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Fangqiang Zhu, Ph.D. - Publications

Affiliations: 
2004 University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
theoretical biophysics
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29 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Zhou X, Zhu F. Calculating Single-Channel Permeability and Conductance from Transition Paths. Journal of Chemical Information and Modeling. PMID 30688447 DOI: 10.1021/Acs.Jcim.8B00914  0.355
2017 Sha H, Zhu F. Parameter Optimization for Interaction between C-Terminal Domains of HIV-1 Capsid Protein. Journal of Chemical Information and Modeling. PMID 28426204 DOI: 10.1021/Acs.Jcim.7B00011  0.303
2017 Meshkin H, Zhu F. Thermodynamics of Protein Folding Studied by Umbrella Sampling along a Reaction Coordinate of Native Contacts. Journal of Chemical Theory and Computation. PMID 28355066 DOI: 10.1021/Acs.Jctc.6B01171  0.355
2017 Leng X, Cavazos A, Ray B, Ghelfi M, Atkinson J, Zhu F, Wassall S. Vitamin E does not Preferentially Bind to Polyunsaturated Lipids as Revealed by Umbrella Sampling MD Simulations Biophysical Journal. 112: 74a. DOI: 10.1016/J.Bpj.2016.11.445  0.326
2016 Song HD, Zhu F. Finite Temperature String Method with Umbrella Sampling: Application on a Side Chain Flipping in Mhp1 Transporter. The Journal of Physical Chemistry. B. PMID 27959537 DOI: 10.1021/Acs.Jpcb.6B08568  0.342
2016 Leng X, Zhu F, Wassall SR. Binding of Vitamin E in Model Membranes Studied by Umbrella Sampling Simulations Biophysical Journal. 110: 583a. DOI: 10.1016/J.Bpj.2015.11.3116  0.35
2015 Qiao X, Jeon J, Weber J, Zhu F, Chen B. Construction of a novel coarse grain model for simulations of HIV capsid assembly to capture the backbone structure and inter-domain motions in solution. Data in Brief. 5: 506-512. PMID 26629495 DOI: 10.1016/J.Dib.2015.09.042  0.331
2015 Song HD, Zhu F. Conformational Changes in Two Inter-Helical Loops of Mhp1 Membrane Transporter. Plos One. 10: e0133388. PMID 26186341 DOI: 10.1371/Journal.Pone.0133388  0.377
2015 Zhu F, Chen B. Monte Carlo Simulations of HIV Capsid Protein Homodimer. Journal of Chemical Information and Modeling. PMID 26107886 DOI: 10.1021/Acs.Jcim.5B00126  0.315
2014 Xue Y, Yuwen T, Zhu F, Skrynnikov NR. Role of electrostatic interactions in binding of peptides and intrinsically disordered proteins to their folded targets. 1. NMR and MD characterization of the complex between the c-Crk N-SH3 domain and the peptide Sos. Biochemistry. 53: 6473-95. PMID 25207671 DOI: 10.1021/Bi500904F  0.333
2014 Zhu F. How does water pass through a sugar transporter? Biophysical Journal. 106: 1229-30. PMID 24655496 DOI: 10.1016/J.Bpj.2014.02.003  0.345
2013 Song HD, Zhu F. Conformational dynamics of a ligand-free adenylate kinase. Plos One. 8: e68023. PMID 23861846 DOI: 10.1371/Journal.Pone.0068023  0.369
2013 Liu Y, Zhu F. Collective diffusion model for ion conduction through microscopic channels. Biophysical Journal. 104: 368-76. PMID 23442858 DOI: 10.1016/J.Bpj.2012.11.3826  0.347
2013 Hummer G, Kaila VR, Zhu F, Okazaki K, Wikström M. Water Mediated Membrane Transport: From Channels to Proton Pumps Biophysical Journal. 104: 11a. DOI: 10.1016/J.Bpj.2012.11.091  0.39
