Crystallization, Structural Determination and Structure Modeling Publications

  1. Chaturvedi A. K., Dym O., Levin Y. & Fluhr R. (2024). PGR5-LIKE PHOTOSYNTHETIC PHENOTYPE1A redox states alleviate photoinhibition during changes in light intensity.  Plant Physiology. 2024 Jan 31 , 194 (2):1059-1074.
  2. Yeshaya N., Gupta P. K., Dym O., Morgenstern D., Major D. T. & Fass D. (2024). VWD domain stabilization by autocatalytic Asp-Pro cleavage.  Protein Science. 2024 Mar , 33 (3).
  3. Scheerer D., Adkar B. V., Bhattacharyya S., Levy D., Iljina M., Riven I., Dym O., Haran G. & Shakhnovich E. I. (2023). Allosteric communication between ligand binding domains modulates substrate inhibition in adenylate kinase.  Proceedings of the National Academy of Sciences - PNAS. 2023 May 2 , 120 (18).
  4. Dym O., Aggarwal N., Ashani Y., Leader H., Albeck S., Unger T., Hamer-Rogotner S., Silman I., Tawfik D. S. & Sussman J. L. (2023). The impact of molecular variants, crystallization conditions and the space group on ligand-protein complexes: a case study on bacterial phosphotriesterase.  Acta Crystallographica Section D: Structural Biology. 2023 Nov , 79 (Pt 11):992-1009.
  5. Shemi A., Ben-Dor S., Rotkopf R., Dym O. & Vardi A. (2023). Phylogeny and biogeography of the algal DMS-releasing enzyme in the global ocean.  ISME Communications. 2023 Jul 14 , 3 .
  6. Rezenman S., Knafo M., Tsigalnitski I., Barad S., Jona G., Levi D., Dym O., Reich Z. & Kapon R. (2023). gUMI-BEAR, a modular, unsupervised population barcoding method to track variants and evolution at high resolution.  PLoS ONE. 2023 Jun 7 , 18 (6):e0286696.
  7. Khmelnitsky L., Milo A., Dym O. & Fass D. (2023). Diversity of CysD domains in gel-forming mucins.  FEBS Journal. 2023 Aug 1 , .
  8. Pokorna S., Khersonsky O., Lipsh-Sokolik R., Goldenzweig A., Nielsen R., Ashani Y., Peleg Y., Unger T., Albeck S., Dym O., Tirosh A., Tarayra R., Hocquemiller M., Laufer R., Ben-Dor S., Silman I., Sussman J. L., Fleishman S. J. & Futerman A. H. (2023). Design of a stable human acid-β-glucosidase: towards improved Gaucher disease therapy and mutation classification.  FEBS Journal. 2023 Jul , 290 (13):3383-3399.
  9. Khersonsky O., Goldsmith M., Zaretsky I., Hamer-Rogotner S., Dym O., Unger T., Yona M., Fridmann-Sirkis Y. & Fleishman S. J. (2023). Stable Mammalian Serum Albumins Designed for Bacterial Expression.  Journal of Molecular Biology. 2023 Sept 1 , 435 (17).
  10. Gould N. L., Scherer G. R., Carvalho S., Shurrush K., Kayyal H., Edry E., Elkobi A., David O., Foqara M., Thakar D., Pavesi T., Sharma V., Walker M., Maitland M., Dym O., Albeck S., Peleg Y., Germain N., Babaev I., Sharir H., Lalzar M., Shklyar B., Hazut N., Khamaisy M., Lévesque M., Lajoie G., Avoli M., Amitai G., Lefker B., Subramanyam C., Shilton B., Barr H. & Rosenblum K. (2023). Specific quinone reductase 2 inhibitors reduce metabolic burden and reverse Alzheimers disease phenotype in mice.  Journal of Clinical Investigation. 2023 Oct 2 , 133 (19).
  11. Goldsmith M., Barad S., Peleg Y., Albeck S., Dym O., Brandis A., Mehlman T. & Reich Z. (2022). The identification and characterization of an oxalyl-CoA synthetase from grass pea ( Lathyrus sativus L.).  RSC Chemical Biology. 2022 Mar 9 , 3 (3):320-333.
