Publications

• A. Senitzki, J. Sapieh, V. Sharma, Y. Danin-Poleg , A. Inga A, and T.E. Haran (2021). “The complex architecture of p53 binding sites“. Nucleic Acids Research, Jan. 14
• A. Afek, H. Shi, A. Rangadurai, H. Sahay, A. Senitzki, S. Xhani, M. Fang, Z. Mielko, R. Salinas, M. Pufall, G. Poon, T.E. Haran, M.A. Schumacher, H.M. Al-Hashimi, and R. Gordan (2020). “DNA mismatches reveal widespread conformational penalties in protein-DNA recognition”. Nature, 587, 291-296
• D. Golovenko, B. Braeuning, P. Vyas, T. E. Haran, H. Rozenberg and Z. Shakked (2018). “New Insights into the Role of DNA Shape on Its Recognition by p53 Proteins”  Structure. 26(9):1237-1250 
• Vyas, I. Beno, Z. Xi, Y. Stein, D. Golovenko, N. Kessler, V. Rotter, Z. Shakked and T. E. Haran (2017). “Diverse p53/DNA binding modes expand the repertoire of p53 response elements”. PNAS 114, 10624-10629. 
• M. Zoabi, P. Nadar-Ponniah, H. Khoury-Haddad, M. Usaj, I. Budowski-Tal, T. E. Haran, A. Henn, Y. Mandel-Gutfreund and N. Ayoub (2014). “RNA-dependent chromatin localization of KDM4D lysine demethylase promotes H3K9me3 demethylation” Nucleic Acids Res. 42, 13026-13038. 
• J. J. Jordan, D. Menendez, J. Sharav, I. Beno, K. Rosenthal M. A. Resnick and T. E. Haran. (2012). “Low-level expression of p53 changes the rules of transactivation and reveals super-activating sequences“. PNAS 109, 14387–14392. 
• I. Beno, K. Rosenthal, M. Levitine, L. Shaulov, and T. E. Haran (2011). “Sequence-dependent cooperative binding of p53 to DNA targets and its relationship to the structural properties of the DNA targets” Nucleic Acids Res. 39, 1919–1932. 
• A. B. Cohanim and T. E. Haran (2009). “The coexistence of the nucleosome positioning code with the genetic code on eukaryotic genomes” Nucleic Acids Res. 37, 6466–6476.
• H. Faiger, M. Ivanckenko and T. E. Haran (2007). “Nearest-neighbor versus long-range non-additivity in TATA-box structure and its implications for TBP binding mechanism” Nucleic Acids Res. 35, 4409-4419.
• M. Kitayner, H. Rozenberg, N. Kessler, D. Rabinovich, L. Shaulov, T. E. Haran and Z. Shakked (2006). “Structural basis of DNA recognition by p53 tetramers” Molecular Cell 22, 741-753. 
• H. Faiger, M. Ivanchenko, I. Cohen and T.E. Haran (2006). “TBP flanking sequences: asymmetry of binding, long-range effects and consensus sequences” Nucleic Acids Res 34, 104-119.
• T. E. Haran, I. Cohen, A. Spassic . K. Yang, and U. Mohanty (2004). Characteristics of migration patterns of DNA oligomers in gels and its relationship to the question of intrinsic DNA bending. J. Amer. Chem. Soc. 126, 2372-2377.
• T. E. Haran, I. Cohen, A. Spassic . K. Yang, and U. Mohanty (2003). Dynamics of curved DNA molecules: prediction and experiment. J. Amer. Chem. Soc. 125,11160-11161. 
• A. Merling, N. Sagaydakova and T. E. Haran (2003). A-tract polarity dominate the curvature in flanking sequences. Biochemistry 42, 4978-4984.
• Z. Shakked, M. Yavnilovitch, A.J. Kalb (Gilboa), N. Kessler, R. Wolkowicz, V. Rotter and T.E. Haran (2002). DNA binding and 3′-5′ exonuclease activity in the murine alternatively-spliced p53 protein suggests an alternative structure and function Oncogene 21, 5117-5126. 
• A. Bareket-Samish, I. Cohen and T. E. Haran (2000). Signals for TBP/TATA box recognition. J. Mol. Biol. 299, 965-977.
• A. Bareket-Samish, I. Cohen and T. E. Haran (1998). Direct versus indirect readout in the interaction of the trp repressor with non-canonical binding sites J. Mol. Biol.  277, 1071-1080.
• T. E. Haran (1998). Statistical and Structural Analysis of trp Binding Sites: Comparison of Natural and In Vitro Selected Sequences. J. Biomolec. Struc. Dyn. 15, 689-701.
