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  1. 1.   GAP positions catalytic H-Ras residue Q61 for GTP hydrolysis in molecular dynamics simulations, complicating chemical rescue of Ras deactivation
  2. Patel, Lara A; Waybright,Tim; Stephen,Andy; Neale, Chris
  3. Computational Biology and Chemistry. 2023, Mar 01; 104: 107835.
  1. 2.   HMI-PRED: A Web Server for Structural Prediction of Host-Microbe Interactions Based on Interface Mimicry
  2. Guven Maiorov,Emine; Hakouz, Asma; Valjevac, Sukejna; Keskin, Ozlem; Tsai,Chung-Jung; Gursoy, Attila; Nussinov,Ruth
  3. Journal of molecular biology. 2020, MAY 15; 432(11): 3395-3403.
  1. 3.   Oncoviruses Can Drive Cancer by Rewiring Signaling Pathways Through Interface Mimicry
  2. Guven Maiorov,Emine; Tsai,Chung-Jung; Nussinov,Ruth
  3. Frontiers in oncology. 2019, Nov 15; 9: 1236.
  1. 4.   Prediction of Host-Pathogen Interactions for Helicobacter pylori by Interface Mimicry and Implications to Gastric Cancer
  2. Guven-Maiorov, Emine; Tsai, Chung-Jung; Ma, Buyong; Nussinov, Ruth
  3. Journal of molecular biology. 2017, Dec 8; 429(24): 3925-3941.
  1. 5.   Structural host- microbiota interaction networks
  2. Guven-Maiorov, Emine; Tsai, Chung-Jung; Nussinov, Ruth
  3. PLOS COMPUTATIONAL BIOLOGY. 2017, OCT; 13(10):
  1. 6.   SymmRef: A flexible refinement method for symmetric multimers
  2. Mashiach-Farkash, E.; Nussinov, R.; Wolfson, H. J.
  3. Proteins-Structure Function and Bioinformatics. 2011, Sep; 79(9): 2607-2623.
  1. 7.   The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3 ' end of 16S rRNA
  2. Tu, C.; Zhou, X. M.; Tarasov, S. G.; Tropea, J. E.; Austin, B. P.; Waugh, D. S.; Court, D. L.; Ji, X. H.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2011, Jun; 108(25): 10156-10161.
  1. 8.   Elucidation of New Binding Interactions with the Human Tsg101 Protein Using Modified HIV-1 Gag-p6 Derived Peptide Ligands
  2. Kim, S. E.; Liu, F.; Im, Y. J.; Stephen, A. G.; Fivash, M. J.; Waheed, A. A.; Freed, E. O.; Fisher, R. J.; Hurley, J. H.; Burke, T. R.
  3. Acs Medicinal Chemistry Letters. 2011, May; 2(5): 337-341.
  1. 9.   Allostery and population shift in drug discovery
  2. Kar, G.; Keskin, O.; Gursoy, A.; Nussinov, R.
  3. Current Opinion in Pharmacology. 2010, Dec; 10(6): 715-722.
  1. 10.   Structural Model of the Pre-pore Ring-like Structure of Panton-Valentine Leukocidin: Providing Dimensionality to Biophysical and Mutational Data
  2. Aman, M. J.; Karauzum, H.; Bowden, M. G.; Nguyen, T. L.
  3. Journal of Biomolecular Structure & Dynamics. 2010, Aug; 28(1): 1-12.
  1. 11.   CCRXP: exploring clusters of conserved residues in protein structures
  2. Ahmad, S.; Keskin, O.; Mizuguchi, K.; Sarai, A.; Nussinov, R.
  3. Nucleic Acids Research. 2010, Jul; 38: W398-W401.
  1. 12.   Energetic determinants of protein binding specificity: Insights into protein interaction networks
