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  1. 1.   Raf-1 Cysteine-Rich Domain Increases the Affinity of K-Ras/Raf at the Membrane, Promoting MAPK Signaling
  2. Li, Shuai; Jang, Hyunbum; Zhang, Jian; Nussinov, Ruth
  3. Structure . 2018, Mar 6; 26(3): 513-+.
  1. 2.   Familial Mutations May Switch Conformational Preferences in alpha-Synuclein Fibrils
  2. Xu, Liang; Ma, Buyong; Nussinov, Ruth; Thompson, Damien
  3. ACS CHEMICAL NEUROSCIENCE. 2017, Apr 19; 8(4):
  1. 3.   Protocols for Molecular Dynamics Simulations of RNA Nanostructures.
  2. Kim, Taejin; Kasprzak, Wojciech; Shapiro, Bruce
  3. Methods in molecular biology (Clifton, N.J.). 2017 1632: 33-64.
  1. 4.   Symmetry-Based Self-assembled Nanotubes Constructed Using Native Protein Structures: The Key Role of Flexible Linkers
  2. Buch, I.; Tsai, C. J.; Wolfson, H. J.; Nussinov, R.
  3. Protein and Peptide Letters. 2011, Apr; 18(4): 362-372.
  1. 5.   Structural and dynamical classification of RNA single-base bulges for nanostructure design
  2. Hastings, W. A.; Yingling, Y. G.; Chirikjian, G. S.; Shapiro, B. A.
  3. Journal of Computational and Theoretical Nanoscience. 2006, FEB; 3(1): 63-77.
  1. 6.   A common pharmacophore for a diverse set of colchicine site inhibitors using a structure-based approach
  2. Nguyen, T. L.; McGrath, C.; Hermone, A. R.; Burnett, J. C.; Zaharevitz, D. W.; Day, B. W.; Wipf, P.; Hamel, E.; Gussio, R.
  3. Journal of Medicinal Chemistry. 2005, SEP 22; 48(19): 6107-6116.
  1. 7.   Dynamic behavior of the telomerase RNA hairpin structure and its relationship to dyskeratosis congenita
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Molecular Biology. 2005, APR 22; 348(1): 27-42.
  1. 8.   Comparison of the protein-protein interfaces in the p53-DNA crystal structures: Towards elucidation of the biological interface
  2. Ma, B. Y.; Pan, Y. P.; Gunasekaran, K.; Venkataraghavan, R. B.; Levine, A. J.; Nussinov, R.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2005, MAR 15; 102(11): 3988-3993.
  1. 9.   In the quest for stable rescuing mutants of p53: Computational mutagenesis of flexible loop L1
  2. Pan, Y. P.; Ma, B. Y.; Venkataraghavan, R. B.; Levine, A. J.; Nussinov, R.
  3. Biochemistry. 2005, FEB 8; 44(5): 1423-1432.
  1. 10.   A comparative study of amyloid fibril formation by residues 15-19 of the human calcitonin hormone: A single beta-sheet model with a small hydrophobic core
  2. Haspel, N.; Zanuy, D.; Ma, B. Y.; Wolfson, H.; Nussinov, R.
  3. Journal of Molecular Biology. 2005, FEB 4; 345(5): 1213-1227.
  1. 11.   In silico protein design by combinatorial assembly of protein building blocks
  2. Tsai, H. H.; Tsai, C. J.; Ma, B. Y.; Nussinov, R.
  3. Protein Science. 2004, OCT; 13(10): 2753-2765.
  1. 12.   Modulating functional loop movements: The role of highly conserved residues in the correlated loop motions
  2. Gunasekaran, K.; Nussinov, R.
  3. Chembiochem. 2004 5(2): 224-230.
  1. 13.   Peptide sequence and amyloid formation: Molecular simulations and experimental study of a human islet amyloid polypeptide fragment and its analogs
  2. Zanuy, D.; Porat, Y.; Gazit, E.; Nussinov, R.
  3. Structure. 2004 12(3): 439-455.
  1. 14.   Caught in the act: visualization of an intermediate in the DNA base-flipping pathway induced by Hhal methyltransferase
  2. Horton, J. R.; Ratner, G.; Banavali, N. K.; Huang, N.; Choi, Y.; Maier, M. A.; Marquez, V. E.; Mackerell, A. D.; Cheng, X. D.
  3. Nucleic Acids Research. 2004 32(13): 3877-3886.
  1. 15.   Dynamics of the Hck-SH3 domain: Comparison of experiment with multiple molecular dynamics simulations
  2. Horita, D. A.; Zhang, W. X.; Smithgall, T. E.; Gmeiner, W. H.; Byrd, R. A.
  3. Protein Science. 2000 9(1): 95-103.
  1. 16.   Reaction Path and Free Energy Calculations of the Transition Between Alternate Conformations of Hiv-1 Protease
  2. Rick, S. W.; Erickson, J. W.; Burt, S. K.
  3. Proteins. 1998 32(1): 7-16.
  1. 17.   Replica Exchange Molecular Dynamics: A Practical Application Protocol with Solutions to Common Problems and a Peptide Aggregation and Self-Assembly Example
  2. Qi, Ruxi; Wei, Guanghong; Ma, Buyong; Nussinov, Ruth
  3. Methods in Molecular Biology . 2018 1777: 101-119.
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