Department of Biochemistry
Robinson Research Building
Room 868A
Vanderbilt University
School of Medicine
Nashville, Tennessee 37232-0146
Egli Laboratory
Biochemistry and X-ray Crystallography
Tel: 615.343.8070
Fax: 615.322.7122
martin.egli@vanderbilt.edu

Lab Members
Research
Publications
Open Positions

Publications

    291. J. Carvajal-Garcia, H. Bracey, A. Johnson, A. Hernandez Viera, M. Egli, E. Simsek, E. Jaremba, K. Kim and H. Merrikh* (2024) A Small Molecule that Inhibits the Evolution of Antibiotic Resistance. NAR Mol. Med., 1, 1-14. Download this article...

    290. T. Rachana, S. Li, M. Egli* and M. P. Stone* (2024) Replication Bypass of the N-(2-Deoxy-erythro-pentofuranosyl)-urea DNA Lesion by Human DNA Polymerase Eta. Biochemistry, 63, in press. Download this article...

    289. A. Das, A. Gosh, J. Kundu, M. Egli, M. Manoharan and S. Sinha* (2023) Synthesis and Biophysical Studies of High-Affinity Morpholino Oligomers Containing G-clamp Analogs. J. Org. Chem., 88, 15168-15175. Download this article...

    288. P. S. Pallan, T. P. Lybrand, E. Rozners, M. Abramov, G. Schepers, E. Eremeeva, P. Herdewijn and M. Egli* (2023) Conformational Morphing by a DNA Analog Featuring 7-Deazapurines and 5-Halogenpyrimidines and the Origins of Adenine-Tract Geometry. Biochemistry, 62, 2854-2867. Download this article...

    287. M. Egli* (2023) Robert Letsinger and the Evolution of Oligonucleotide Synthesis. ACS Omega, "Virtual Special Issue: Nucleic Acids, a 70th Anniversary Celebration of DNA", 8, 30222-30230. Download this article...

    286. R. Richie-Jannetta, P. S. Pallan, P. J. Kingsley, N. Kamdar, M. Egli and L. J. Marnett* (2023) The Peroxidation-Derived DNA Adduct, 6-oxo-M1dG, is a Strong Block to Replication by Human DNA Polymerase Eta. J. Biol. Chem., 299, 105067. Download this article...

    285. S. Matsuda, S. Bala, J.-Y. Liao, D. Datta, A. Mikami, L. Woods, J. M. Harp, J. A. Gilbert, A. Bisbe, R. M. Manoharan, M. Kim, C. S. Theile, D. C. Guenther, Y. Jiang, S. Agarwal, R. Maganti, M. Schlegel, I. Zlatev, K. Charisse, K. G. Rajeev, A. Castoreno, M. Maier, M. M. Janas, M. Egli, J. C. Chaput and M. Manoharan* (2023) Shorter is Better: The alpha-(L)-Threofuranosyl Nucleic Acid (TNA) Modification Improves Stability, Potency, Safety, and Ago2 Binding and Mitigates Off-Target Effects of Small Interfering RNAs. J. Am. Chem. Soc., 145, 19691-19706. Download this article...

    284. M.Egli* and S. Zhang* (2023) Making Sense of Helices: Right and Wrong Models in Science and Art. Mol. Front. J., 7, 1-11. Download this article...

    283. M. Egli* (2023) Becoming a Crystallographer. Mol. Front. J., 7, 1-15. Download this article...

    282. D. Datta, C. Theile, K. Wassarman, J. Qin, T. Racie, K. Schmidt, Y. Jiang, R. Sigel, M. Janas, M. Egli and M. Manoharan* (2023) Rational Optimization of siRNA to Ensure Strand Bias in the Interaction with the RNA-Induced Silencing Complex. Chem. Comm., 59, 6347-6350. Download this article...

    281. R. Tomar, I. Minko, P. Sharma, A.J. Kellum Jr., L. Lei, J. M. Harp, T. Iverson, R. S. Lloyd, M. Egli* and M. P. Stone* (2023) Base Excision Repair of the N-(2-Deoxy-D-erythro-pentofuranosyl)-urea Lesion by the hNEIL1 Glycosylase. Nucleic Acids Res., 51, 3754-3769. Download this article...

    280. M. Egli, M. K. Schlegel and M. Manoharan* (2023) Acyclic (S)-Glycol Nucleic Acid (S-GNA) Modification of siRNAs Improves the Safety of RNAi Therapeutics While Maintaining Potency. RNA, 29, 402-414. Download this article...

    279. M. Egli* and M. Manoharan* (2023) Chemistry, Structure and Function of Approved Oligonucleotide Therapeutics. Nucleic Acids Res., 51, 2529-2573. Download this article...

    278. A. Gosh, M. Akabane-Nakata, J. Kundu, J. M. Harp, M. Madaoui, M. Egli, M. Manoharan* and S. Sinha* (2023) Synthesis and Biophysical Properties of Phosphorodiamidate Piperidino Oligomers (PPOs). Org. Lett., 25, 901-906. Download this article...

    277. P. Kandasamy, S. Mori, S. Matsuda, N. Erande, D. Datta, J. L. S. Willoughby, N. Taneja, J. O'Shea, A. Bisbe, R. M. Manoharan, K. Yucius, T. Nguyen, R. Indrakanti, S. Gupta, J. A. Gilbert, T. Racie, A. Chan, J. Liu, R. Hutabarat, J. K. Nair, K. Charisse, M. A. Maier, K. G. Rajeev, M. Egli and M. Manoharan* (2023) Metabolically Stable Anomeric Linkages Containing GalNAc-siRNA Conjugates: An Interplay Among ASGPR, Glycosidase and RISC Pathways. J. Med. Chem., 65, 2506-2523. Download this article...

    276. M. Madaoui, D. Datta, K. Wassarman, I. Zlatev, M. Egli, B. S. Ross and M. Manoharan* (2022) A Chemical Approach to Introduce 2,6-Diaminopurine and 2-Aminoadenine Conjugates into Oligonucleotides Without Need for Protecting Groups. Org. Lett., 24, 6111-6116. Download this article...

    275. A. H. Kellum Jr., P. S. Pallan, A. Nilforoushan, S. J. Sturla, M. P. Stone and M. Egli* (2022) Conformation and Pairing Properties of an O6-Methyl-2'-deoxyguanosine-Directed Benzimidazole Nucleoside Analog in Duplex DNA. Chem. Res. Toxicol., 35, 1903-1913. Download this article...

    Available on June 24 2022:

    274. G. M. Blackburn, M. Egli, M. J. Gait and J. K. Watts (Editors) Nucleic Acids in Chemistry and Biology, 4th Edition, Royal Society of Chemistry, Cambridge, UK, 2022; ISBN: 978-1788019040. Purchase book here...


    The structure, function and reactions of nucleic acids are central to molecular biology and medicine, and are crucial for understanding the ever-expanding range of complex biological processes central to life. Revised, extended, updated and lavishly illustrated, this 4th Edition of Nucleic Acids in Chemistry and Biology is a long-awaited standard text for teaching and research in nucleic acids science. It maintains the close integration of chemistry and biology that characterized the three earlier editions while it embraces a major expansion strongly focused on the burgeoning growth of RNA science. Written by an international team of leading experts, all with extensive teaching experience, this 4th Edition provides up-to-date and extended coverage of the interface of chemistry and biology in the study of nucleic acids. A brief history of the discovery of nucleic acids leads into a molecule based introduction to the structure and biological roles of DNA and RNA. New chapters reflect progress in Non-coding RNA, Next Generation Sequencing, Nucleic Acid Therapeutics, in vitro Evolution and Aptamers. This new Edition maintains, expands, and updates its strong coverage of the reactions and interactions of RNA and DNA with enzymes, binding proteins and drugs, and therapeutic work directed to combat Covid-19. This new Edition presents topics in an integrated manner and readable style with full color illustrations throughout. It has a large list of citations that make it a definitive reference source. It is focused on introducing this subject to graduate and advanced undergraduate students of chemistry and biochemistry, biophysics and biotechnology, molecular biology and medicine. It will continue to be the 'Laboratory Bible' for new researchers to the field of nucleic acid science.