  2. Carbonell, P.; Nussinov, R.; del Sol, A.
  3. Proteomics. 2009 9(7): 1744-1753.
  1. 13.   IC50-to-Ki: a web-based tool for converting IC50 to Ki values for inhibitors of enzyme activity and ligand binding
  2. Cer, R. Z.; Mudunuri, U.; Stephens, R.; Lebeda, F. J.
  3. Nucleic Acids Research. 2009 37(Web Server issue): W441-W445.
  1. 14.   Towards inferring time dimensionality in protein-protein interaction networks by integrating structures: the p53 example
  2. Tuncbag, N.; Kar, G.; Gursoy, A.; Keskin, O.; Nussinov, R.
  3. Molecular Biosystems. 2009 5(12): 1770-1778.
  1. 15.   Protein-DNA interactions: structural, thermodynamic and clustering patterns of conserved residues in DNA-binding proteins
  2. Ahmad, S.; Keskin, O.; Sarai, A.; Nussinov, R.
  3. Nucleic Acids Research. 2008 36(18): 5922-5932.
  1. 16.   Topological properties of protein interaction networks from a structural perspective
  2. Gursoy, A.; Keskin, O.; Nussinov, R.
  3. Biochemical Society Transactions. 2008 36: 1398-1403.
  1. 17.   Self-assembly and lipid interactions of diacylglycerol lactone derivatives studied at the air/water interface
  2. Philosof-Mazor, L.; Volinsky, R.; Comin, M. J.; Lewin, N. E.; Kedei, N.; Blumberg, P. M.; Marquez, V. E.; Jelinek, R.
  3. Langmuir. 2008 24(19): 11043-11052.
  1. 18.   MultiBind and MAPPIS: webservers for multiple alignment of protein 3D-binding sites and their interactions
  2. Shulman-Peleg, A.; Shatsky, M.; Nussinov, R.; Wolfson, H. J.
  3. Nucleic Acids Research. 2008 36: W260-W264.
  1. 19.   Structure and activity of Yersinia pestis 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase as a novel target for the development of antiplague therapeutics
  2. Blaszczyk, J.; Li, Y.; Cherry, S.; Alexandratos, J.; Wu, Y.; Shaw, G.; Tropea, J. E.; Waugh, D. S.; Yan, H. G.; Ji, X. H.
  3. Acta Crystallographica Section D-Biological Crystallography. 2007, Nov; 63: 1169-1177.
  1. 20.   Three-dimensional structure of yellow fluorescent protein zYFP538 from Zoanthus sp at the resolution 1.8 angstrom
  2. Pletneva, N. V.; Pletnev, S. V.; Chudakov, D. M.; Tikhonova, T. V.; Popov, V. O.; Martynov, V. I.; Wlodawer, A.; Dauter, Z.; Pletnev, V. Z.
  3. Russian Journal of Bioorganic Chemistry. 2007, Jul; 33(4): 390-398.
  1. 21.   Similar binding sites and different partners: Implications to shared proteins in cellular pathways
  2. Keskin, O.; Nussinov, R.
  3. Structure. 2007, Mar; 15(3): 341-354.
  1. 22.   Trp/Met/Phe hot spots in protein-protein interactions: Potential targets in drug design
  2. Ma, B.; Nussinov, R.
  3. Current Topics in Medicinal Chemistry. 2007 7(10): 999-1005.
  1. 23.   Towards drugs targeting multiple proteins in a systems biology approach
  2. Keskin, O.; Gursoy, A.; Ma, B.; Nussinov, R.
  3. Current Topics in Medicinal Chemistry. 2007 7(10): 943-951.
  1. 24.   Association of putative concave protein-binding sites with the fluctuation behavior of residues
  2. Ertekin, A.; Nussinov, R.; Haliloglu, T.
  3. Protein Science. 2006, Oct; 15(10): 2265-2277.
  1. 25.   Rap-GEF signaling controls stem cell anchoring to their niche through regulating DE-cadherin-mediated cell adhesion in the Drosophila testis
  2. Wang, H.; Singh, S. R.; Zheng, Z. Y.; Oh, S. W.; Chen, X.; Edwards, K.; Hou, S. X.
  3. Developmental Cell. 2006, JAN; 10(1): 117-126.
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