pp. 217-270. (Editor: Geoffrey Allen. JAI Press Inc., Stamford CT, 1999)
• L.McDermott, A.Cooper & M.W.Kennedy (1999). Novel classes of fatty acid and retinol binding proteins from nematodes. Molecular and Cellular Biochemistry 192, 69-75.
• J.Moore, L.McDermott, N.C.Price, S.M.Kelly, A.Cooper & M.W.Kennedy (1999). Sequence-divergent units of the ABA-1 polyprotein array of the nematode Ascaris suum have similar fatty acid and retinol-binding properties but different binding-site environments. Biochem.J. 340, 337-343.
• C.A.Sotriffer, W.Flader, A.Cooper, B.M.Rode, D.S.Linthicum, K.R.Liedl & J.M.Varga (1999). Ligand binding by antibody IgE Lb4: assessment of binding site preferences using microcalorimetry, docking, and free energy simulations. Biophys.J. 76, 2966-2977.
• M.D.Kirkitadze, M.Krych, D.Uhrin, D.T.F.Dryden, B.O.Smith, A.Cooper, X.Wang, R.Hauhart, J.P.Atkinson & P.N.Barlow (1999). Independently melting modules and highly structured intermodular junctions within complement receptor type 1. Biochemistry 38, 7019-7031.
• R.Xu, G.Greiveldinger, L.E.Marenus, A.Cooper & J.A.Ellman (1999). Combinatorial library approach for the identification of synthetic receptors targeting vancomycin resistant bacteria. J.Am.Chem.Soc. 121, 4898-4899.
• P.J.Simpson, D.N.Bolam, A.Cooper, A.Ciruela, G.P.Hazelwood, H.J.Gilbert & M.P.Williamson (1999). A family IIb xylan-binding domain has a similar secondary structure to a homologous family IIa cellulose-binding domain but different ligand specificity. Structure 7, 853-864.
• N.Navarre, N.Amiot, A.van Oijem, A.Imberty, A.Poveda, J.Jiménez-Barbero, A.Cooper, M.A.Nutley, G-J. Boons (1999). Synthesis and Conformational Analysis of a Conformationally Constrained Trisaccharide, and Complexation Properties with Concanavalin A . Chem.Eur.J. 5, 2281-2294.
• A.J.Pommer, U.C.Kühlmann, A.Cooper, A.M.Hemmings, G.R.Moore, R.James & C.Kleanthous (1999). Homing-in on the role of transition metals in the HNH motif of colicin endonucleases. J.Biol.Chem. 274, 27153-27160.
• A.Cooper (1999). Thermodynamic analysis of biomolecular interactions. Curr.Opinion Chem.Biol. 3, 557-563.
• Schiffmann DA, White JHM, Cooper A, Nutley MA, Harding SE, Jumel K, Solari R, Ray KP, Gay NJ (1999) Formation and biochemical characterization of tube/pelle death domain complexes: Critical regulators of postreceptor signaling by the Drosophila Toll receptor. Biochemistry 38, 11722-11733.
• Kvaratskhelia, M., George, S.J., Cooper, A. and White, M.F. (1999). Quantitation of metal ion and DNA junction binding to the Holliday junction endonuclease Cce1. Biochemistry 38, 16613-16619.

1998:-

• Raggett, E.M., Bainbridge, G., Evans, L.J.A., Cooper, A. & Lakey, J.H. (1998). Discovery of critical tol A-binding residues in the bacteriocidal toxin colicin N: a biophysical approach. Molecular Microbiology, 28, 1335-1343.
• A.Cooper (1998). Microcalorimetry of protein-protein interations, in "Biocalorimetry: the applications of calorimetry in the biological sciences", eds. J.E.Ladbury & B.Z.Chowdhry (Wiley), pp. 103-111.
• D.McPhail & A.Cooper (1998). Microcalorimetric studies of ligand-induced vancomycin dimerization and molecular recognition. In: Molecular Recognition and Inclusion (A.W.Coleman, ed.), pp. 415-418 (Kluwer Academic Publ.).
• A.Cooper, M.A.Nutley & P.Camilleri (1998). Microcalorimetry of chiral surfactant-cyclodextrin interactions. Analyt.Chem. 70, 5024-5028.

