Matching protein surface structural patches for high-resolution blind peptide docking

Authors: Khramushin, Alisa, Ben-Aharon, Ziv, Tsaban, Tomer, Varga, Julia K., Avraham, Orly, Schueler-Furman, Ora

Source: Proceedings of the National Academy of Sciences of the United States of America, 2022 May 01. 119(18), 1-10.

Access URL: https://www.jstor.org/stable/27151552

Structural insights into the role of the WW2 domain on tandem WW–PPxY motif interactions of oxidoreductase WWOX

Authors: Rotem-Bamberger, Shahar, Fahoum, Jamal, Keinan-Adamsky, Keren, Tsaban, Tomer, Avraham, Orly, Shalev, Deborah E., Chill, Jordan H., Schueler-Furman, Ora

Source: In Journal of Biological Chemistry August 2022 298(8)

Protein language models can capture protein quaternary state.

Authors: Avraham, Orly¹ (AUTHOR), Tsaban, Tomer¹ (AUTHOR), Ben-Aharon, Ziv¹ (AUTHOR), Tsaban, Linoy^2,3 (AUTHOR), Schueler-Furman, Ora¹ (AUTHOR) ora.furman-schueler@mail.huji.ac.il

Source: BMC Bioinformatics. 11/14/2023, Vol. 24 Issue 1, p1-18. 18p.

Subject Terms: *LANGUAGE models, *PROTEIN models, *DEEP learning, *AMINO acid sequence, *NATURAL language processing, *PROTEIN structure, *BRAIN function localization

Post-translational modifications reshape the antigenic landscape of the MHC I immunopeptidome in tumors.

Authors: Kacen, Assaf, Javitt, Aaron, Kramer, Matthias P., Morgenstern, David, Tsaban, Tomer, Shmueli, Merav D., Teo, Guo Ci, da Veiga Leprevost, Felipe, Barnea, Eilon, Yu, Fengchao, Admon, Arie, Eisenbach, Lea, Samuels, Yardena, Schueler-Furman, Ora, Levin, Yishai, Nesvizhskii, Alexey I., Merbl, Yifat

Source: Nature Biotechnology; Feb2023, Vol. 41 Issue 2, p239-251, 13p

Harnessing protein folding neural networks for peptide–protein docking.

Authors: Tsaban, Tomer, Varga, Julia K., Avraham, Orly, Ben-Aharon, Ziv, Khramushin, Alisa, Schueler-Furman, Ora

Source: Nature Communications; 1/10/2022, Vol. 13 Issue 1, p1-12, 12p

Subject Terms: MOLECULAR docking, PROTEIN structure prediction, PROTEIN folding, NERVE tissue proteins, PEPTIDES

Structural basis for UFM1 transfer from UBA5 to UFC1.

Authors: Kumar, Manoj, Padala, Prasanth, Fahoum, Jamal, Hassouna, Fouad, Tsaban, Tomer, Zoltsman, Guy, Banerjee, Sayanika, Cohen-Kfir, Einav, Dessau, Moshe, Rosenzweig, Rina, Isupov, Michail N., Schueler-Furman, Ora, Wiener, Reuven

Source: Nature Communications; 9/29/2021, Vol. 12 Issue 1, p1-13, 13p

Subject Terms: POST-translational modification, CRYSTAL structure, UBIQUITINATION