    273. J. M. Harp, T. P. Lybrand, P. S. Pallan, L. Coates, B. Sullivan and M. Egli* (2022) Cryo Neutron Crystallography Demonstrates Influence of RNA 2'-OH Orientation on Conformation, Sugar Pucker and Water Structure. Nucleic Acids Res., 50, 7721-7738. Download this article...

    272. S. Zhang* and M. Egli* (2022) Hiding in Plain Sight: Three Chemically Distinct alpha-Helix Types. Q. Rev. Biophys., 55, e7, 1-10. Download this article...

    271. M. K. Schlegel, M. M. Janas, Y. Jiang, J. D. Barry, W. Davis, S. Agarwal, D. Berman, C. R. Brown, A. Castoreno, S. LeBlanc, A. Liebow, T. Mayo, S. Milstein, T. Nguyen, S. Shulga-Morskaya, S. Hyde, S. Schofield, J. Szeto, L. Blair Woods, V. O. Yilmaz, M. Manoharan, M. Egli, K. Charisse, L. Sepp-Lorenzino, P. Haslett, K. Fitzgerald, V. Jadhav and M. A. Maier* (2022) From Bench to Bedside: Improving the Clinical Safety of GalNAc-siRNA Conjugates Using Seed-Pairing Destabilization. Nucleic Acids Res., 50, 6656-6670. Download this article...

    270. M. Egli* and S. Zhang (2022) Ned Seeman and the Prediction of Amino Acid-Basepair Motifs Mediating Protein-Nucleic Acid Recognition. Biophys. J. ("Ingenuity in Biophysics, Dedicated to Ned Seeman"), 121, 1-11. Download this article...

    269. D. Guenther, S. Mori, S. Matsuda, J. Gilbert, J. Willoughby, S. Hyde, A. Bisbe, Y. Jiang, S. Agarwal, M. Madaoui, M. Janas, K. Charisse, M. Maier, M. Egli and M. Manoharan* (2022) Role of a 'Magic' Methyl: 2'-Deoxy-2'-alpha-F-2'-beta-C-Methyl Pyrimidine Nucleotides Modulate RNA Interference Activity Through Synergy With 5'-Phosphate Mimics and Mitigation of Off-Target Effects. J. Am. Chem. Soc., 144, 14517-14534. Download this article...

    268. G. E. O. Borgstahl, W. B. O'Dell, M. Egli , J. F. Kern, A. Kovalevsky, J. Y. Y. Lin, D. Myles, M. A. Wilson, W. Zhang, P. Zwart and L. Coates* (2022) EWALD: A macromolecular diffractometer for the second target station. Rev. Sci. Instrum., 93, 064103. Download this article...

    267. M. Egli* and S. Zhang (2022) First Prediction of Sequence-Specific Recognition of Double-Helix Nucleic Acids by Proteins. Nature Rev. Mol. Cell Biol., 23, 166. Download this article...

    266. M. Egli* and S. Zhang (2022) How the alpha-Helix Got Its Name. Nature Rev. Mol. Cell Biol., 23, 165. Download this article...

    265. H. Jahns, N. Taneja, J. Willoughby, M. Akabane-Nakata, C. Brown, T. Nguyen, A. Bisbe, S. Matsuda, M. Hettinger, R. Manoharan, K. Rajeev, M. Maier, K. Charisse, I. Zlatev, M. Egli and M. Manoharan* (2022) Chirality Matters: Stereo-Defined Phosphorothioate Linkages at the Termini of Small Interfering RNAs Improve Pharmacology In Vivo. Nucleic Acids Res., 50, 1221-1240. Download this article...

    264. M. Akabane-Nakata, T. Chickering, J. M. Harp, M. K. Schlegel, S. Matsuda, M. Egli and M. Manoharan* (2022) RNAs Containing Carbocyclic Ribonucleotides (car-RNAs). Org. Lett., 24, 525-530. Download this article...

    263. M.Egli* and S. Zhang (2021) Remembering a Giant of Chemical Crystallography. Nature, 598, 32. Download this article...

    262. M. K. Schlegel*, S. Matsuda, C. R. Brown, J. M. Harp, J. D. Barry, D. Berman, A. Castoreno, S. Schofield, J. Szeto, M. Manoharan, K. Charisse, M. Egli and M. A. Maier (2021) Overcoming GNA/RNA Base-Pairing Limitations Using Isonucleotides Improves the Pharmacodynamic Activity of ESC+ GalNAc-siRNAs. Nucleic Acids Res., 49, 10851-10867. Download this article...

    261. H. Jahns, R. Deganokar, P. Podbevsek, S. Gupta, A. Bisbe, K. Aluri, J. Szeto, P. Kumar, S. LeBlanc, T. Racie, C. R. Brown, A. Castoreno, D. C. Guenther, V. Jadhav, M. A. Maier, J. Plavec, M. Egli, M. Manoharan* and I. Zlatev* (2021) Small Circular Interfering RNAs (sciRNAs) as a Potent Therapeutic Platform for Gene-Silencing. Nucleic Acids Res., 49, 10250-10264. Download this article...

    260. C. Liczner, K. Duke, G. Juneau, M. Egli* and C. J. Wilds* (2021) Beyond Ribose and Phosphate: Selected Nucleic Acid Modifications for Structure-Function Investigations and Therapeutic Applications. Beilstein J. Org. Chem., 17, 908-931. Download this article...

    259. P. P Ghodke, J. R. Mali, A. Patra, C. J. Rizzo, F. P. Guengerich and M. Egli* (2021) Enzymatic Bypass and the Structural Basis of Miscoding Opposite the DNA Adduct 1,N2-Ethenodeoxyguanosine by Human DNA Translesion Polymerase Eta. J. Biol. Chem., 296, 100642. Download this article...

    258. J. M. Harp., B. Sullivan, L. Coates and M. Egli* (2021) Water Structure Around a Left-Handed Z-DNA Fragment Analyzed by Cryo Neutron Crystallography. Nucleic Acids Res., 49, 4782-4792. Download this article...

    257. M. Akabane-Nakata, N. D. Erande, P. Kumar, R. Degaonkar, J. Gilbert, J. Qin, M. Mendez, S. Matsuda, L. B. Woods, Y. Jiang, M. Janas, D. O'Flaherty, I. Zlatev, M. Schlegel, M. Egli and M. Manoharan* (2021) siRNAs Containing 2'-Fluorinated Northern-Methanocarbacyclic (2'-F-NMC) Nucleotides: In Vitro and In Vivo RNAi Activity and Inability of Mitochondrial Polymerases to Incorporate 2'-F-NMC NTPs. Nucleic Acids Res., 49, 2435-2449. Download this article...

    256. B. Papke, S. Azam, A. Feng, C. Gutierrez-Ford, H. Huggins, P. S. Pallan, A. Van Swearingen, M. Egli, A. Cox and C. Pecot* (2021) Silencing of Oncogenic KRAS by Mutant-Selective Small Interfering RNA. ACS Pharmacol. Transl. Sci., 4, 703-712. Download this article...

    255. U. K Mishra, Y. Sanghvi, M. Egli and N. Ramesh* (2021) Supramolecular Architecture through Self-Organization of Janus-faced Homoazanucleosides. J. Org. Chem., 86, 367-378. Download this article...

    254. B. Schneider, I. Bruno, S. K. Burley, D. A. Case, J. Cerny, R. Das, M. Egli, P. Emsley, Z. Feng, M. Jaskolski, R. P. Joosten, C. L. Lawson, N. W. Moriarty, A. Mukhopadhyay, G. Murshudov, G. Parkinson, J. S. Richardson, O. V. Sobolev, B. Vallat, S. Velankar, E. Worden, I. N. Zheludev and H. M. Berman (2021) Nucleic Acid Valence Geometry Working Group (Special Report). IUCR NEWSLETTER, 28 (No. 4), 16. Download this article...