1997:-

• D.McPhail & A.Cooper (1997). Thermodynamics and kinetics of dissociation of ligand-induced dimers of vancomycin antibiotics. J.Chem.Soc. Faraday Trans. 93, 2283-2289.
• T.D.Spurway, C.Morland, A.Cooper, I.Sumner, G.P.Hazelwood, A.G.O'Donnell, R.W.Pickersgill & H.J.Gilbert (1997). Calcium protects a mesophilic xylanase from proteinase inactivation and thermal unfolding. J.Biol.Chem. 272, 17523-17530.
• M.W.Kennedy, L.H.Garside, L.E.Goodrick, L.M.McDermott, A.Brass, N.C.Price, S.M.Kelly, A.Cooper & J.E.Bradley (1997). The Ov20 protein of the parasitic nematode Onchocerca volvulus: a structurally novel class of small helix-rich retinol-binding protein. J.Biol.Chem. 272, 29442-29453.
• A.Cooper (1997). Microcalorimetry of protein-protein interactions. Methods in Molecular Biology Vol.88: Protein Targeting Protocols, pp.11-22 (ed. Roger A. Clegg, Humana Press 1997).

1996:-

• L.J.A.Evans, A.Cooper & J.H.Lakey (1996). Direct measurement of the association of a protein with a family of membrane receptors. J.Mol.Biol. 255, 559-563.
• M.Lovatt, A.Cooper & P.Camilleri (1996). Energetics of cyclodextrin-induced dissociation of insulin. Eur.Biophys.J. 24, 354-357.
• A.Cooper, M.Lovatt & M.A.Nutley (1996). Energetics of protein-cyclodextrin interactions. J.Inclusion Phenom. and Mol.Recog. in Chemistry, 25, 85-88.
• T.Krell, M.J.Horsburgh, A.Cooper, S.M.Kelly & J.R.Coggins (1996). Localization of the active site of type-II dehydroquinases. J.Biol.Chem. 271, 24492-24497.
• L.J.A.Evans, S.Labeit, A.Cooper, L.H.Bond & J.H.Lakey (1996). The central domain of Colicin N possesses the receptor recognition site but not the binding affinity of the whole toxin. Biochemistry 35, 15143-15148.

1995:-

• K.G.Davis, S.E.Plyte, S.R.Robertson, A.Cooper & G.G.Kneale (1995). Comparison of Pf1 and Fd Gene-5 Proteins and their Single-Stranded DNA Complexes by NMR Spectroscopy and Differential Scanning Calorimetry. Biochemistry 34, 148-154.
• M.W.Kennedy, J.E.Allen, A.S.Wright, A.B.McCruden & A.Cooper (1995) The gp15/400 polyprotein antigen of Brugia malayi binds fatty acids and retinoids. Molecular and Biochemical Parasitology 71, 41-50.
• M.W.Kennedy, A.Brass, A.B.McCruden, N.C.Price, S.M.Kelly & A.Cooper (1995). ABA-1 allergen of the parasitic nematode Ascaris suum: fatty acid and retinoid binding function and structural characterization.. Biochemistry 34, 6700-6710.
• S.J.Ford, A.Cooper, L.Hecht, G.Wilson & L.D.Barron (1995). Vibrational Raman Optical Activity of Lysozyme: Hydrogen-Deuterium Exchange, Unfolding and Ligand Binding. J.Chem.Soc. Faraday Trans. 91, 2087-2093.
• M.W.Kennedy, C.Britton, N.C.Price, S.M.Kelly & A.Cooper (1995). The DvA-1 polyprotein of the parasitic nematode Dictyocaulus viviparus. A small helix-rich lipid-binding protein.. J.Biol.Chem. 270, 19277-19281.
• A.Cooper, D.Ma, L.McReynolds & M.W.Kennedy (1995). C elegans makes a fatty acid/retinoid-binding polyprotein: Wormy serum albumin ? Worm Breeder's Gazette 14, 76.

