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  1. 1.   Blind prediction of noncanonical RNA structure at atomic accuracy
  2. Watkins, Andrew M.; Geniesse, Caleb; Kladwang, Wipapat; Zakrevsky, Paul; Jaeger, Luc; Das, Rhiju
  3. Science Advances. 2018, May 25; 4(5): eaar5316.
  1. 2.   Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots
  2. Bindewald, E.; Afonin, K.; Jaeger, L.; Shapiro, B. A.
  3. Acs Nano. 2011, Dec; 5(12): 9542-9551.
  1. 3.   Self-Assembling RNA Nanorings Based on RNAI/II Inverse Kissing Complexes
  2. Grabow, W. W.; Zakrevsky, P.; Afonin, K. A.; Chworos, A.; Shapiro, B. A.; Jaeger, L.
  3. Nano Letters. 2011, Feb; 11(2): 878-887.
  1. 4.   Human P2Y(6) receptor: Molecular modeling leads to the rational design of a novel agonist based on a unique conformational preference
  2. Costanzi, S.; Joshi, B. V.; Maddileti, S.; Mamedova, L.; Gonzalez-Moa, M. J.; Marquez, V. E.; Harden, T. K.; Jacobson, K. A.
  3. Journal of Medicinal Chemistry. 2005, DEC 29; 48(26): 8108-8111.
  1. 6.   Specific interactions between HIV-1 nucleocapsid protein and the TAR element
  2. Kanevsky, I.; Chaminade, F.; Ficheux, D.; Moumen, A.; Gorelick, R.; Negroni, M.; Darlix, J. L.; Fosse, P.
  3. Journal of Molecular Biology. 2005, MAY 20; 348(5): 1059-1077.
  1. 7.   Substrate-induced conformational changes in glycosyltransferases
  2. Qasba, P. K.; Ramakrishnan, B.; Boeggeman, E.
  3. Trends in Biochemical Sciences. 2005, JAN; 30(1): 53-62.
  1. 8.   Quantitative kinetic analysis of the bacteriophage lambda genetic network
  2. Kobiler, O.; Rokney, A.; Friedman, N.; Court, D. L.; Stavans, J.; Oppenheim, A. B.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2005 102(12): 4470-4475.
  1. 9.   MRNA molecules containing murine leukemia virus packaging signals are encapsidated as dimers
  2. Hibbert, C. S.; Mirro, J.; Rein, A.
  3. Journal of Virology. 2004, OCT; 78(20): 10927-10938.
  1. 10.   Anti-HIV cyclotides
  2. Gustafson, K. R.; McKee, T. C.; Bokesch, H. R.
  3. Current Protein & Peptide Science. 2004, OCT; 5(5): 331-340.
  1. 11.   Structure and catalytic cycle of beta-1,4-galactosyltransferase
  2. Ramakrishnan, B.; Boeggeman, E.; Ramasamy, V.; Qasba, P. K.
  3. Current Opinion in Structural Biology. 2004, OCT; 14(5): 593-600.
  1. 12.   Economy of enzyme mechanism: Triggering loops as an evolving common mechanism
  2. Gunasekaran, K.; Nussinov, R.
  3. Biophysical Journal. 2004 86(1, Part 2 Suppl. S): 526A-526A.
  1. 13.   Solution structure of the cyclotide palicourein: Implications for the development of a pharmaceutical framework
  2. Barry, D. G.; Daly, N. L.; Bokesch, H. R.; Gustafson, K. R.; Craik, D. J.
  3. Structure. 2004 12(1): 85-94.
  1. 14.   Essential roles of a dynamic loop in the catalysis of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase
  2. Blaszczyk, J.; Li, Y.; Wu, Y.; Shi, G. B.; Ji, X. H.; Yan, H. G.
  3. Biochemistry. 2004 43(6): 1469-1477.
  1. 15.   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. 16.   Impact of antibody framework residue V-H-71 on the stability of a humanised anti-MUC1 scFv and derived immunoenzyme
  2. Krauss, J.; Arndt, M. A. E.; Zhu, Z.; Newton, D. L.; Vu, B. K.; Choudhry, V.; Darbha, R.; Ji, X.; Courtenay-Luck, N. S.; Deonarain, M. P.; Richards, J.; Rybak, S. M.
  3. British Journal of Cancer. 2004 90(9): 1863-1870.
  1. 17.   FlexProt: Alignment of flexible protein structures without a predefinition of hinge regions
  2. Shatsky, M.; Nussinov, R.; Wolfson, H. J.
  3. Journal of Computational Biology. 2004 11(1): 83-106.
  1. 19.   Triggering loops and enzyme function: Identification of loops that trigger and modulate movements
  2. Gunasekaran, K.; Ma, B. Y.; Nussinov, R.
  3. Journal of Molecular Biology. 2003 332(1): 143-159.
  1. 20.   Access of antibody molecules to the conserved coreceptor binding site on glycoprotein gpl120 is sterically restricted on primary human immunodeficiency virus type 1
  2. Labrijn, A. F.; Poignard, P.; Raja, A.; Zwick, M. B.; Delgado, K.; Franti, M.; Binley, J.; Vivona, V.; Grundner, C.; Huang, C. C.; Venturi, M.; Petropoulos, C. J.; Wrin, T.; Dimitrov, D. S.; Robinson, J.; Kwong, P. D.; Wyatt, R. T.; Sodroski, J.; Burton, D. R.
  3. Journal of Virology. 2003 77(19): 10557-10565.
  1. 21.   Suppression of T-cell responsiveness by inducible cAMP early repressor (ICER)
  2. Bodor, J.; Feigenbaum, L.; Bodorova, J.; Bare, C.; Reitz, M. S.; Gress, R. E.
  3. Journal of Leukocyte Biology. 2001 69(6): 1053-1059.
  1. 22.   Molecular dynamics simulations of the denaturation and refolding of an RNA tetraloop
  2. Li, W.; Ma, B. Y.; Shapiro, B. A.
  3. Journal of Biomolecular Structure & Dynamics. 2001 19(3): 381-396.
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