    253. P. S. Pallan, T. Lybrand, M. K. Schlegel, J. M. Harp, H. Jahns, M. Manoharan and M.Egli* (2020) Incorporation of a Thiophosphate Modification into a Common RNA Tetraloop Motif Causes an Unanticipated Stability Boost. Biochemistry, 59, 4627-4637. Download this article...

    252. A. Mikami, N. Erande, S. Matsuda, A. Kel'in, L. Woods, T. Chickering, P. S. Pallan, M. Schlegel, I. Zlatev, M. Egli* and M. Manoharan* (2020) Synthesis, Chirality-Dependent Conformational and Biological Properties of siRNAs Containing 5'-(R)- and 5'-(S)-C-Methyl-Guanosine. Nucleic Acids Res., 48, 10101-10024. Download this article...

    251. D. Jovanovic, P. Tremmel, P. S. Pallan, M. Egli* and C. Richert* (2020) The Enzyme-Free Release of Nucleotides from Phosphoramidates Depends Strongly on the Amino Acid. Angew. Chem. Int. Ed., 59, 20154-20160. Download this article...

    250. P. Kumar, R. Degaonkar, D. Guenther, G. Schepers, M. Abramov, M. Capobianco, Y. Jiang, J. Harp, C. Kaittanis, A. Castoreno, M. Janas, M. Schlegel, P. Herdewijn, I. Zlatev, M. Egli and M. Manoharan* (2020) Altritol-Nucleotide (ANA) Containing siRNA-GalNAc Conjugates: In Vitro and In Vivo RNAi Activity and Resistance to 5'-Exonuclease. Nucleic Acids Res., 48, 4028-4040. Download this article...

    249. I. G. Minko, V. L. Vartanian, N. N. Tozaki, E. Coskun, S. Hosbas Coskun, P. Jaruga, J. Yeo, S. S. David, M. P. Stone, M. Egli, M. Dizdaroglu, A. K. McCullough and R. S. Lloyd* (2019) Recognition of DNA Adducts by Edited and Unedited Forms of DNA Glycosylase NEIL1. DNA Repair, 85, 102741. Download this article...

    248. J. H. Sheehan, J. A. Smith, P. S. Pallan, T. P Lybrand and M. Egli* (2019) Molecular Dynamics Simulation of Homo-DNA: The Role of Crystal Packing in Duplex Conformation. Crystals, 9, 532. Download this article...

    247. I. G. Minko, V. L. Vartanian, N. N. Tozaki, O. K. Linde, P. Jaruga, S. Hosbas Coskun, E. Coskun, C. Qu, H. He, C. Xu, T. Chen, Q. Song, Y. Jiao, M. P. Stone, M. Egli, M. Dizdaroglu, A. K. McCullough and R. S. Lloyd* (2019) Characterization of Rare NEIL1 Variants Found in East Asian Populations. DNA Repair, 79, 32-39. Download this article...

    246. M. Egli* and M. Manoharan* (2019) Re-engineering RNA Molecules into Therapeutic Agents. Acc. Chem. Res., 52, 1036-1047. Download this article...

    245. P. Kumar, R. G. Parmar, C. R. Brown, J. L. S. Willoughby, D. J. Foster, R. I. Babu, S. Schofield, V. Jadhav, K. Charisse, J. K. Nair, K. G. Rajeev, M. A. Maier, M. Egli and M. Manoharan* (2019) 5'-Morpholino Modification of the Sense Strand in an siRNA Duplex Makes It a Real Passenger. Chem. Comm., 55, 5139-5142. Download this article...

    244. M. Akabane-Nakata, P. Kumar, R. Das, N. Erande, S. Matsuda, M. Egli and M. Manoharan* (2019) Synthesis and Biophysical Characterization of RNAs Containing 2'-Fluorinated Northern Methanocarbacyclic Nucleotides. Org. Lett., 21, 1963-1967. Download this article...

    243. Y. Su, P. P. Ghodke, M. Egli, L. Li, Y. Wang and F. P. Guengerich* (2019) Human DNA Polymerase Eta Has Reverse Transcriptase Activity in Cellular Environments. J. Biol. Chem., 294, 6073-6081. Download this article...

    242. M. Egli* and T. P. Lybrand* (2019) Enhanced Dispersion and Polarization Interactions Achieved through Dithiophosphate Group Incorporation Yield a Dramatic Binding Affinity Increase for an Aptamer-Thrombin Complex. J. Am. Chem. Soc., 141, 4445-4452. Download this article...

    241. M. Egli* (2018) Sugar Pucker and Nucleic Acid Structure. In: The Excitement of Discovery: Selected Papers of Alexander Rich. A Tribute to Alexander Rich (S. Zhang, Ed.). Series in Struct. Biol., Vol. 11, pp. 309-315, World Scientific Publishers. Download this article...

    240. M. Seo, L. Lei and M. Egli* (2019) Label-Free Electrophoretic Mobility Shift Assay (EMSA) for Measuring Dissociation Constants of Protein-RNA Complexes. Curr. Protoc. Nucleic Acid Chem., 76, e70. Download this article...

    239. J. Harp, D. Guenther, A. Bisbe, L. Perkins, S. Matsuda, G. Bommineni, I. Zlatev, D. Foster, N. Taneja, K. Charisse, M. Maier, K. Rajeev, M. Manoharan* and M. Egli* (2018) Structural Basis for the Synergy of 4'- and 2'-Modifications on siRNA Nuclease Resistance, Thermal Stability and RNAi Activity. Nucleic Acids Res., 46, 8090-8104. Download this article...

    238. J. Harp, L. Coates, B. Sullivan and M. Egli* (2018) Cryo-Neutron Crystallographic Data Collection and Preliminary Refinement of Left-Handed Z-DNA d(CGCGCG). Acta Cryst. F, 74, 603-609. Download this article...

    237. R. Dolot, C. H. Lam, M. Sierant, Q. Zhao, F.-W. Liu, B. Nawrot, M. Egli* and X. Yang* (2018) Crystal Structures of Thrombin in Complex with Chemically Modified Thrombin DNA Aptamers Reveal the Origins of Enhanced Affinity. Nucleic Acids Res., 46, 4819-4830. Download this article...

    236. R. Parmar, C. Brown, S. Matsuda, J. Willoughby, C. Theile, K. Charisse, D. J. Foster, I. Zlatev, V. Jadhav, M. Maier, M. Egli, M. Manoharan* and K. Rajeev* (2018) Facile Synthesis, Geometry and 2'-Substituent-Dependent In Vivo Activity of 5'-(E)- and 5'-(Z)-Vinylphosphonate-Modified siRNA Conjugates. J. Med. Chem., 61, 734-744. Download this article...

    235. T. Hardcastle, I. Novosjolova, V. Kotikam, S. Cheruiyot, D. Mutisya, S. Kennedy, M. Egli, M. Kelley, A. van Brabant Smith and E. Rozners* (2018) A Single Amide Linkage in the Passenger Strand Suppresses Its Activity and Enhances Guide Strand Targeting of siRNAs. ACS Chem. Biol., 13, 533-536. Download this article...

    234. E. Gonzalez, K. M. Johnson, P. S. Pallan, T. T. N. Phan, W. Zhang, L. Lei, Z. Wawrzak, F. K. Yoshimoto, M. Egli and F. P. Guengerich* (2018) Inherent Steroid 17alpha,20-Lyase Activity in Defunct Cytochrome P450 17A Enzymes. J. Biol. Chem., 293, 541-556. Download this article...

    233. Y. Su, M. Egli and F. P. Guengerich* (2017) Human DNA Polymerase Eta Accommodates RNA for Strand Extension. J. Biol. Chem., 292, 18044-18051. Download this article...

    232. E. Malek-Adamian, D. Guenther, S. Matsuda, S. Martinez-Montero, I. Zlatev, J. Harp, M. Burai Patrascu, D. J. Foster, J. Fakhoury, L. Perkins, N. Moitessier, R. Manoharan, N. Taneja, A. Bisbe, K. Charisse, M. Maier, K. Rajeev, M. Egli, M. Manoharan* and M. Damha* (2017) 4'-C-Methoxy-2'-Deoxy-2'-Fluoro Modified Ribonucleotides Improve Metabolic Stability and Elicit Efficient RNAi-Mediated Gene Silencing. J. Am. Chem. Soc., 139, 14542-14555. Download this article...

