Group: baker-group - with tag protein_folding [190 articles] Export

Recent papers posted by members of the baker-group group with tag protein_folding

	Protein Ionizable Groups: pK Values and Their Contribution to Protein Stability and Solubility [My Copy] Journal of Biological Chemistry, Vol. 284, No. 20. (15 May 2009), pp. 13285-13289. by C. Nick Pace, Gerald R. Grimsley, J. Martin Scholtz posted to electrostatics pka protein_folding review solvation by sobolevnrm to the group baker-group on 2009-05-11 12:27:23 as along with 6 people and 2 groups pjkiley scampos klexa nanonan barry paulschlesinger structural_bioinformatics McCammon
	Topological methods for exploring low-density states in biomolecular folding pathways [My Copy] The Journal of Chemical Physics, Vol. 130, No. 14. (2009), 144115. by Yuan Yao, Jian Sun, Xuhui Huang, et al.Gregory R. Bowman, Gurjeet Singh, Michael Lesnick, Leonidas J. Guibas, Vijay S. Pande, Gunnar Carlsson posted to clustering energy_landscapes nucleic_acids protein_folding by sobolevnrm to the group baker-group on 2009-04-17 13:03:39 as
	Chapter 7 A Computational Approach for the Rational Design of Stable Proteins and EnzymesOptimization of Surface Charge–Charge Interactions [My Copy] In Computer Methods, Part A, Vol. 454 (2009), pp. 175-211. by Katrina L. Schweiker, George I. Makhatadze posted to electrostatics protein_engineering protein_folding solvation by sobolevnrm to the group baker-group on 2009-03-25 11:32:47 as
	Linking folding and binding [My Copy] Current Opinion in Structural Biology, Vol. 19, No. 1. (February 2009), pp. 31-38. by Peter E. Wright, H. Jane Dyson posted to protein-ligand_interactions protein_folding review by sobolevnrm to the group baker-group on 2009-03-24 12:23:48 as along with 3 people chemrahul82 higueruelo flbarroso
	Biophysical characterization of intrinsically disordered proteins. [My Copy] Current opinion in structural biology, Vol. 19, No. 1. (21 February 2009), pp. 23-30. by D. Eliezer posted to protein_folding review by sobolevnrm to the group baker-group on 2009-03-24 12:23:28 as along with 5 people girayenkavi flbarroso laurenm paulschlesinger viktor21614
	Electrostatic effects on funneled landscapes and structural diversity in denatured protein ensembles [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 6. (10 February 2009), pp. 1796-1801. by Patrick Weinkam, Ekaterina V. Pletneva, Harry B. Gray, Jay R. Winkler, Peter G. Wolynes posted to electrostatics protein_folding by sobolevnrm to the group baker-group on 2009-03-22 14:04:24 as along with 2 people apaydin sammmtha
	Protein folding: lessons learned and new frontiers [My Copy] Phys. Biol., Vol. 6, No. 1. (March 2009), 010301. by Rohit V. Pappu, Ruth Nussinov posted to protein_folding review by sobolevnrm to the group baker-group on 2009-03-22 14:03:40 as along with 3 people barry VGreiff viktor21614
	Rational stabilization of enzymes by computational redesign of surface charge-charge interactions. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (5 February 2009) by Alexey V V. Gribenko, Mayank M M. Patel, Jiajing Liu, Scott A A. McCallum, Chunyu Wang, George I I. Makhatadze posted to electrostatics protein_engineering protein_folding by sobolevnrm to the group baker-group on 2009-03-22 14:03:30 as along with 3 people and 2 groups grahamc amishp barry structural_bioinformatics McCammon
	Striking Effects of Hydrodynamic Interactions on the Simulated Diffusion and Folding of Proteins [My Copy] Journal of Chemical Theory and Computation, Vol. 5, No. 2. (10 February 2009), pp. 242-256. by Tamara Frembgen-Kesner, Adrian H. Elcock posted to diffusion protein-protein_interactions protein_folding solvation by sobolevnrm to the group baker-group on 2009-03-19 12:06:25 as along with 2 people and 1 group barry jmccammon McCammon
	Quantitative criteria for native energetic heterogeneity influences in the prediction of protein folding kinetics [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 2. (13 January 2009), pp. 434-439. by Samuel S. Cho, Yaakov Levy, Peter G. Wolynes posted to energy_landscapes protein_folding review by sobolevnrm to the group baker-group on 2009-03-13 11:25:20 as