1992-94:-

• C.Kleanthous, R.Deka, K.Davis, S.M.Kelly, A.Cooper, S.E.Harding, N.C.Price, A.R.Hawkins & J.R.Coggins (1992) A comparison of the enzymological and biophysical properties of two distinct classes of dehydroquinase enzymes. Biochem.J. 282, 687-695.
• A.M.Equi, A.Cooper & D.J.Robins (1992) Chain-length dependence of the oxidation of a, w-diamines by diamine oxidase. J.Chem.Research (S) 1992, 94-95.
• A.Cooper, S.J.Eyles, S.E.Radford & C.M.Dobson (1992). Thermodynamic consequences of the removal of a disulphide bridge from hen lysozyme. J.Mol.Biol 225, 939-943.
• C.M.Johnson, A.Cooper & P.G.Stockley (1992). Differential scanning calorimetry of thermal unfolding of the methionine repressor protein (MetJ) from Escherichia coli. Biochemistry 31, 9717-9724.
• A.Cooper (1992). Effect of cyclodextrins on the thermal stability of globular proteins. J.Amer.Chem.Soc. 114, 9208-9209.
• D.N.Woolfson, A.Cooper, M.M.Harding, D.H.Williams & P.A.Evans (1993) Protein folding in the absence of the solvent ordering contribution to the hydrophobic interaction. J.Mol.Biol. 229, 502-511.
• K.E.McAuley-Hecht & A.Cooper (1993). Microcalorimetry of Enzyme-Substrate Binding: Yeast Phosphoglycerate Kinase. J.Chem.Soc. Faraday Trans. 89, 2693-2699.
• A.Cooper & K.E.McAuley-Hecht (1993). Microcalorimetry and the Molecular Recognition of Peptides and Proteins. Phil.Trans.R.Soc. Lond. A 345, 23-35.
• A.J.Teuten, A.Cooper, R.A.G.Smith & C.M.Dobson (1993) Binding of a substrate analogue can induce cooperative structure in the plasmin serine-protease domain. Biochem.J. 293, 567-572.
• A.Cooper & C.M.Johnson (1994). Introduction to Microcalorimetry and Biomolecular Energetics, in "Methods in Molecular Biology, Vol.22: Microscopy, Optical Spectroscopy, and Macroscopic Techniques", Ed. C.Jones, B.Mulloy and A.H.Thomas (Humana Press, Totowa, N.J., 1994), ch.9, pp. 109-124.
• A.Cooper & C.M.Johnson (1994). Differential Scanning Calorimetry, in "Methods in Molecular Biology, Vol.22: Microscopy, Optical Spectroscopy, and Macroscopic Techniques", Ed. C.Jones, B.Mulloy and A.H.Thomas (Humana Press, Totowa, N.J., 1994), ch.10, pp. 125-136.
• A.Cooper & C.M.Johnson (1994). Isothermal Titration Microcalorimetry, in "Methods in Molecular Biology, Vol.22: Microscopy, Optical Spectroscopy, and Macroscopic Techniques", Ed. C.Jones, B.Mulloy and A.H.Thomas (Humana Press, Totowa, N.J., 1994), ch.11, pp. 137-150.
• U.K.Nowak, A.Cooper, D.Saunders, R.A.G.Smith & C.M.Dobson (1994). Unfolding Studies of the Protease Domain of Urokinase-Type Plasminogen Activator: The Existence of Partly Folded States and Stable Sub-Domains. Biochemistry 33, 2951-2960.
• A.Cooper, A.McAlpine & P.G.Stockley (1994). Calorimetric studies of the energetics of protein-DNA interactions in the E.coli methionine repressor (MetJ) system. FEBS Lett. 348, 41-45.
• Z.Markovic-Housley, A.Cooper, A.Lustig, K.Flukiger, B.Stolz & B.Erni (1994). Independent folding of the domains in the hydrophilic subunit IIABman of the mannose transporter of Escherichia coli. Biochemistry 33, 10977-10984.