    231. X. Yang*, N. D. Abeydeera, F.-W. Liu and M. Egli* (2017) Origins of the Enhanced Affinity of RNA-Protein Interactions Triggered by RNA Phosphorodithioate Backbone Modification. Chem. Comm., 53, 10508-10511. Download this article...

    230. J. P. Peters, E. A. Kowal, P. S. Pallan, M. Egli and L. J. Maher III* (2017) Comparative Analysis of Inosine-Substituted Duplex DNA by Circular Dichroism and X-ray Crystallography. J. Biomol. Struct. Dyn., 35, 1-20. Download this article....

    229. D. Mutisya, T. Hardcastle, S. Cheruiyot, P. S. Pallan, S. D. Kennedy, M. Egli, M. Kelly, A. Smith and E. Rozners* (2017) Amide Linkages Mimic Phosphates in RNA Interactions with Proteins and are well Tolerated in the Guide Strand of Short Interfering RNAs. Nucleic Acids Res., 45, 8142-8155. Download this article...

    228. M. Schlegel*, D. J. Foster, A. Kel'in, I. Zlatev, A. Bisbe, M. Jayaraman, J. Lackey, K. Rajeev, K. Charisse, J. Harp, P. S. Pallan, M. Maier, M. Egli and M. Manoharan* (2017) Chirality Dependent Potency Enhancement and Structural Impact of Glycol Nucleic Acid Modification on siRNA. J. Am. Chem. Soc., 139, 8537-8546. Download this article...

    227. C. Wang, P. S. Pallan, W. Zhang, L. Lei, F. K. Yoshimoto, M. R. Waterman, M. Egli* and F. P. Guengerich* (2017) Functional Analysis of Human Cytochrome P450 21A2 Variants Involved in Congenital Adrenal Hyperplasia. J. Biol. Chem., 292, 10767-10778. Download this article...

    226. M. Egli* (2017) Architecture and Mechanism of the Central Gear in an Ancient Molecular Timer. J. R. Soc. Interface, 14, 1-9. Download this article...

    225. W. Xu, D. Kool, D.K. O'Flaherty, A. M. Keating, L. Sacre, M. Egli, A. Noronha, C. J. Wilds and L. Zhao* (2016) O6-2'Deoxyguanosine-butylene-O6-2'-deoxyguanosine DNA Interstrand Cross-Links are Replication-Blocking and Mutagenic DNA Lesions. Chem. Res. Toxicol., 29, 1872-1882. Download this article...

    224. A. Patra, Q. Zhang, F. P Guengerich* and M. Egli* (2016) Mechanisms of Insertion of dCTP and dTTP Opposite the DNA Lesion O6-Methyl-2'-deoxyguanosine by Human DNA Polymerase Eta. J. Biol. Chem., 291, 24304-24313. Download this article...

    223. J. Harp*, P. S. Pallan and M. Egli* (2016) Phosphorus SAD Phasing for Nucleic Acid Structures: Limitations and Potential. Crystals, 6, 125. Download this article...

    222. P. S. Pallan, T. P. Prakash, A. R. de Leon and M. Egli* (2016) Limits of RNA 2'-OH Mimicry by Fluorine: Crystal Structure of Bacillus halodurans RNase H Bound to a 2'F-RNA:DNA Hybrid. Biochemistry, 55, 5321-5325. Download this article...

    221. J. Y. Choi, A. Patra, M. Yeom, Y. S. Lee, Q. Zhang, M. Egli and F. P. Guengerich* (2016) Kinetic And Structural Impact of Metal Ions and Genetic Variations on Human Polymerase Iota. J. Biol. Chem., 291, 21063-21073. Download this article...

    220. X. Lou, M. Egli and X. Yang* (2016) Determining Functional Aptamer-Protein Interaction by Biolayer Interferometry. Curr. Protoc. Nucleic Acid Chem., 67, 7.25.1-7.25.14. Download this article...

    219. A. Patra, D. A. Politica, A. Chatterjee, E. J. Tokarsky, Z. Suo, A. Basu, M. P. Stone* and M. Egli* (2016) Mechanism of Error-Free Bypass of the Environmental Carcinogen N-(2'-Deoxyguanosin-8-yl)-3-aminobenzanthrone Adduct by Human DNA Polymerase Eta. ChemBioChem, 17, 2033-2037. Download this article...

    218. N. D. Abeydeera, M. Egli*, N. Cox, K. Mercier, J. N. Conde, P. S. Pallan, D. M. Mizurini, M. Sierant, F.-E. Hibti, T. Hassell, T. Wang, F.-W. Liu, H.-M. Liu, C. Martinez, A. K. Sood, T. P. Lybrand, C. Frydman, R. Q. Monteiro, R. H. Gomer, B. Nawrot and X. Yang* (2016) Evoking Picomolar Binding in RNA by a Single Phosphorodithioate Linkage. Nucleic Acids Res., 44, 8052-8064. Download this article...

    217. I. Anosova, E. A. Kowal, N. J. Sisco, S. Sau, J. Liao, S. Bala, E. Rozners, M. Egli, J. C. Chaput and W. D. Van Horn* (2016) Structural Insights Into Conformational Differences Between TNA/DNA and TNA/RNA Chimeric Duplexes. ChemBioChem, 17, 1705-1708. Download this article...

    216. A. Patra, Y. Su, Q. Zhang, K. M. Johnson, F. P. Guengerich* and M. Egli* (2016) Structural and Kinetic Analysis of Miscoding Opposite the DNA Adduct 1,N6-Ethenodeoxyadenosine by Human Translesion DNA Polymerase Eta. J. Biol. Chem., 291, 14134-14145. Download this article...

    215. F. P. Guengerich*, M. R. Waterman and M. Egli* (2016) Recent Structural Insights into Cytochrome P450 Function. Trends Pharmacolog. Sci., 37, 625-640. Download this article...

    214. D. K. O'Flaherty, A. Patra, Y. Su, F. P. Guengerich, M. Egli* and C. J. Wilds* (2016) Lesion Orientation of O4-Alkylthymidine Influences Replication by Human Polymerase Eta. Chemical Science, 7, 4896-4904. Download this article...

    213. M. Egli* (2016) Diffraction Techniques in Structural Biology. Curr. Protoc. Nucleic Acid Chem., 65, 17.13.1-7.13.41. Download this article...

    212. A. Kel'in, I. Zlatev, J. Harp., M. Jayaraman, A. Bisbe, J. O'Shea, N. Taneja, R. M. Manoharan, S. Khan, K. Charisse, M. A. Maier, M. Egli, K. G. Rajeev* and M. Manoharan* (2016) Structural Basis of Duplex Thermodynamic Stability and Enhanced Nuclease Resistance of 5'-Methyl Pyrimidine-modified Oligonucleotides. J. Org. Chem., 81, 2261-2279. Download this article...

    211. Y. Su, M. Egli and F. P. Guengerich* (2016) Mechanism of Ribonucleotide Incorporation by Human DNA Polymerase Eta. J. Biol. Chem., 291, 3747-3756. Download this article...

    210. I. Zlatev, D. J. Foster, J. Liu, K. Charisse, B. Brigham, R. G. Parmar, V. Jadhav, M. A. Maier, K. G. Rajeev, M. Egli and M. Manoharan* (2016) 5'-C-Malonyl RNA: small interfering RNAs modified with 5'-monophosphate bioisostere demonstrate gene silencing activity. ACS Chem. Biol., 11, 953-960. Download this article...

    209. D. K. O'Flaherty, F. P. Guengerich, M. Egli* and C. J. Wilds* (2015) Backbone Flexibility Influences Nucleotide Incorporation by Human Translesion DNA Polymerase eta Opposite Intrastrand Cross-Linked DNA. Biochemistry, 54, 7449-7456. Download this article...