	Dynamical roles of metal ions and the disulfide bond in Cu, Zn superoxide dismutase folding and aggregation [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 50. (16 December 2008), pp. 19696-19701. by Feng Ding, Nikolay V. Dokholyan posted to ligand-membrane_interactions protein_folding by sobolevnrm to the group baker-group on 2009-03-03 15:38:19 as
	High Resolution Approach to the Native State Ensemble Kinetics and Thermodynamics [My Copy] Biophys. J. (19 September 2008), biophysj.108.136697. by Sangwook Wu, Pavel I. Zhuravlev, Garegin A. Papoian posted to multiscale protein_folding solvation by sobolevnrm to the group baker-group on 2009-02-28 21:54:20 as along with 1 person paulschlesinger
	Hydration Effects on the HET-s Prion and Amyloid-β Fibrillous Aggregates, Studied with Three-Dimensional Molecular Theory of Solvation☆ [My Copy] Biophysical Journal, Vol. 95, No. 10. (15 November 2008), pp. 4540-4548. by T. Yamazaki, N. Blinov, D. Wishart, A. Kovalenko posted to integral_equation protein_folding solvation by sobolevnrm to the group baker-group on 2009-02-04 12:36:48 as
	Backbone relaxation coupled to the ionization of internal groups in proteins: A self-guided Langevin dynamics study [My Copy] Biophys. J. (18 July 2008), biophysj.108.130906. by Ana Damjanovic, Xiongwu Wu, Bertrand Garcia-Moreno, Bernard R. Brooks posted to pka protein_folding solvation by sobolevnrm to the group baker-group on 2009-01-26 12:49:25 as along with 2 people and 1 group jmccammon paulschlesinger McCammon
	Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins [My Copy] Nature, Vol. 453, No. 7199. (25 May 2008), pp. 1266-1270. by Nathan H. Joh, Andrew Min, Salem Faham, et al.Julian P. Whitelegge, Duan Yang, Virgil L. Woods, James U. Bowie posted to protein_engineering protein_folding structure by sobolevnrm to the group baker-group on 2008-07-24 12:12:58 as along with 1 person hc5428
	Dynameomics: mass annotation of protein dynamics and unfolding in water by high-throughput atomistic molecular dynamics simulations [My Copy] Protein Engineering, Design and Selection, Vol. 21, No. 6. (1 June 2008), pp. 353-368. by David A. Beck, Amanda L. Jonsson, Dustin R. Schaeffer, et al.Kathryn A. Scott, Ryan Day, Rudesh D. Toofanny, Darwin O. Alonso, Valerie Daggett posted to bioinformatics database molecular_dynamics protein_folding by sobolevnrm to the group baker-group on 2008-07-10 11:55:39 as
	Role of Backbone−Solvent Interactions in Determining Conformational Equilibria of Intrinsically Disordered Proteins [My Copy] J. Am. Chem. Soc. (16 May 2008) by Hoang T. Tran, Albert Mao, Rohit V. Pappu posted to protein_folding solvation by sobolevnrm to the group baker-group on 2008-07-09 11:35:18 as along with 1 person paulschlesinger
	The Design and Evaluation of Heparin-Binding Foldamers [My Copy] Angewandte Chemie International Edition, Vol. 44, No. 41. (2005), pp. 6685-6689. by Sungwook Choi, Dylan J. Clements, Vojislava Pophristic, et al.Ivaylo Ivanov, Satyavani Vemparala, Joel S. Bennett, Michael L. Klein, Jeffrey D. Winkler, William F. Degrado posted to electrostatics protein_engineering protein_folding protein-ligand_interactions by sobolevnrm to the group baker-group on 2008-04-16 21:11:56 as
	Protein Sequence- and pH-Dependent Hydration Probed by Terahertz Spectroscopy [My Copy] J. Am. Chem. Soc., Vol. 130, No. 8. (27 February 2008), pp. 2374-2375. by S. Ebbinghaus, S. J. Kim, M. Heyden, et al.X. Yu, M. Gruebele, D. M. Leitner, M. Havenith posted to kinetics protein_folding solvation by sobolevnrm to the group baker-group on 2008-03-03 11:46:31 as
	Coarse Master Equations for Peptide Folding Dynamics [My Copy] J. Phys. Chem. B (31 January 2008) by N. V. Buchete, G. Hummer posted to kinetics multiscale protein_folding by sobolevnrm to the group baker-group on 2008-02-29 12:18:27 as along with 3 people Diego_Prada apaydin ruvido