pre-1992:-

• M.Barbier & A.Cooper (1965) Estimate of Induced Radioactivity in Accelerators. CERN 65-34.
• A.Cooper (1969) The Precipitation of Toroidal Collagen Fibrils. Biochem.J. 112, 515-519.
• A.Cooper (1970) Thermodynamic Studies of the Assembly in vitro of Native Collagen Fibrils. Biochem.J. 118, 355-365.
• A.Cooper (1971) Thermal Stability of Tropocollagens - Are Hydrogen Bonds Really Important ? J.Mol.Biol. 55, 123-127.
• A.Cooper & F.M.Jenkins (1973) Calorimetric Studies of Binding of Substrates and Inhibitors to Triosephosphate Isomerase. Protides of the Biological Fluids, 20, 457-461.
• A.Cooper (1973) An Analysis of the Possible Source of Contractile Forces in Striated Muscle. J.Theor.Biol. 42, 545-562.
• A.Cooper (1974) Thermal Difference Spectra of Aromatic Amino Acids in Water. FEBS Lett. 48, 101-104.
• A.Cooper (1974) Thermochemistry of Binding of a- and b-N-Acetyl-glucosamine to Hen Egg-White Lysozyme. Effects of Specific Oxidation of Tryptophan-62. Biochemistry, 13, 2853-2856.
• A.Cooper & M.E.Hogan (1976) Reactivity of Tryptophans in Rhodopsin. Biochem.Biophys.Res.Comm. 68, 178-182.
• A.Cooper & C.A.Converse (1976) Energetics of Primary Processes in Visual Excitation: Photocalorimetry of Rhodopsin in Rod Outer Segment Membranes. Biochemistry, 15, 2970-2978.
• A.Cooper (1976) Thermodynamic Fluctuations in Protein Molecules. Proc.Natl.Acad.Sci.US, 73, 2740-2741.
• A.Cooper & D.D.MacNicol (1978) Chiral Host-Guest Complexes: Interaction of a-Cyclodextrin with Optically Active Benzene Derivatives. J.Chem.Soc.Perkin II, 1978, 761-763.
• A.Cooper (1979) Energetics of Rhodopsin and Isorhodopsin. FEBS Lett. 100, 382-384.
• A.Cooper (1979) Energy Uptake in the First Step of Visual Excitation. Nature, 282, 531-533.
• A.Cooper, R.K.MacKenzie, D.D.MacNicol & D.S.Rycroft (1980) Internal Rotation in a Guest Molecule Complexed with b-Cyclodextrin in Deuterium Oxide Solution. J.Chem.Res.(S), 1980, 120-121.
• A.Cooper (1980) Conformational Fluctuation and Change in Biological Macromolecules. Science Progress, Oxford, 66, 473-497.
• A.E.Allan & A.Cooper (1980) Hydration of Retinal and the Nature of Metarhodopsin. FEBS Lett. 119, 238-240.
• A.Cooper (1981) Rhodopsin Photoenergetics: Lumirhodopsin and the Complete Energy Profile. FEBS Lett. 123, 324-326.
• A.Cooper (1981) Spurious Conformational Transitions in Proteins. Proc.Natl.Acad.Sci.US, 78, 3551-3553.
• S.A.H.Al-Mahdawi, C.A.Converse & A.Cooper (1981) Partial Proteolysis of Cattle and Frog Rhodopsins. Biochem.Soc.Trans. 9, 319-320.
• C.A.Converse, A.Cooper & M.A.Nutley (1981) A Radial-Diffusion Assay for Serum Lipase. Biochem.Soc.Trans. 9, 320-321.
• A.Cooper & M.A.Nutley (1982) Soluble 2:1 Complexes of b-Cyclodextrins with Retinal Schiff Bases. J.Chem.Research(S), 1982, 218-219.
• A.Cooper (1982) Tryptophan Reactivity. Methods in Enzymology, 81, 285-288.
• A.Cooper (1983) Calorimetric Measurements of Light-Induced Processes. Methods in Enzymology, 88, 667-673.