• A. Bareket-Samish, I. Cohen and T. E. Haran.(1997). Repressor assembly at trp binding sites is dependent on the identity of the intervening dinucleotide between the binding half sites. J. Mol. Biol. 267, 103-117.
• M. Shatzky-Schwartz, N. D. Arbuckle, M. Eisenstein, D. Rabinovich, A. Bareket-Samish, T. E. Haran, B. F. Luisi and Z. Shakked (1997). X-ray and solution studies of DNA oligomers and implications for the structural basis of A-tract-dependent curvature J. Mol. Biol. 267, 595-623.
• T. E. Haran, J. D. Kahn and D. M. Crothers (1994). Sequence elements responsible for DNA Curvature. J. Mol. Biol. 244, 135-143.
• A. Joachimiak, T. E. Haran and P. B. Sigler (1994). Mutagenesis support water mediated recognition in the trp repressor/operator system. EMBO J. 13, 367-372 (1994)
• T. E. Haran, A. Joachimiak and P. B. Sigler (1992). “The DNA target of the trp repressor“. EMBO J. 11, 3021-3030.
• T. E. Haran and D. M. Crothers (1989). “Cooperativity in A-tract structure and the bending properties of composite TnAn blocks”. Biochemistry  28, 2763-2767.
• T. E. Haran and D. M. Crothers (1988). “Phased psoralen cross links do not bend the DNA double helix”. Biochemistry 27, 6967-6971.
• M. Eisenstein, H. Hope, T. E. Haran, F. Frolow, Z. Shakked and D. Rabinovich (1988). “Low temperature study of the A-DNA fragment d(GGGCGCCC)”. Acta Cryst. B44, 625-628.
• D. Rabinovich, T. E. Haran, M. Eisenstein and Z. Shakked (1988). “The structure of the mismatched duplex d(GGGTGCCC) and one of its Watson-Crick analogs d(GGGCGCCC)”. J. Mol. Biol. 200, 151-161.
• T. E. Haran, Z. Shakked, A. H.-J. Wang and A. Rich (1987). “The crystal and molecular structure of d(CCCCGGGG): A new A-form variant with an extended backbone conformation”. J. Biomolec. Struc. Dynamics 5, 199-217.
• T. E. Haran, Z. Berkovitch-Yellin and Z. Shakked (1984). “Base-stacking interactions in double-helical DNA structures: Experiment versus theory”. J. Biomolec. Struct. Dynamics 2, 397-411.
• T. E. Haran, A. Nudelman and Z. Shakked (1983). “Structural studies of intermediates in antibiotic synthesis. II. The structures of methoxyiminomalonic acid and its methyl and benzhydryl derivatives”. Acta Cryst. B39, 438-444.
• T. E. Haran, A. Nudelman and Z. Shakked (1983). “Structural studies of intermediates in antibiotic synthesis I. The structures of penicillin sulfoxide rearrangement products: 2,3,5,6,-Tetrahydro-5-hydroxymethyl-6,6-dimethyl-1,3- dioxo-8-[(phenylacecyl)amino]-1H-imidazo[5,1-c][1,4] thiazine (I), C17H19N3O4S and 2,3,5,6,- Tetrahydro-5-hydroxymethyl-6,6-dimethyl-1,3-dioxo-8-[(phenylacecyl)amino]-1H-imidazo-[5,1-c][1,4] thiazine 5-carboxylic acid (II), C17H19N2O5S”. Acta Cryst. C39, 882-887.
• A. Nudelman, T. E. Haran and Z. Shakked (1981). “Rearrangement of Penicillin Sulfoxide II. Spectral data and X-ray crystallography of the novel imidazo-[5,1-c][1,4] thiamine ring system” .J. Org. Chem. 46, 3026-3029.

 

 

Reviews

• T. Stiewe and T. E. Haran (2018). “How mutations shape p53 interactions with the genome to promote tumorigenesis and drug resistance”. Drug resistance updateupdates, 38, 27-43. 
•  D. Menendez, M. A. Resnick, and T.E. Haran (2012). “Transactivation by low and high levels of human p53 reveals new physical rules of engagement and novel super-transactivation sequences”. Cell Cycle. 11, 4287–4288.
• T. E. Haran and U. Mohanty (2009). “The unique structure of A-tracts and intrinsic DNA bending”. Q. Rev. Biophys,42, 41–81.
• D. M. Crothers, T. E. Haran and J. G. Nadeau (1990). “Intrinsically bent DNA“. J. Biol. Chem. 265, 7093-7096.
• T. E. Haran and Z. Shakked (1988). “Sequence-dependent effects in A-DNA double helices”. J. Molec Struct. (Theochem) 179, 367-391.