	Solvent Viscosity Dependence of the Protein Folding Dynamics [My Copy] J. Phys. Chem. B (30 January 2008) by Y. M. Rhee, V. S. Pande posted to kinetics molecular_simulation protein_folding solvation by sobolevnrm to the group baker-group on 2008-02-27 12:33:44 as along with 1 person paulymer
	Electrostatic effects in unfolded staphylococcal nuclease [My Copy] Protein Sci, Vol. 17, No. 2. (1 February 2008), pp. 216-227. by Nicholas C. Fitzkee, Garcia-Moreno posted to electrostatics pka protein_folding solvation by sobolevnrm to the group baker-group on 2008-02-26 12:16:44 as
	Protein Stability Prediction: A Poisson-Boltzmann Approach [My Copy] J. Phys. Chem. B (23 January 2008) by Y. H. Tan, R. Luo posted to electrostatics protein_folding solvation by sobolevnrm to the group baker-group on 2008-02-21 12:43:21 as along with 2 people charris5 mikaellund
	Metal-Coupled Folding of Cys2His2 Zinc-Finger [My Copy] J. Am. Chem. Soc., Vol. 130, No. 3. (23 January 2008), pp. 892-900. by W. Li, J. Zhang, J. Wang, W. Wang posted to metalloregulation molecular_simulation protein_folding by sobolevnrm to the group baker-group on 2008-02-20 12:47:57 as
	Mechanistic Elements of Protein Cold Denaturation [My Copy] J. Phys. Chem. B (9 January 2008) by C. F. Lopez, R. K. Darst, P. J. Rossky posted to protein_folding solvation by sobolevnrm to the group baker-group on 2008-02-15 12:32:44 as along with 2 people samjlord Cristiano
	Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear dimensionality reduction [My Copy] PNAS, Vol. 103, No. 26. (27 June 2006), pp. 9885-9890. by Payel Das, Mark Moll, Hernan Stamati, Lydia E. Kavraki, Cecilia Clementi posted to molecular_simulation protein_folding quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-01-30 12:47:02 as along with 2 people and 1 group samjlord hmk moernerlab
	Dynamic personalities of proteins [My Copy] Nature, Vol. 450, No. 7172. (12 December 2007), pp. 964-972. by Katherine Henzler-Wildman, Dorothee Kern posted to allostery experimental_methodology molecular_dynamics protein_folding protein-ligand_interactions by sobolevnrm to the group baker-group on 2008-01-22 12:33:20 as along with 19 people victorclaessen saravan Diego_Prada xdeupi viktor21614 ruvido barry pavanghatty chad_davis allmensch choonpeng rsantana cjeans wilbur mijam kjell phoenixzxl higueruelo GeeSharpMinor
	A polymer physics perspective on driving forces and mechanisms for protein aggregation [My Copy] Archives of Biochemistry and Biophysics In Highlight Issue: Protein Folding, Vol. 469, No. 1. (1 January 2008), pp. 132-141. by Rohit V. Pappu, Xiaoling Wang, Andreas Vitalis, Scott L. Crick posted to protein_folding by sobolevnrm to the group baker-group on 2008-01-07 13:55:20 as
	Probing the structural hierarchy and energy landscape of an RNA T-loop hairpin [My Copy] Nucl. Acids Res., Vol. 35, No. 20. (29 November 2007), pp. 6995-7002. by Zhuoyun Zhuang, Luc Jaeger, Joan-Emma Shea posted to molecular_simulation nucleic_acids protein_folding by sobolevnrm to the group baker-group on 2008-01-02 12:32:22 as
	A Water-Explicit Lattice Model of Heat-, Cold-, and Pressure-Induced Protein Unfolding. [My Copy] Biophys J (31 August 2007) by Bryan A A. Patel, Pablo G G. Debenedetti, Frank H H. Stillinger, Peter J J. Rossky posted to protein_folding solvation statistical_mechanics by sobolevnrm to the group baker-group on 2007-12-27 12:19:28 as along with 1 person saunders
	Application of principal component analysis in protein unfolding: An all-atom molecular dynamics simulation study [My Copy] The Journal of Chemical Physics, Vol. 127, No. 16. (2007) by Atanu Das, Chaitali Mukhopadhyay posted to protein_folding quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2007-12-20 12:38:17 as along with 2 people choonpeng paulschlesinger
	High-resolution structure prediction and the crystallographic phase problem [My Copy] Nature, Vol. 450, No. 7167. (14 October 2007), pp. 259-264. by Bin Qian, Srivatsan Raman, Rhiju Das, et al.Philip Bradley, Airlie J. McCoy, Randy J. Read, David Baker posted to protein_folding structure_prediction by sobolevnrm to the group baker-group on 2007-12-17 12:41:21 as along with 16 people and 1 group bmduggan newton1234 apaydin aheilbut jwm eckart_bindewald ffranca dgront massivemayhem cjeans zwang cactus boris_aguilar Ema chenway ardalby OPIG