    208. I. Anosova, E. A. Kowal, M. R. Dunn, J. C. Chaput*, W. D. van Horn* and M. Egli* (2016) The Structural Diversity of Artificial Genetic Polymers. Nucleic Acids Res., 44, 1007-1021. Download his article...

    207. L. Lei and M. Egli* (2016) In situ Proteolysis for Crystallization of Membrane Bound Cytochrome P450 17A1 and 17A2 Proteins from Zebrafish. Curr. Protoc. Protein Sci., 84, 29.16.1-29.16.19. Download this article...

    206. E. Rozners*, D. S. Pilch and M. Egli* (2015) Calorimetry of Nucleic Acids. Curr. Protoc. Nucleic Acid Chem., 63, 7.4.1-7.4.12. Download this article...

    205. R. Pattanayek and M. Egli* (2015) Protein-Protein Interactions in the Cyanobacterial Circadian Clock: Structure of KaiA Dimer in Complex with C-Terminal KaiC Peptides at 2.8 Angstrom Resolution. Biochemistry, 54, 4575-4578. Download this article...

    204. P. S. Pallan, L. Lei, C. Wang, M. R. Waterman, F. P. Guengerich and M. Egli* (2015) Correlating Human Cytochrome P450 21A2 Crystal Structure and Phenotypes of Mutations in Congenital Adrenal Hyperplasia. Molecular Endocrinology, 29, 1375-1384. Download this article...

    203. A. Patra, S. Banerjee, T. Johnson Salyard, C. Malik, P. Christov, C. J. Rizzo, M. P. Stone* and M. Egli* (2015) Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase Eta and Sulfolobus solfataricus P2 Polymerase IV (Dpo4). J. Am. Chem. Soc., 137, 7011-7014. Download this article...

    202. Y. Su, A. Patra, J. Harp, M. Egli and F. Peter Guengerich* (2015) Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine. J. Biol. Chem., 290, 15921-15933. Download this article...

    201. P. S. Pallan, C. Wang, L. Lei, F. K. Yoshimoto, R. J. Auchus, M. R. Waterman, F. P. Guengerich* and M. Egli* (2015) Human Cytochrome P450 21A2, the Major Steroid 21-Hydroxylase: Structure of the Enzyme-Progesterone Substrate Complex and Rate-Limiting C-H Bond Cleavage. J. Biol. Chem., 290, 13128-13143. Download this article...

    200. A. Patra, Q. Zhang, L. Lei, Y. Su, M. Egli* and F. Peter Guengerich* (2015) Structural and Kinetic Analysis of Nucleoside Triphosphate Incorporation Opposite an Abasic Site by Human Translesion DNA Polymerase Eta. J. Biol. Chem., 290, 8028-8038. Download this article...

    199. M. W. Szulik, P. S. Pallan, B. Nocek, M. Voehler, S. Banerjee, S. Brooks, A. Joachimiak, M. Egli, B. Eichman and M. P. Stone* (2015) Differential Stabilities and Sequence-Dependent Base Pair Opening Dynamics of Watson-Crick Base Pairs with 5-Hydroxymethylcytosine, 5-Formylcytosine, or 5-Carboxylcytosine. Biochemistry, 54, 1294-1305. Download this article...

    198. P. S. Pallan, L. D. Nagy, L. Lei, E. Gonzalez, V. M. Kramlinger, C. M. Azumaya, Z. Wawrzak, M. R. Waterman, F. P. Guengerich* and M. Egli* (2015) Structural and Kinetic Basis of Steroid 17a,20-Lyase Activity in Teleost Fish Cytochrome P450 17A1 and Its Absence in Cytochrome P450 17A2. J. Biol. Chem., 290, 3248-3268. Download this article...

    197. M. Egli* and C. H. Johnson* (2015) Biochemistry that Times the Day. Perspective to the Current Topic Collection of Circadian Clock papers. Biochemistry, 54, 104-109. Download this article... Contributions by A. Sancar et al. (Circadian clock, cancer and chemotherapy), S. Kojima and C. B. Green (Circadian genomics reveals a role for post-transcriptional regulation in mammals), C. L. Gustafson and C. L. Partch (Emerging models for the molecular basis of mammalian circadian timing), J. Cha, M. Zhou and Y. Liu (The mechanism of the Neurospora circadian clock, a frequency-centric view), J. S. Shim and T. Imaizumi (The circadian clock and photoperiodic response in Arabidopsis: from seasonal flowering to redox homeostasis), Z. B. Noordally and A. Millar (Clocks in algae), and N. Hoyle and J. O'Neill (Oxidation-reduction cycles of peroxiredoxin proteins and non-transcriptional aspects of timekeeping).

    196. M. Egli* (2015) Structural and Biophysical Methods to Analyze Clock Function and Mechanism. Methods in Enzymology (A. Seghal, Ed.), Vol. 551, pp. 223-266, Elsevier, Kidlington, Oxford, UK. Download this article...

    195. F. P. Guengerich*, L. Zhao, M. G. Pence and M. Egli (2015) Structure and Function of Translesion DNA Polymerases and Interactions with Damaged DNA. Proceedings of the Beilstein ESCEC Symposium 2013 - Celebrating the 100th Anniversary of Michaelis-Menten Kinetics (M. Hicks and C. Kettner, Eds.), Beilstein-Institut zur Förderung der Chemischen Wissenschaften, Frankfurt, Germany, Vol. 4, 24-31. Download this article...

    194. M. Egli* and P. S. Pallan (2015) Generating Crystallographic Models of DNA Dodecamers From Structures of RNase H:DNA Complexes. In: Nucleic Acid Crystallography: Methods and Protocols, Methods in Molecular Biology, Vol. 1320 (E. Ennifar, Ed.), Humana Press, Springer Science and Business Media, New York, NY, chapter 8, 111-126. Download this article...

    193. P. S. Pallan, X. Yang*, M. Sierant, N. Dinuka Abeydeera, T. Hassell, C. Martinez, M. Janicka, B. Nawrot and M. Egli* (2014) Crystal Structure, Stability and Ago2 Affinity of Phosphorodithioate-Modified RNAs. RSC Advances, 4, 64901-64904. Download this article...

    192. M. Egli* (2014) Intricate Protein-Protein Interactions in the Cyanobacterial Circadian Clock. J. Biol. Chem., 289, 21267-21275. Download this article...

    191. A. Patra, L. D. Nagy, Q. Zhang, Y. Su, L. Müller, F. P. Guengerich and M. Egli* (2014) Kinetics, Structure and Mechanism of 8-Oxo-7,8-dihydro-2'-deoxyguanosine Bypass by Human DNA Polymerase Eta. J. Biol. Chem., 289, 16867-16882. Download this article...

    190. D. Mutisya, C. Selvam, B. Lunstad, P. S. Pallan, A. Haas, D. Leake, M. Egli* and E. Rozners* (2014) Amides Are Excellent Mimics of Phosphate Internucleoside Linkages and Are Well Tolerated in Short Interfering RNAs. Nucleic Acids Res., 42, 6542-6551. Download this article...

    189. S. Y. Wu, X. Yang*, K. Gharpure, H. Hatakeyama, M. Egli, M. McGuire, A. S. Nagaraja, T. Miyake, R. Rupaimoole, C. V. Pecot, M. Taylor, S. Pradeep, M. Sierant, C. Rodriguez-Aguayo, H. J. Choi, R. A. Previs, G. N. Armaiz-Pena, L Huang, C. Martinez, T. Hassell, C. Ivan, V. Sehgal, R. Singhania, H.-D. Han, C. Su, J.-H. Kim, H. Dalton, C. Kowali, K. Keyomarsi, N. A. J. McMillan, W. W. Overwijk, J. Liu, J.-S. Lee, K. Baggerly, G. Lopez-Berestein, P. Ram, B. Nawrot and A. K. Sood* (2014) Evoking Potent RNAi Response in Cancer Using Novel 2’-OMe-Phosphorodithioated Modified siRNAs. Nature Communications 5, 3459. Download this article...

