T. Jiang and D. F. Green. "Parameter dependence of G-protein-coupled receptor signaling pathways" Manuscript in preparation
D. F. Green. "A statistical framework for hierarchical methods in molecular simulation and design." J. Chem Theory Comput. In press (2010).
N. Carrascal and D. F. Green. "Energetic decomposition with Generalized-Born and Poisson--Boltzmann solvent models: Lessons from association of G-protein components." J. Phys. Chem. B In press, available online. (2010). doi:10.1021/jp910540z
H. Taskent-Sezgin, J. Chung, V. Patsalo, S. J. Miyake-Stoner, A. M. Miller, S. H. Brewer, R. A. Mehl, D. F. Green, D. P. Raleigh and I. Carrico "Interpretation of p-cyanophenylalanine fluorescence in proteins in terms of solvent exposure and contribution of side-chain quenchers: A combined fluorescence, IR and molecular dynamics study." Biochemistry 48 (38): 9040-9046 (2009). doi:10.1021/bi900938z
Y. K. Fujimoto, R. N. TerBush and D. F. Green. "Computational models explain the oligosaccharide specificity of cyanovirin-N." Protein Science. 17 (11): 2008-2014 (2008). doi:10.1110/ps.034637.108
D. F. Green. "Optimized radii for continuum solvation calculations with carbohydrates." J. Phys. Chem. B 112 (16): 5238-5249 (2008). doi:10.1021/jp079725b
D. F. Green, A. T. Dennis, P. S. Fam, B. Tidor and A. Jasanoff. "Rational design of new binding specificity by simultaneous mutagenesis of calmodulin and a target peptide." Biochemistry 45 (41): 12547-12557 (2006). doi:10.1021/bi060857u
D. F. Green and B. Tidor. "Design of improved protein inhibitors of HIV-1 cell entry: Optimization of electrostatic interactions at the binding interface." Proteins: Struct. Func. Bioinf. 60 (4):644-657 (2005). doi:10.1002/prot.20540
B. A. Joughin, D. F. Green and B. Tidor. "Action-at-a-distance interactions enhance protein binding affinity." Protein Sci. 14 (5): 1363-1369 (2005). doi:10.1110/ps.041283105
D. F. Green and B. Tidor. "Eschericia coli glutaminyl-tRNA synthetase is electrostatically optimized for binding of its cognate substrates." J. Mol. Biol. 342 (2): 435-452 (2004). doi:10.1016/j.jmb.2004.06.087
C. Mattos, J. D. Cohen, D. F. Green, B. Tidor and M. Karplus. "X-ray structural and simulation analysis of a protein mutant: The value of a combined approach." Proteins: Struct. Func. Bioinf. 55 (3): 733-742 (2004). doi:10.1002/prot.20031
D. F. Green and B. Tidor. "A comprehensive evaluation of ab initio charge determination methods for use in continuum electrostatic calculations." J. Phys. Chem. B 107 (37): 10261-10273 (2003). doi:10.1021/jp0350971
F. Jiang, H. A. Jenkins, D. F. Green, G. P. A. Yap and R. K. Pomeroy. "A novel metal-chain extension reaction: synthesis of (X)[Os(CO)3(CNBut)]nMn(CO)5 (X = Cl, Br, I; n = 1, 2, 3)." Can. J. Chem 80 (3): 281-291 (2002). doi:10.1139/v02-016
R. J. Batchelor, D. F. Green, B. D. Johnston, B. O. Patrick and B. M. Pinto. "Conformational preferences in glycosylamines. Implications for the exo-anomeric effect." Carbohyd. Res. 330 (3): 421-426 (2001). doi:10.1016/S0008-6215(00)00304-9
K. D. Randell, B. D. Johnston, D. F. Green and B. M. Pinto. "Is there a generalized reverse anomeric effect? Substituent and solvent effects on the configurational equilibria of neutral and protonated N-arylglucopyranosylamines and N-aryl-5-thioglucopyranosylamines." J. Org. Chem 65 (1): 220-226 (2000). doi:10.1021/jo991520j
D. F. Green. "Computer Graphics, Homology Modeling, and Bioinformatics." Protein Engineering and Design, Chapter 10 (S. J. Park and J. R. Cochran, Eds.) CRC Press (2010).
D. F. Green and B. Tidor. "Evaluation of electrostatic interactions." Current Protocols in Bioinformatics, Unit 8.3 (A. D. Baxevanis et al., Eds.) John Wiley & Sons, Inc. (2003). doi:10.1002/0471250953.bi0803s02
B. H. Sherman, D. F. Green and K. H. Ruping. "Method and system for interactive molecular docking and feedback." US patent pending approval. Filed 06/10/2004 (Provisional 06/10/2003), Appl. No. 2005/0055187 A1. B. H. Sherman, D. F. Green, K. H. Ruping and Keith D. Donaldson (Molysym, Inc.) "Apparatus and method for integrating a physical molecular model with a computer-based visualization and simulation model." US patent No. 7,558,707. Approved 07/07/2009 (Filed 12/31/2003, Provisional 12/31/2002).
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