Crystallization, Structural Determination and Structure Modeling Publications

  1. Bednarczyk D., Dym O., Prabahar V., Peleg Y., Pike D. H. & Noy D. (2016). Fine Tuning of Chlorophyll Spectra by Protein-Induced Ring Deformation.  ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2016 Jun 6 , 55 (24):6901-6905.
  2. Udi Y., Grossman M., Solomonov I., Dym O., Rozenberg H., Moreno V., Cuniasse P., Dive V., Arroyo A. G. & Sagi I. (2015). Inhibition mechanism of membrane metalloprotease by an exosite-swiveling conformational antibody.  Structure. 2015 Jan 6 , 23 (1):104-115.
  3. Zimhony O., Schwarz A., Raitses-Gurevich M., Peleg Y., Dym O., Albeck S., Burstein Y. & Shakked Z. (2015). AcpM, the meromycolate extension Acyl carrier protein of mycobacterium tuberculosis, is activated by the 4-phosphopantetheinyl transferase PptT, a potential target of the multistep mycolic acid biosynthesis.  Biochemistry. 2015 Apr 14 , 54 (14):2360-2371.
  4. Sobolev V., Edelman M., Dym O., Unger T., Albeck S., Kirma M. & Galili G. (2013). Structure of ALD1, a plant-specific homologue of the universal diaminopimelate aminotransferase enzyme of lysine biosynthesis.  Acta Crystallographica Section F-Structural Biology And Crystallization Communications. 2013 Feb , 69 (2):84-89.
  5. Xu Y., Li M., Greenblatt H., Chen W., Paz A., Dym O., Peleg Y., Chen T., Shen X., He J., Jiang H., Silman I. & Sussman J. (2012). Flexibility of the flap in the active site of BACE1 as revealed by crystal structures and molecular dynamics simulations.  Acta Crystallographica Section D: Biological Crystallography. 2012 Jan , 68 (1):13-25.
  6. Khersonsky O., Kiss G., Röthlisberger D., Dym O., Albeck S., Houk K. N., Baker D. & Tawfik D. S. (2012). Bridging the gaps in design methodologies by evolutionary optimization of the stability and proficiency of designed Kemp eliminase KE59.  Proceedings of the National Academy of Sciences of the United States of America. 2012 Jun 26 , 109 (26):10358-10363.
  7. Sela-Passwell N. A., Kikkeri R., Dym O., Rozenberg H., Margalit R., Arad-Yellin R., Eisenstein M., Brenner O., Shoham T., Danon T., Shanzer A. & Sagi I. (2012). Antibodies targeting the catalytic zinc complex of activated matrix metalloproteinases show therapeutic potential.  Nature Medicine. 2012 Jan , 18 (1):143-147.
  8. Karanicolas J., Com J. E., Chen I., Joachimiak L. A., Dym O., Peck S. H., Albeck S., Unger T., Hu W., Liu G., Delbecq S., Montelione G. T., Spiegel C. P., Liu D. R. & Baker D. (2011). A De Novo Protein Binding Pair By Computational Design and Directed Evolution.  Molecular Cell. 2011 Apr 22 , 42 (2):250-260.
  9. Cohen S., Albeck S., Ben-Dov E., Cahan R., Firer M., Zaritsky A. & Dym O. (2011). Cyt1Aa toxin: Crystal structure reveals implications for its membrane-perforating function.  Journal of Molecular Biology. 2011 Nov 4 , 413 (4):804-814.
  10. Li M., Greenblatt H. M., Dym O., Albeck S., Pais A., Gunanathan C., Milstein D., Degani H. & Sussman J. (2011). Structure of estradiol metal chelate and estrogen receptor complex: The basis for designing a new class of selective estrogen receptor modulators.  Journal of Medicinal Chemistry. 2011 May 26 , 54 (10):3575-3580.
  11. Yadid I., Kirshenbaum N., Sharon M., Dym O. & Tawfik D. (2010). Metamorphic proteins mediate evolutionary transitions of structure.  Proceedings of the National Academy of Sciences of the United States of America. 2010 Apr 20 , 107 (16):7287-7292.
  12. Khersonsky O., Röthlisberger D., Dym O., Albeck S., Jackson C. J., Baker D. & Tawfik D. S. (2010). Evolutionary optimization of computationally designed enzymes: Kemp eliminases of the ke07 series.  Journal of Molecular Biology. 2010, 396 (4):1025-1042.
  13. Grossman M., Tworowski D., Dym O., Lee M., Levy Y., Murphy G. & Sagi I. (2010). The intrinsic protein flexibility of endogenous protease inhibitor TIMP-1 controls its binding interface and affects its function.  Biochemistry. 2010 Jul 27 , 49 (29):6184-6192.
  14. Unger T., Dym O., Albeck S., Jacobovitch Y., Bernehim R., Marom D., Pisanty O. & Breiman A. (2010). Crystal structure of the three FK506 binding protein domains of wheat FKBP73: evidence for a unique wFK73_2 domain.  Journal of Structural and Functional Genomics. 2010 Jun , 11 (2):113-23.
  15. Goihberg E., Peretz M., Tel-Or S., Dym O., Shimon L., Frolow F. & Burstein Y. (2010). Biochemical and structural properties of chimeras constructed by exchange of cofactor-binding domains in alcohol dehydrogenases from thermophilic and mesophilic microorganisms.  Biochemistry. 2010 Mar 9 , 49 (9):1943-1953.
  16. Levin K. B., Dym O., Albeck S., Magdassi S., Keeble A. H., Kleanthous C. & Tawfik D. (2009). Following evolutionary paths to protein-protein interactions with high affinity and selectivity.  Nature Structural & Molecular Biology. 2009 Oct , 16 (10):1049-U67.
  17. Dym O., Albeck S., Peleg Y., Schwarz A., Shakked Z., Burstein Y. & Zimhony O. (2009). Structure-Function Analysis of the Acyl Carrier Protein Synthase (AcpS) from Mycobacterium tuberculosis.  Journal of Molecular Biology. 2009 Nov 6 , 393 (4):937-950.
  18. Dym O., Albeck S., Unger T., Jacobovitch J., Branzburg A., Michael Y., Frenkiel-Krispin D., Wolf S. G. & Elbaum M. (2008). Crystal structure of the Agrobacterium virulence complex VirE1-VirE2 reveals a flexible protein that can accommodate different partners.  Proceedings of the National Academy of Sciences of the United States of America. 2008 Aug 12 , 105 (32):11170-11175.
  19. Albeck S., Dym O., Unger T., Snapir Z., Bercovich Z. & Kahana C. (2008). Crystallographic and biochemical studies revealing the structural basis for antizyme inhibitor function.  Protein Science. 2008 May , 17 (5):793-802.
  20. Cohen S., Dym O., Albeck S., Ben-Dov E., Cahan R., Firer M. & Zaritsky A. (2008). High-Resolution Crystal Structure of Activated Cyt2Ba Monomer from Bacillus thuringiensis subsp. israelensis.  Journal of Molecular Biology. 2008 Jul 25 , 380 (5):820-827.