  12. Allouche-Arnon H., Khersonsky O., Tirukoti N. D., Peleg Y., Dym O., Albeck S., Brandis A., Mehlman T., Avram L., Harris T., Yadav N. N., Fleishman S. J. & Bar-Shir A. (2022). Computationally designed dual-color MRI reporters for noninvasive imaging of transgene expression.  Nature biotechnology. 2022 Jul , 40 (7):1143-1149.
  13. Goldsmith M., Barad S., Knafo M., Savidor A., Ben-Dor S., Brandis A., Mehlman T., Peleg Y., Albeck S., Dym O., Ben-Zeev E., Barbole R. S., Aharoni A. & Reich Z. (2022). Identification and characterization of the key enzyme in the biosynthesis of the neurotoxin β-ODAP in grass pea.  The journal of Biological chemistry. 2022 May 1 , 298 (5).
  14. Saikia C., Altman-Gueta H., Dym O., Karbat I. & Reuveny E. (2022). Conkunitzin-C2 from Conus consors induces an incomplete block of the Shaker K+ channel using a unique mode of action.  Biophysical Journal. 2022 Feb 11 , 121 (3(1)):500a-500a.
  15. Zahradník J., Marciano S., Shemesh M., Zoler E., Harari D., Chiaravalli J., Meyer B., Rudich Y., Li C., Marton I., Dym O., Elad N., Lewis M., Andersen H., Gagne M., Seder R., Douek D. & Schreiber G. (2021). SARS-CoV-2 variant prediction and antiviral drug design are enabled by RBD in vitro evolution.  Nature Microbiology. 2021 Sept , 6 (9):1188-1198.
  16. Daniel E., Maksimainen M. M., Smith N., Ratas V., Biterova E., Murthy S. N., Tanvir Rahman M., Kiema T. R., Sridhar S., Cordara G., Dalwani S., Venkatesan R., Prilusky J., Dym O., Lehtio L., Kristian Koski M., Ashton A. W., Sussman J. L. & Wierenga R. K. (2021). IceBear: An intuitive and versatile web application for research-data tracking from crystallization experiment to PDB deposition.  Acta Crystallographica Section D: Structural Biology. 2021 Feb 1 , 77 (2):151-163.
  17. Peleg Y., Vincentelli R., Collins B. M., Chen K., Livingstone E. K., Weeratunga S., Leneva N., Guo Q., Remans K., Perez K., Bjerga G. E., Larsen Ø., Vaněk O., Skořepa O., Jacquemin S., Poterszman A., Kjaer S., Christodoulou E., Albeck S., Dym O., Ainbinder E., Unger T., Schuetz A., Matthes S., Bader M., de Marco A., Storici P., Semrau M. S., Stolt-Bergner P., Aigner C., Suppmann S., Goldenzweig A. & Fleishman S. J. (2021). Community-Wide Experimental Evaluation of the PROSS Stability-Design Method.  Journal of Molecular Biology. 2021 Jun 25 , 433 (13).
  18. Saikia C., Dym O., Altman-Gueta H., Gordon D., Reuveny E. & Karbat I. (2021). A Molecular Lid Mechanism of K+ Channel Blocker Action Revealed by a Cone Peptide.  Journal of Molecular Biology. 2021 Aug 20 , 433 (17).
  19. Mohan V., Gaffney J. P., Solomonov I., Levin M., Klepfish M., Akbareian S., Grünwald B., Dym O., Eisenstein M., Yu K. H., Kelsen D. P., Krüger A., Edwards D. R. & Sagi I. (2021). Conformation-specific inhibitory anti-mmp-7 monoclonal antibody sensitizes pancreatic ductal adenocarcinoma cells to chemotherapeutic cell kill.  Cancers. 2021 Apr 1 , 13 (7).
  20. Ben-David M., Soskine M., Dubovetskyi A., Cherukuri K., Dym O., Sussman J. L., Liao Q., Szeler K., Kamerlin S. C. L. & Tawfik D. S. (2020). Enzyme Evolution: An Epistatic Ratchet versus a Smooth Reversible Transition.  Molecular Biology and Evolution. 2020 Apr , 37 (4):1133-1147.