    188. R. Pattanayek, Y. Xu, A. Lamichhane, C. H. Johnson and M. Egli* (2014) An Arginine Tetrad as Mediator of Input-Dependent and -Independent ATPases in the Clock Protein KaiC. Acta Cryst. D 70, 1375-1390. Download this article...

    187. C. H. Johnson* and M. Egli (2014). Metabolic Compensation and Circadian Resilience in Prokaryotic Cyanobacteria. Annu Rev. Biochem. 83, 221-247. Download this article...

    186. S. A. Villarreal, R. Pattanayek, D. R. Williams, T. Mori, X. Qin, C. H. Johnson, M. Egli and P. L. Stewart* (2013) CryoEM and Molecular Dynamics of the Circadian KaiB–KaiC Complex Indicates KaiB Monomers Interact with KaiC and Block ATP Binding Clefts. J. Mol. Biol., 425, 3311-3324. Download this article...

    185. G. Shanmugam, I. G. Minko, S. Banerjee, P. P. Christov, I. D. Kozekov, C. J. Rizzo, R. S. Lloyd, M. Egli and M. P. Stone* (2013) Ring-Opening of the Gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA polymerase Dpo4. Chem. Res. Toxicol., 26, 1348-1360. Download this article...

    184. M. Egli* and C. H. Johnson* (2013) A Circadian Clock Nanomachine that Runs Without Transcription or Translation. Curr. Opin. Neurobiol. 23, 732-740. Download this article...

    183. R. Pattanayek, K. K. Yadagirib, M. D. Ohi and M. Egli* (2013) Nature of KaiB-KaiC Binding in the Cyanobacterial Circadian Oscillator. Cell Cycle 12, 810 - 817. Download this article...

    182. E. A. Kowal, R. Lad, P. S. Pallan, E. Muffly, Z. Wawrzak, M. Egli, S. Sturla and M. P. Stone* (2013) Recognition of O6-Benzyl-2'-deoxyguanosine by a Perimidinone-Derived Synthetic Nucleoside: A Unique DNA Interstrand Stacking Interaction. Nucleic Acids Res., 41, 7566-7576. Download this article...

    181. M. Egli*, R. Pattanayek, J. H. Sheehan, Y. Xu, T. Mori, J. A. Smith, and C. H. Johnson (2013) Loop-Loop Interactions Regulate KaiA-Stimulated KaiC Phosphorylation in the Cyanobacterial KaiABC Circadian Clock. Biochemistry 52, 1208 - 1220. Download this article...

    180. A. Ketkar, M. K. Zafar, L. Maddukuri, K. Yamanaka, S. Banerjee, M. Egli, J.-Y. Choi, R. S. Lloyd and R. L. Eoff* (2013) The Leukotriene Biosynthesis Inhibitor MK886 Impedes DNA Polymerase Activity. Chem. Res. Toxicol. 26, 221 - 232. Download this article...

    179. A. Patra, J. Harp, P. S. Pallan, L. Zhao, M. Abramov, P. Herdewijn and M. Egli* (2013) Structure, Stability and Function of 5-Chlorouracil Modified A:U and G:U Base Pairs. Nucleic Acids Res. 41, 2689 - 2697. Download this article...

    178. P. P. Seth*, P. S. Pallan, E. E. Swayze and M. Egli (2013) Synthesis, Duplex Stabilizing and Structural Properties of a Fluorinated Carbocyclic LNA Analog. ChemBioChem, 14, 58-62. Download this article...

    177. A. Ketkar, M. K. Zafar, V. E. Marquez, S. Banerjee, M. Egli and R. L. Eoff* (2012) Differential Furanose Selection in the Active Sites of Archaeal DNA Polymerases Probed by Fixed-Conformation Nucleotide Analogues. Biochemistry 51, 9234 - 9244. Download this article...

    176. R. Pattanayek, S. K. Sidiqi and M. Egli* (2012) Crystal Structure of the Redox-Active Cofactor DBMIB Bound to Circadian Clock Protein KaiA and Structural Basis for DBMIB’s Ability to Prevent Stimulation of KaiC Phosphorylation by KaiA. Biochemistry, 51, 8050 - 8052. Download this article...

    175. A. Patra, M. Paolillo, K. Charisse, M. Manoharan, E. Rozners* and M. Egli* (2012) 2′-Fluoro RNA Shows Increased Watson-Crick H-Bonding Strength and Stacking relative to RNA: Evidence from NMR and Thermodynamic Data. Angew. Chem. 51, 11863 - 11866. Download this article...

    174. L. Zhao, M. G. Pence, P. P. Christov, Z. Wawrzak, J.-Y. Choi, C. J. Rizzo, M, Egli and F. P. Guengerich* (2012) Basis of Miscoding of the DNA Adduct N2,3-Ethenoguanine by Human Y-family DNA Polymerases. J. Biol. Chem. 287, 35516 - 35526. Download this article...

    173. K. Yamanaka, D. Dorjsuren, R. L. Eoff, M. Egli, D. J. Maloney, A. Jadhav, A. Simeonov, and R. S. Lloyd* (2012) A Comprehensive Strategy to Discover Inhibitors of the Translesion Synthesis DNA Polymerase Kappa. PLoS ONE 7, e45032. Download this article...

    172. A. Ketkar, M. K. Zafar, S. Banerjee, V. E. Marquez, M. Egli and R. L. Eoff* (2012) Conformationally Restrained North-Methanocarba-2′-deoxyadenosine Corrects the Error-Prone Nature of Human DNA Polymerase Iota. J. Am. Chem. Soc. 134, 10698-10705. Download this article...

    171. P. P. Seth, J. Yu, A. Jazayeri, P. S. Pallan, C. R. Allerson, M. E. Oestergaard, F. Liu, P. Herdewijn, M. Egli and E. E. Swayze* (2012) Synthesis and Antisense Properties of Fluoro Cyclohexenyl Nucleic Acid (F-CeNA) – A Nuclease Stable Mimic of 2'-Fluoro RNA. J. Org. Chem. 77, 5074 - 5085. Download this article...

    170. P. S. Pallan, C. R. Allerson, A. Berdeja, P. P. Seth, E. E. Swayze, T. P. Prakash and M. Egli* (2012) Structure and Nuclease Resistance of 2′,4′-Constrained 2′-O-Methoxyethyl (cMOE) and 2′-O-Ethyl (cEt) Modified DNAs. Chem. Comm., 2012, 48, 8195-8197. Download this article...

    169. M. Egli* (2012) The Steric Hypothesis for DNA Replication and Fluorine Hydrogen Bonding Revisited in Light of Structural Data. Acc. Chem. Res. 45, 1237-1246. Download this article

    168. M. Egli* and P. Herdewijn (Editors) Chemistry and Biology of Artificial Nucleic Acids, Wiley-VCH Publishers, Weinheim, Germany, 2012; ISBN: 978-3-90639-067-3. Purchase book here...


    This is the first book to provide a comprehensive overview of the field of artificial nucleic acids. Covering a tremendous amount of literature on the chemistry, biology and structure of artificial nucleic acids, it will constitute an invaluable source of information for the specialist and for young researchers interested in starting a career in this fascinating field of research alike. The book combines the contributions of many of the major players in this research field, and covers the synthesis of sugar, base- and backbone-modified nucleic acids, their structural characteristics studied by X-ray crystallography and NMR in solution as well as their chemical and biological properties.

    167. P. S. Pallan, V. E. Marquez and M. Egli* (2012) The Conformationally Constrained N-Methanocarba-dT Analog Adopts an Unexpected C4′-exo Sugar Pucker in the Structure of a DNA Hairpin. Biochemistry, 51, 2639-2641. Download this article...

    166. L. Zhao, P. P. Christov, I. D. Kozekov, M. G. Pence, P. S. Pallan, C. J. Rizzo, M. Egli and F. P. Guengerich* (2012) Replication of N2,3-Ethenoguanine by DNA Polymerases. Angew. Chem. Int. Ed. 51, 5466-5469. Download this article...

    165. M. Egli*, T. Mori, R. Pattanayek, Y. Xu, X. Qin and C. H. Johnson (2012) Dephosphorylation of the Core Clock Protein KaiC in the Cyanobacterial KaiABC Circadian Oscillator Proceeds via an ATP Synthase Mechanism. Biochemistry 51, 1547-1558. Download this article...