	Protein aggregation processes: In search of the mechanism [My Copy] Protein Sci, Vol. 16, No. 11. (1 November 2007), pp. 2334-2344. by Carl Frieden posted to nmr protein_folding by sobolevnrm to the group baker-group on 2007-11-09 12:14:14 as
	Linking folding with aggregation in Alzheimer's beta-amyloid peptides [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 43. (23 October 2007), pp. 16880-16885. by Jana Khandogin, Charles L. Brooks posted to molecular_dynamics pka protein_folding by sobolevnrm to the group baker-group on 2007-11-08 13:04:01 as along with 3 people scampos Diego_Prada onufriev
	Structural motifs of biomolecules [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 44. (30 October 2007), pp. 17283-17286. by Jayanth R. Banavar, Trinh X. Hoang, John H. Maddocks, et al.Amos Maritan, Chiara Poletto, Andrzej Stasiak, Antonio Trovato posted to misc protein_folding by sobolevnrm to the group baker-group on 2007-10-31 16:36:38 as along with 4 people Elena_Zubova zwang afenley hpaces
	Picosecond fluctuating protein energy landscape mapped by pressure temperature molecular dynamics simulation [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 44. (30 October 2007), pp. 17261-17265. by Lars Meinhold, Jeremy C. Smith, Akio Kitao, Ahmed H. Zewail posted to experimental_methodology molecular_dynamics protein_folding solvation by sobolevnrm to the group baker-group on 2007-10-31 12:33:06 as along with 1 person barmak7282
	Vi -Value Analysis: A Pressure-Based Method for Mapping the Folding Transition State Ensemble of Proteins [My Copy] J. Am. Chem. Soc. (26 October 2007) by L. Mitra, K. Hata, R. Kono, et al.A. Maeno, D. Isom, J. B. Rouget, R. Winter, K. Akasaka, B. Garcia-Moreno, C. A. Royer posted to protein_folding solvation by sobolevnrm to the group baker-group on 2007-10-29 11:23:23 as
	Supercharging Proteins Can Impart Unusual Resilience [My Copy] J. Am. Chem. Soc., Vol. 129, No. 33. (22 August 2007), pp. 10110-10112. by M. S. Lawrence, K. J. Phillips, D. R. Liu posted to electrostatics protein_folding by sobolevnrm to the group baker-group on 2007-10-11 12:23:01 as along with 2 people and 2 groups barry samjlord structural_bioinformatics moernerlab
	Coarse-Grained Protein Model Coupled with a Coarse-Grained Water Model: Molecular Dynamics Study of Polyalanine-Based Peptides [My Copy] J. Chem. Theory Comput. (2 October 2007) by W. Han, Y. D. Wu posted to molecular_simulation multiscale protein_folding by sobolevnrm to the group baker-group on 2007-10-08 12:22:49 as
	Effects of long-range electrostatic forces on simulated protein folding kinetics [My Copy] Journal of Computational Chemistry, Vol. 29, No. 5. (2008), pp. 694-700. by Alex Robertson, Edgar Luttmann, Vijay S. Pande posted to protein_folding molecular_simulation electrostatics by sobolevnrm to the group baker-group on 2007-09-14 12:41:24 as along with 2 people r2s2 RamuAnandakrishnan
	Physics of proteins [My Copy] Annual Review of Biophysics and Biomolecular Structure, Vol. 36 (2007), pp. 261-80. by J. R. Banavar, A. Maritan posted to structure protein_folding by sobolevnrm to the group baker-group on 2007-08-06 14:33:02 as
	Observation of sequential steps in the folding of intestinal fatty acid binding protein using a slow folding mutant and 19F NMR [My Copy] Proceedings of the National Academy of Sciences of the United States of America (in press) by H. Li, C. Frieden posted to protein_folding nmr by sobolevnrm to the group baker-group on 2007-07-15 22:17:37 as
	Structural and functional behavior of biologically active monomeric melittin [My Copy] Journal of Molecular Graphics and Modelling, Vol. 25, No. 6. (2007), pp. 767-72. by R. M. S. Terra, J. A. Guimarães, H. Verli posted to protein_folding biomembranes by sobolevnrm to the group baker-group on 2007-06-20 12:33:33 as
