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Paper: Modeling Subunit Cooperativity in Opening of Tetrameric Ion Channels
Nekouzadeh A, Silva JR, Rudy Y. Modeling Subunit Cooperativity in Opening of Tetrameric Ion Channels. Biophysical Journal, in press.
Paper: Starch Catabolism by a Prominent Human Gut Symbiont Is Directed by the Recognition of Amylose Helices
Koropatkin NM, Martens EC, Gordon JI, Smith TJ. Starch Catabolism by a Prominent Human Gut Symbiont Is Directed by the Recognition of Amylose Helices. Structure, 16, 1105-15, 2008.
Paper: ABSINTH: A new continuum solvation model for simulations of polypeptides in aqueous solutions
Vitalis A, Pappu RV. ABSINTH: A new continuum solvation model for simulations of polypeptides in aqueous solutions. Journal of Computational Chemistry, in press.
Paper: Role of backbone-solvent interactions in determining conformational equilibria of intrinsically disordered proteins
Tran HT, Mao A, Pappu RV. Role of backbone-solvent interactions in determining conformational equilibria of intrinsically disordered proteins. J Am Chem Soc, in press.
Paper: Non-hexameric DNA helicases and translocases: mechanisms and regulation
Lohman TM, Tomko EJ, Wu CG. Non-hexameric DNA helicases and translocases: mechanisms and regulation. Nat Rev Mol Cell Biol, 9 (5), 391-401, 2008.
Paper: Kinetic control of Mg2+-dependent melting of duplex DNA ends by Escherichia coli RecBC
Wong CJ, Lohman TM. Kinetic control of Mg2+-dependent melting of duplex DNA ends by Escherichia coli RecBC. J Mol Biol, 378 (4), 759-75, 2008.
Paper: Molecular dynamics simulation of the Escherichia coli NikR protein: Equilibrium conformational fluctuations reveal inter-domain allosteric communication pathways
Bradley MJ, Chivers PT, Baker NA. Molecular dynamics simulation of the Escherichia coli NikR protein: Equilibrium conformational fluctuations reveal inter-domain allosteric communication pathways. Journal of Molecular Biology, 378, 1155-1173, 2008.
Olena Ivashyna awarded SPIE scholarship
Olena Ivashyna has been awarded a SPIE Educational Scholarship!
Paper: Structural identification of the pathway of long-range communication in an allosteric enzyme
Gandhi PS, Chen Z, Mathews FS, Di Cera E. Structural identification of the pathway of long-range communication in an allosteric enzyme. Proc Natl Acad Sci, 105 (6): 1832-7, 2008.
Paper: A polymer physics perspective on driving forces and mechanisms for protein aggregation
Pappu RV, Wang X, Vitalis A, Crick SL. A polymer physics perspective on driving forces and mechanisms for protein aggregation. Archives of Biochemistry and Biophysics. 469 (1), 132-141, 2008
Paper: Parameters of Monovalent Ions in the AMBER-99 Forcefield: Assessment of Inaccuracies and Proposed Improvements
Chen AA, Pappu RV. Parameters of Monovalent Ions in the AMBER-99 Forcefield: Assessment of Inaccuracies and Proposed Improvements. J Phys Chem B, 111 (41), 11884-7, 2007.
Paper: Bacillus stearothermophilus PcrA monomer is a single-stranded DNA translocase but not a processive helicase in vitro
Niedziela-Majka A, Chesnik MA, Tomko EJ, Lohman TM. Bacillus stearothermophilus PcrA monomer is a single-stranded DNA translocase but not a processive helicase in vitro. J Biol Chem, 282 (37), 27076-85, 2007.
Paper: Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories
Paper: Vitalis A, Wang X, Pappu RV. Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories. Biophys J, in press.
Paper: Quantitative characterization of ion pairing and cluster formation in strong 1:1 electrolytes
Chen AA, Pappu RV. Quantitative characterization of ion pairing and cluster formation in strong 1:1 electrolytes. J Chem Phys B, 111 (23), 6469-78, 2007.
Paper: Dynamic structural rearrangements between DNA binding modes of E. coli SSB protein
Roy R, Kozlov AG, Lohman TM, Ha T. Dynamic structural rearrangements between DNA binding modes of E. coli SSB protein. J Mol Biol, 369 (5), 1244-57, 2007.
