83 Publications (Page 3 of 4)
2012
Residual structures, conformational fluctuations, and electrostatic interactions in the synergistic folding of two intrinsically disordered proteins.
Zhang, Weihong⋅Ganguly, Debabani and Chen, Jianhan
PLoS computational biology, vol. 8, (no. 1), pp. e1002353, 2012/Jan. | Journal Article
Structural and biophysical properties of a synthetic channel-forming peptide: designing a clinically relevant anion selective pore.Bukovnik, U⋅Gao, J⋅Cook, G A⋅Shank, L P⋅Seabra, M B⋅Schultz, Bruce D⋅Iwamoto, T⋅Chen, J and Tomich, John MBiochimica et biophysica acta, vol. 1818, (no. 4), pp. 1039-48, 2012/Apr.
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Synergistic folding of two intrinsically disordered proteins: searching for conformational selection.
Ganguly, Debabani⋅Zhang, Weihong and Chen, Jianhan
Molecular bioSystems, vol. 8, (no. 1), pp. 198-209, 2012/Jan. | Journal Article
Towards the physical basis of how intrinsic disorder mediates protein function.
Chen, Jianhan
Archives of biochemistry and biophysics, vol. 524, (no. 2), pp. 123-31, 2012/Aug/15. | Journal Article
2011
Force-induced unfolding simulations of the human Notch1 negative regulatory region: possible roles of the heterodimerization domain in mechanosensing.Chen, Jianhan and Zolkiewska, AnnaPloS one, vol. 6, (no. 7), pp. e22837, 2011.
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Intrinsic disorder mediates the diverse regulatory functions of the Cdk inhibitor p21Wang, Yuefeng⋅Fisher, John C⋅Mathew, Rose⋅Ou, Li⋅Otieno, Steve⋅Sublet, Jack⋅Xiao, Limin⋅Chen, Jianhan⋅Roussel, Martine F and Kriwacki, Richard WNature Chemical Biology, vol. 7, (no. 4), pp. 214-221, Apr 2011.
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Topology-based modeling of intrinsically disordered proteins: balancing intrinsic folding and intermolecular interactions.
Ganguly, Debabani and Chen, Jianhan
Proteins, vol. 79, (no. 4), pp. 1251-1266, April 2011. | Journal Article
2010
FoldGPCR: structure prediction protocol for the transmembrane domain of G protein-coupled receptors from class A.Michino, Mayako⋅Chen, Jianhan⋅Stevens, Raymond C and Brooks, Charles LProteins, vol. 78, (no. 10), pp. 2189-201, 2010/Aug/1.
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Intrinsically disordered proteins in a physics-based world.
Click, Timothy H⋅Ganguly, Debabani and Chen, Jianhan
International journal of molecular sciences, vol. 11, (no. 12), pp. 5292-309, 2010. | Journal Article
Structural characterization of two pore-forming peptides: consequences of introducing a C-terminal tryptophan.Herrera, Alvaro I⋅Al Rawi, Ahlam N⋅Cook, Gabriel A⋅Gao, Jian⋅Iwamoto, Takeo⋅Prakash, Om⋅Tomich, John M and Chen, JianhanProteins, vol. 78, (no. 10), pp. 2238-50, 2010/Aug/1.
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2009
An Evaluation of Explicit Receptor Flexibility in Molecular Docking Using Molecular Dynamics and Torsion Angle Molecular Dynamics.Armen, Roger S⋅Chen, Jianhan and Brooks, Charles LJournal of chemical theory and computation, vol. 5, (no. 10), pp. 2909-2923, October 13, 2009.
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Atomistic details of the disordered states of KID and pKID. Implications in coupled binding and folding.
Ganguly, Debabani and Chen, Jianhan
Journal of the American Chemical Society, vol. 131, (no. 14), pp. 5214-23, 2009/Apr/15. | Journal Article
Computational multiscale modeling in protein--ligand docking.Taufer, Michela⋅Armen, Roger⋅Chen, Jianhan⋅Teller, Patricia and Brooks, Charles LIEEE engineering in medicine and biology magazine : the quarterly magazine of the Engineering in Medicine & Biology Society, vol. 28, (no. 2), pp. 58-69, 2009 Mar-Apr.
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Structural interpretation of paramagnetic relaxation enhancement-derived distances for disordered protein states.
Ganguly, Debabani and Chen, Jianhan
Journal of molecular biology, vol. 390, (no. 3), pp. 467-77, 2009/Jul/17. | Journal Article
2008
Application of solid-state NMR restraint potentials in membrane protein modeling.Lee, Jinhyuk⋅Chen, Jianhan⋅Brooks, Charles L and Im, WonpilJournal of magnetic resonance (San Diego, Calif. : 1997), vol. 193, (no. 1), pp. 68-76, 2008/Jul.
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Implicit modeling of nonpolar solvation for simulating protein folding and conformational transitions.Chen, Jianhan and Brooks, Charles LPhysical chemistry chemical physics : PCCP, vol. 10, (no. 4), pp. 471-81, 2008/Jan/28.
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Recent advances in implicit solvent-based methods for biomolecular simulations.Chen, Jianhan⋅Brooks, Charles L and Khandogin, JanaCurrent opinion in structural biology, vol. 18, (no. 2), pp. 140-8, 2008/Apr.
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Revisiting the carboxylic acid dimers in aqueous solution: interplay of hydrogen bonding, hydrophobic interactions, and entropy.Chen, Jianhan⋅Brooks, Charles L and Scheraga, Harold AThe journal of physical chemistry. B, vol. 112, (no. 2), pp. 242-9, 2008/Jan/17.
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2007
Can molecular dynamics simulations provide high-resolution refinement of protein structure?Chen, Jianhan and Brooks, Charles LProteins, vol. 67, (no. 4), pp. 922-30, 2007/Jun/1.
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Critical importance of length-scale dependence in implicit modeling of hydrophobic interactions.Chen, Jianhan and Brooks, Charles LJournal of the American Chemical Society, vol. 129, (no. 9), pp. 2444-5, 2007/Mar/7.
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2006
Balancing solvation and intramolecular interactions: toward a consistent generalized Born force field.Chen, Jianhan⋅Im, Wonpil and Brooks, Charles LJournal of the American Chemical Society, vol. 128, (no. 11), pp. 3728-36, 2006/Mar/22.
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Exploring atomistic details of pH- dependent peptide foldingKhandogin, Jana⋅Chen, Jianhan and Brooks, Charles LProceedings of the National Academy of Sciences of the United States of America, vol. 103, (no. 49), pp. 18546, Dec 5, 2006.
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Exploring atomistic details of pH-dependent peptide folding.Khandogin, Jana⋅Chen, Jianhan and Brooks, Charles LProceedings of the National Academy of Sciences of the United States of America, vol. 103, (no. 49), pp. 18546-18550, December 5, 2006.
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2005
Application of torsion angle molecular dynamics for efficient sampling of protein conformationsChen, Jianhan⋅Im, Wonpil and Brooks, Charles LJournal of Computational Chemistry, vol. 26, (no. 15), pp. 1565-1578, Nov 30, 2005.
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Generation of native-like protein structures from limited NMR data, modern force fields and advanced conformational sampling.Chen, Jianhan⋅Chen, Jianhan⋅Won, Hyung-sik⋅Won, Hyung-Sik⋅Im, Wonpil⋅Im, Wonpil⋅Dyson, H J⋅Dyson, H J⋅Brooks, Charles L and Brooks, Charles LJournal of biomolecular NMR, vol. 31, (no. 1), pp. 59-64, 2005/Jan.
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