2012 Zhu F, Hummer G. Theory and simulation of ion conduction in the pentameric GLIC channel. Journal of Chemical Theory and Computation. 8: 3759-3768. PMID 23413364 DOI: 10.1021/Ct2009279  0.327
2012 Zhu F, Hummer G. Drying transition in the hydrophobic gate of the GLIC channel blocks ion conduction. Biophysical Journal. 103: 219-27. PMID 22853899 DOI: 10.1016/J.Bpj.2012.06.003  0.343
2011 Melillo M, Zhu F, Snyder MA, Mittal J. Water Transport through Nanotubes with Varying Interaction Strength between Tube Wall and Water. The Journal of Physical Chemistry Letters. 2: 2978-2983. PMID 25606067 DOI: 10.1021/Jz2012319  0.312
2010 Zhu F, Hummer G. Pore opening and closing of a pentameric ligand-gated ion channel. Proceedings of the National Academy of Sciences of the United States of America. 107: 19814-9. PMID 21041674 DOI: 10.1073/Pnas.1009313107  0.361
2009 Zhu F, Hummer G. Gating transition of pentameric ligand-gated ion channels. Biophysical Journal. 97: 2456-63. PMID 19883588 DOI: 10.1016/J.Bpj.2009.08.020  0.319
2009 Bonnet P, Agrafiotis DK, Zhu F, Martin E. Conformational analysis of macrocycles: finding what common search methods miss. Journal of Chemical Information and Modeling. 49: 2242-59. PMID 19807090 DOI: 10.1021/Ci900238A  0.314
2009 Liu P, Zhu F, Rassokhin DN, Agrafiotis DK. A self-organizing algorithm for modeling protein loops. Plos Computational Biology. 5: e1000478. PMID 19696883 DOI: 10.1371/Journal.Pcbi.1000478  0.32
2007 Agrafiotis DK, Gibbs AC, Zhu F, Izrailev S, Martin E. Conformational sampling of bioactive molecules: a comparative study. Journal of Chemical Information and Modeling. 47: 1067-86. PMID 17411028 DOI: 10.1021/Ci6005454  0.301
2007 Chen H, Ilan B, Wu Y, Zhu F, Schulten K, Voth GA. Charge delocalization in proton channels, I: the aquaporin channels and proton blockage. Biophysical Journal. 92: 46-60. PMID 17056733 DOI: 10.1529/Biophysj.106.091934  0.478
2004 Zhu F, Tajkhorshid E, Schulten K. Collective diffusion model for water permeation through microscopic channels. Physical Review Letters. 93: 224501. PMID 15601094 DOI: 10.1103/Physrevlett.93.224501  0.47
2004 Zhu F, Tajkhorshid E, Schulten K. Theory and simulation of water permeation in aquaporin-1. Biophysical Journal. 86: 50-7. PMID 14695248 DOI: 10.1016/S0006-3495(04)74082-5  0.495
2003 Tajkhorshid E, Aksimentiev A, Balabin I, Gao M, Isralewitz B, Phillips JC, Zhu F, Schulten K. Large scale simulation of protein mechanics and function. Advances in Protein Chemistry. 66: 195-247. PMID 14631820 DOI: 10.1016/S0065-3233(03)66006-7  0.648
2003 Zhu F, Schulten K. Water and proton conduction through carbon nanotubes as models for biological channels. Biophysical Journal. 85: 236-44. PMID 12829479 DOI: 10.1016/S0006-3495(03)74469-5  0.46
2002 Zhu F, Tajkhorshid E, Schulten K. Pressure-induced water transport in membrane channels studied by molecular dynamics. Biophysical Journal. 83: 154-60. PMID 12080108 DOI: 10.1016/S0006-3495(02)75157-6  0.505
2001 Zhu F, Tajkhorshid E, Schulten K. Molecular dynamics study of aquaporin-1 water channel in a lipid bilayer. Febs Letters. 504: 212-8. PMID 11532456 DOI: 10.1016/S0014-5793(01)02749-1  0.521
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