• A.Cooper (1983) Photoselection of Conformational Substates and the Hypsochromic Photoproduct of Rhodopsin. Chem.Phys. Lett. 99, 305-309.
• A.Cooper (1984) Protein Fluctuations and the Thermodynamic Uncertainty Principle. Prog.Biophys.Molec.Biol. 44, 181-214.
• A.Cooper & D.T.F.Dryden (1984) Allostery Without Conformation Change. Eur.Biophys.J. 11, 103-109.
• A.Cooper, S.F.Dixon & M.Tsuda (1986) Photoenergetics of Octopus Rhodopsin: Convergent Evolution of Biological Photon Counters ? Eur.Biophys.J. 13, 195-201.
• S.F.Dixon & A.Cooper (1987) Quantum Efficiencies of the Reversible Photoreaction of Octopus Rhodopsin. Photochem. Photobiol. 46, 115-119.
• A.Cooper, S.F.Dixon, M.A.Nutley & J.L.Robb (1987) Energetics and Mechanism of Rhodopsin Photolysis in Retinal Proteins. In: Retinal Proteins (VNU Science Press), pp.85-89.
• A.Cooper, S.F.Dixon, M.A.Nutley & J.L.Robb (1987) Mechanism of Schiff Base Formation and Hydrolysis in Relation to Visual Pigment Photolysis and Regeneration: Resonance Raman Spectroscopy of a Tetrahedral Carbinolamine Intermediate and Oxygen-18 Labelling of Retinal at the Metarhodopsin Stage in Photoreceptor Membranes. J.Amer.Chem.Soc. 109, 7254-7263.
• A.Cooper (1988) Conformational Change, Fluctuation and Drift in Biological Macromolecules: An Empirical Langevin Approach. J.Mol.Liqu. 39, 195-206.
• A.Cooper & J.L.Houben (1989) Enzyme Catalysis: The View from Physical Chemistry. In: A.Cooper,J.L.Houben and L.Chien(Eds.), The Enzyme Catalysis Process: Energetics, Mechanism and Dynamics,(Plenum, NATO-ASI Series, New York,1989).
• A.Cooper & D.T.F.Dryden (1989) Thermodynamic Fluctuations and Function in Proteins. In: A.Cooper,J.L.Houben and L.Chien (Eds.), The Enzyme Catalysis Process: Energetics, Mechanism and Dynamics, (Plenum, NATO-ASI Series, New York, 1989).
• A.Cooper (1989) Microcalorimetry of Protein-Ligand Interactions. In: A.Cooper, J.L.Houben and L.Chien(Eds.), The Enzyme Catalysis Process: Energetics, Mechanism and Dynamics, (Plenum, NATO-ASI Series, New York, 1989).
• A.Cooper, B.Sanders & D.T.F.Dryden (1989) Dynamics of Genetically-Engineered Enzymes: Fluorescence and Depolarized Rayleigh Scattering Studies of Yeast Phosphoglycerate Kinase. J.Mol.Liqu. 42, 99-111.
• A.Cooper, A.M.Equi, S.K.Ner, A.B.Watson & D.J.Robins (1989) Oxidation of N-Alkylputrescines by Diamine Oxidases. Tetrahedron Letters 30, 5167-5170.
• A.M.Equi, A.M.Brown, A.Cooper, S.K.Ner, A.B.Watson & D.J.Robins (1991) Oxidation of Putrescine and Cadaverine Derivatives by Diamine Oxidases. Tetrahedron 47, 507-518.
• C.Kleanthous, M.Reilly, A.Cooper, S.Kelly, N.C.Price & J.R.Coggins (1991). Stabilization of the Shikimate Pathway Enzyme Dehydroquinase by Covalently Bound Ligand. J.Biol.Chem. 266, 10893-10898.
• C.M.Johnson, A.Cooper & A.J.P.Brown (1991) A comparison of the reactivity and stability of wild type and His388-->Gln mutant phosphoglycerate kinase from yeast. Eur.J.Biochem. 202, 1157-1164.