	Protein folding under confinement: A role for solvent [My Copy] Proceedings of the National Academy of Sciences of the United States of America (in press) by D. Lucent, V. Vishal, V. S. Pande posted to solvation protein_folding by sobolevnrm to the group baker-group on 2007-06-18 13:08:48 as
	Automatic discovery of metastable states for the construction of Markov models of macromolecular conformational dynamics [My Copy] Journal of Chemical Physics, Vol. 126 (2007) by J. D. Chodera, N. Singhal, V. S. Pande, K. A. Dill, W. C. Swope posted to quasiharmonic-models_elastic-network_gnm_nma_pca_etc protein_folding molecular_dynamics by sobolevnrm to the group baker-group on 2007-05-25 14:37:07 as
	Hydration of denatured and molten globule proteins [My Copy] Nature Structural Biology, Vol. 6, No. 3. (1999), pp. 253-60. by V. P. Denisov, B. H. Jonsson, B. Halle posted to solvation protein_folding by sobolevnrm to the group baker-group on 2007-05-25 14:37:06 as
	An analysis of the molecular origin of osmolyte-dependent protein stability [My Copy] Protein Science, Vol. 16, No. 4. (2007), pp. 733-43. by J. Rösgen, B. M. Pettitt, D. W. Bolen posted to solvation protein_folding by sobolevnrm to the group baker-group on 2007-05-25 14:36:49 as
	Establishing the entatic state in folding metallated Pseudomonas aeruginosa azurin [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 9. (2007), pp. 3159-64. by C. Zong, C. J. Wilson, T. Shen, Wittung P. Stafshede, S. L. Mayo, P. G. Wolynes posted to protein_folding protein_engineering metalloregulation allostery by sobolevnrm to the group baker-group on 2007-05-25 14:36:48 as
	Complex network analysis of free-energy landscapes [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 6. (2007), pp. 1817-22. by D. Gfeller, De Los, A. Caflisch, F. Rao posted to quasiharmonic-models_elastic-network_gnm_nma_pca_etc protein_folding molecular_simulation by sobolevnrm to the group baker-group on 2007-05-25 14:36:28 as
	Anharmonicity and Self-Similarity of the Free Energy Landscape of Protein G [My Copy] Physical Review Letters, Vol. 98 (2007) by F. Pontiggia, G. Colombo, C. Micheletti, H. Orland posted to quasiharmonic-models_elastic-network_gnm_nma_pca_etc protein_folding by sobolevnrm to the group baker-group on 2007-05-25 14:36:05 as

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protein_structure	120
review	37
solvation	33
electrostatics	25
bioinformatics	24
protein_dynamics	23
protein_design	20
protein_evolution	20
evolution	18
free-energy	18
publications	18
implicit_solvation	17
interaction_hierarchy	17
molecular_dynamics	17
biophysics	16
contact_order	15
gb	13
computational_biology	12
molecular_simulation	12
simulation	12
contacts	10
pka	10
contact_maps	9
folding	9
fret	9
md_simulation	9
phi_value_analysis	9
protein_fragments	9
rate_determination	9
structure	9
clustering	8
protein_engineering	8
proteins	8
kinetics	7
pfold	7
protein	7
short-peptides	7
single_molecule	7
unfolded_state	7
entropy	6
go_model	6
hexapeptide	6
hp_model	6
multiscale	6
networks	6
protein-ligand_interactions	6
protein_function	6
protein_sequence	6
protein_threading	6
software	6
structural_genomics	6
nmr	5
protein_stability	5
aggregation	4
amyloids	4
comparative_modeling	4
energy_landscapes	4
experimental_methodology	4
fcs	4
force_field	4
free_energy	4
graphical_models	4
misfolding	4
monte_carlo	4
nonviral_gene_delivery	4
nucleic_acids	4
ph	4
phi_analysis	4
sequence_structure	4
structure_prediction	4
thermodynamics	4
beta-hairpin	3
chaperone	3
comparative_model	3
contact_prediction	3
core_structure	3
correlated_mutations	3
database	3
disease	3
domain_motions	3
domain_swapping	3
fluorescence	3
fold_space	3
graph_theory	3
hydrogen-bond	3
journal	3
methods	3
model_assessment	3
pca	3
protein_ligand_binding	3
protein_universe	3
rate_prediction	3
sequence_comparison	3
signal_transduction	3
statistical_coupling_analysis	3
statistical_mechanics	3
structural_bioinformatics	3
structure_comparison	3
tocopy	3
transition_states	3

Group: baker-group - with tag protein_folding [190 articles] Export

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