    164. S. Banerjee, P. Christov, A. Kozekova, C. J. Rizzo, M. Egli and M. P. Stone (2012) Replication Bypass of the trans-4-Hydroxynonenal-Derived (6S,8R,11S)-1,N2-Deoxyguanosine DNA Adduct by the Sulfolobus solfataricus DNA polymerase. Chem. Res. Toxicol. 25, 422-435. Download this article...

    163. P. S. Pallan, J. Yu, C. R. Allerson, E. E. Swayze, P. Seth* and M. Egli* (2012) Insights from Crystal Structures into the Opposite Effects on RNA Affinity by the S- and R-6′-Methyl Backbone Modifications of 3′-Fluoro Hexitol Nucleic Acid (FHNA). Biochemistry, 51, 7-9. Download this article...

    162. E. Kowal, M. Ganguly, P. S. Pallan, L. Marky, B. Gold, M. Egli* and M. P. Stone* (2011) Altering the Electrostatic Potential in the Major Groove: Thermodynamic and Structural Characterization of 7-Deaza-2'-deoxyadenosine•dT Base Pairing in DNA. J. Phys. Chem. B 115, 13925-13934. Download this article...

    161. M. Egli*, P. S. Pallan, C. Allerson, T. Prakash, A. Berdeja, J. Yu, S. Lee, A. Watt, H. Gaus, B. Bhat, E. Swayze and P. Seth* (2011) Synthesis, Improved Antisense Activity and Structural Rationale for the Divergent RNA Affinities of 3′-Fluoro Hexitol Nucleic Acid (FHNA and Ara-FHNA) Modified Oligonucleotides. J. Am. Chem. Soc. 133, 16442-16449. Download this article...

    160. R. Pattanayek, D. R. Williams, G. Rossi, S. Weigand, T. Mori, C. H. Johnson, P. L. Stewart and M. Egli* (2011) Combined SAXS/EM Based Models of the S. elongatus Post-Translational Circadian Oscillator and its Interactions with the Output His-Kinase SasA. PLoS ONE 6, e23697. Download this article...

    159. M. P. Stone*, S. Banerjee, K. L. Brown and M. Egli (2011) Chemistry and Biology of Aflatoxin-DNA Adducts. In: Frontiers of Nucleic Acids (R. D. Sheardy & S. A. Winkle, Eds.), ACS Symposium Series, Vol. 1082, Chapter 9, pp. 147-166, American Chemical Society, Washington, D.C. Download this chapter...

    158. S. Banerjee, K. L. Brown, M. Egli and M. P. Stone* (2011) Bypass of Aflatoxin B1 Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J. Am. Chem. Soc. 133, 12556-12568. Download this article...

    157. X. Jiang and M. Egli* (2011) Use of Chromophoric Ligands to Visually Screen Co-crystals of Putative Protein-Nucleic Acid Complexes. Curr. Protoc. in Nucleic Acid Chem. 46, 7.15.1 - 7.15.8. Download this article...

    156. C. H. Johnson*, P. L. Stewart and M. Egli (2011) The Cyanobacterial Circadian System: From Biophysics to Bioevolution. Annu. Rev. Biophys., 40, 143-167. Download this article...

    155. P. S. Pallan, E. Greene, P. Jicman, R. Pandey, M. Manoharan, E. Rozners* and M. Egli* (2011) Unexpected Origins of the Enhanced Pairing Affinity of 2′-Fluoro-modified. RNA. Nucleic Acids Res., 39, 3482-3495. Download this article...

    154. M. Manoharan*, A. Akinc, R. K. Pandey, J. Qin, P. Hadwiger, M. John, K. Mills, K. Charisse, M. A. Maier, L. Nechev, E. M. Greene, P. S. Pallan, E. Rozners, K. G. Rajeev and M. Egli* (2011) Unique Gene-silencing and Structural Properties of 2'-F Modified siRNAs. Angew. Chem. Int. Ed. 50, 2284-2288. Download this article...

    153. M. G. Pence, J.-Y. Choi, M. Egli and F. P. Guengerich* (2010) Structural Basis for Proficient Incorporation of dTTP Opposite O6-Methylguanine by Human DNA Polymerase iota. J. Biol. Chem. 285, 40666-40672. Download this article...

    152. P. Seth, C. Allerson, A. Berdeja, A. Siwkowski, P. S. Pallan, H. Gaus, T. Prakash, A. Watt, M. Egli and E. Swayze* (2010) An Exocyclic Methylene Group Acts As A Bio-isostere of the 2’-Oxygen Atom in LNA. J. Am. Chem. Soc. 132, 14942-14950. Download this article...

    151. A. Irimia, L. V. Loukachevitch, R. L. Eoff, F. P. Guengerich and M. Egli* (2010) Metal Ion Dependence of the Active Site Conformation of the Trans-lesion DNA Polymerase Dpo4 from Sulfolobus solfataricus. Acta Cryst. Sect. F 66, 1013-1018. Download this article...

    150. R. L. Eoff., C. E. McGrath, L. Maddukuri, S. G. Salamanca-Pinzón, V. E. Marquez, L. J. Marnett, F. P. Guengerich and M. Egli* (2010) Selective Modulation of DNA Polymerase Activity by Fixed Conformation Nucleoside Analogues. Angew. Chem. Int. Ed. 49, 7481-7485. Download this article...

    149. M. Egli* (2010) Diffraction Techniques in Structural Biology. Curr. Protoc. in Nucleic Acid Chem. 41, 7.13.1 - 7.13.35. Download this article...

    148. R. L. Eoff, M. Egli and F. P. Guengerich* (2010) Impact of Chemical Adducts on Translesion Synthesis in Replicative and Bypass Polymerases: From Structure to Kinetics. In: The Chemical Biology of DNA Damage (N. E. Geacintov and S. Broyde, Eds.), Wiley-VCH, Weinheim, Germany, 299-330. Download this chapter...

    147. M. Egli* and P. S. Pallan (2010) The Many Twists and Turns of DNA: Template, Telomere, Tool and Target. Curr. Opin. Struct. Biol. 20, 262-275. Download this article...

    146. M. Egli* and P. S. Pallan (2010) Crystallographic Studies of Chemically Modified Nucleic Acids: A Backward Glance. Chemistry & Biodiversity 7, 60-89. Download this article...

    145. R. Pattanayek, T. Mori, Y. Xu, S. Pattanayek, C. H. Johnson and M. Egli* (2009) Structures of KaiC Circadian Clock Mutant Proteins: A New Phosphorylation Site at T426 and Mechanisms of Kinase, ATPase and Phosphatase. PLoS ONE 4, e7529. Download this article...

    144. Y. Xu, T. Mori, X. Qin, H. Yan, M. Egli and C. H. Johnson* (2009) Intramolecular Regulation of Phosphorylation Status of the Circadian Clock Protein KaiC. PLoS ONE 4, e7509. Download this article...

    143. A. Kolarovic, E. Schweizer, E. Greene, M. Gironda, P. S. Pallan, M. Egli and E. Rozners* (2009) Interplay of Structure, Hydration and Thermal Stability in Formacetal Modified Oligonucleotides: RNA May Tolerate Nonionic Modifications Better than DNA. J. Am. Chem. Soc. 131, 14932-14937. Download this article...

    142. M. Egli (2009) On Stacking. In: Structure and Function (P. Comba, Ed.), Springer Publishers, Heidelberg, Germany, 177-196. Download this chapter...

    141. P. S. Pallan and M. Egli* (2009) The Pairing Geometry of the Hydrophobic Thymine Analog 2,4-Difluorotoluene in Duplex DNA as Analyzed by X-ray Crystallography. J. Am. Chem. Soc. 131, 12548-12549. Download this article...

    140. A. Irimia, R. L. Eoff, F. P. Guengerich and M. Egli* (2009) Structural and Functional Elucidation of the Mechanism Promoting Error-prone Synthesis by Human DNA Polymerase kappa Opposite the 7,8-Dihydro-8-oxo-2’-deoxyguanosine Adduct. J. Biol. Chem. 284, 22467-22480. Download this article...

    139. R. L. Eoff, J. Stafford, J. Szekely, C. J. Rizzo, M. Egli, F. P. Guengerich and L. J. Marnett* (2009) Structural and Functional Analysis of Sulfolobus solfataricus Y-family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-deoxyguanosine Adduct. Biochem. 48, 7079-7088. Download this article...

    138. H. Zhang, R. L. Eoff, I. D. Kozekov, C. J. Rizzo, M. Egli and F. P. Guengerich* (2009) Structure-Function Relationships in Miscoding by Sulfolobus solfataricus DNA Polymerase Dpo4. Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes. J. Biol. Chem. 284, 17687-17699. Download this article...

    137. P. S. Pallan, T. P. Prakash, F. Li, R. L. Eoff, M. Manoharan and M. Egli (2009) A Conformational Transition in the Structure of a 2'-Thiomethyl-Modified DNA Visualized at High Resolution. Chem. Comm., DOI:10.1039/B822781K, 2017-2019. Download this article...

    136. H. Zhang, R. L. Eoff, I. D. Kozekoff, C. J. Rizzo, M. Egli and F. P. Guengerich* (2009) Versatility of Y-Family Sulfolobus solfataricus DNA Polymerase Dpo4 in Translesion Synthesis Past Bulky N2-Alkyl Guanine Adducts. J. Biol. Chem., 284, 3563-3576. Download this article, Download our accepted cover page

    135. M. Egli* and P. L. Stewart (2009) Structural Aspects of the Cyanobacterial KaiABC Circadian Clock. In: Bacterial Circadian Programs (J. L. Ditty, S. R. Mackey and C. H. Johnson, Eds.), Springer Publishers Inc., Heidelberg, Germany, pp. 121-140. Download this chapter...

    134. C. H. Johnson*, M. Egli and P. L. Stewart (2008) Structural Insights into a Circadian Oscillator. Science (Wash. DC), 322, 697-701. Download this article...

    133. P. S. Pallan, C. Kreutz, S. Bosio, R. Micura and M. Egli* (2008) Effects of N2,N2-Dimethylguanosine on RNA Structure and Stability: Crystal Structure of an RNA Duplex with Tandem m22G:A Pairs. RNA 14, 2125-2135. Download this article..., Download the erratum...

    132. P. S. Pallan and M. Egli* (2008) Insights into RNA/DNA Hybrid Recognition and Processing by RNase H from the Crystal Structure of a Non-specific Enzyme-dsDNA Complex. Cell Cycle 7, 2562-2569. Download this article....

    131. Y. Wang, S. Musser, S. Saleh, L. J. Marnett, M. Egli and M. P. Stone* (2008) Insertion of dNTPs Opposite the 1,N2-Propanodeoxyguanosine Adduct by the Sulfolobus solfataricus P2 DNA Polymerase IV. Biochemistry 47, 7322-7334. Download this article...

    130. R. Pattanayek, D. R. Williams, S. Pattanayek, T. Mori, C. H. Johnson, P. L. Stewart and M. Egli* (2008) Structural Model of the Circadian Clock KaiB-KaiC Complex and Mechanism for Modulation of KaiC Phosphorylation. EMBO J. 27, 1767-1778. Download this article...

    129. F. Wang, F. Li, M. Ganguly, L. A. Marky, B. Gold, M. Egli and M. P. Stone* (2008) A Bridging Water Anchors the Tethered 5-(3-aminopropyl)-2-Deoxyuridine Amine in the DNA Major Groove Proximate to the N+2 C:G Base Pair: Implications for Formation of Interstrand 5'-GNC-3' Cross-links by Nitrogen Mustards. Biochemistry 47, 7147-7157. Download this article...

    128. P. S. Pallan, D. Ittig, A. Heroux, Z. Wawrzak, C. J. Leumann, and M. Egli* (2008) Crystal Structure of Tricyclo-DNA: An Unusual Compensatory Change of Two Adjacent Backbone Torsion Angles. Chem. Comm., 883-885. Download this article...

    127. Adriana Irimia, Robert L. Eoff, P. S. Pallan, F. Peter Guengerich, and M. Egli* (2007) Structure and Activity of Y-class DNA Polymerase Dpo4 from Sulfolobus solfataricus with Templates Containing the Hydrophobic Thymine Analog 2,4-Difluorotoluene. J. Biol. Chem., 282, 36421-36433. Download this article...

    126. F. Li, P. S. Pallan, M. A. Maier, K. G. Rajeev, S. L. Mathieu, C. Kreutz, Y. Fan, J. Sanghvi, R. Micura, E. Rozners, M. Manoharan and M. Egli* (2007) Crystal Structure, Stability and in vitro RNAi Activity of Oligoribonucleotides Containing the Ribo-difluorotoluyl Nucleotide: Insights into Substrate Requirements by the Human RISC Ago2 Enzyme. Nucleic Acids Res., 35, 6424-6438. Download this article...

    125. P. S. Pallan, P. Lubini, M. Bolli and M. Egli* (2007) Backbone-Base Inclination as a Fundamental Determinant of Nucleic Acid Self- and Cross-Pairing. Nucleic Acids Res., 35, 6611-6624. Download this article...

    124. R. L. Eoff, A. Irimia, K. C. Angel, M. Egli and F. P. Guengerich* (2007) Hydrogen Bonding of 7,8-Dihydro-8-oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus solfataricus DNA Polymerase Dpo4. J. Biol. Chem., 282, 19831-19843. Download this article...

    123. R. L. Eoff, K. C. Angel, M. Egli, and F. P. Guengerich* (2007). Molecular Basis of Selectivity of Nucleoside Triphosphate Incorporation Opposite O6-Benzylguanine by Sulfolobus solfataricus DNA Polymerase Dpo4: Steady-state and pre-steady-state kinetics and x-ray crystallography of correct and incorrect pairing. J. Biol. Chem., 282, 13573-13584. Download this article...

    122. P. S. Pallan and M. Egli* (2007) Selenium modification of nucleic acids. Preparation of oligonucleotides with incorporated 2'-SeMe-uridine for crystallographic phasing of nucleic acid structures. Nature Protocols, 2, 647-651. Download this article...

    121. P. S. Pallan and M. Egli* (2007) Selenium modification of nucleic acids. Preparation of phosphoroselenoate derivatives for crystallographic phasing of nucleic acid structures. Nature Protocols, 2, 640-646. Download this article...

    120. M. Egli* and P. S. Pallan (2007) Insights from Crystallographic Studies into the Structural and Pairing Properties of Nucleic Acid Analogs and Chemically Modified DNA and RNA Oligonucleotides. Annu. Rev. Biophys. Biomol. Struct., 36, 281-305. Download this article...

    119. M. Egli*, R. Pattanayek and S. Pattanayek (2007) Protein-Protein Interactions in the Cyanobacterial KaiABC Circadian Clock. In: Models, Mysteries and Magic of Molecules; Proceedings of the INDABA-5 Conference, Kruger National Park, South Africa, August 20-25, 2006, J. C. A. Boeyens, J. F. Ogilvie, Eds., Springer Publishers, Dordrecht, The Netherlands, 283-299. Download this chapter...

    118. T. Mori, D. R. Williams, M. Byrne, X. Qin, M. Egli, H. Mchaourab, P. L. Stewart, C. H. Johnson* (2007) Elucidating the Ticking of an In Vitro Circadian Clockwork. PLOS Biol., 5, No. 4, e93 doi:10.1371/journal.pbio.0050093. Download this article...

    117. P. S. Pallan, P. Lubini and M. Egli* (2007) A Left-Handed Supramolecular Assembly Around a Right-Handed Screw Axis in the Crystal Structure of Homo-DNA. Chem. Commun., 1447-1449. Download this article...

    116. M. Egli* and S. Sarkhel (2007) Lone Pair-Aromatic Interactions: to Stabilize or Not to Stabilize. Acc. Chem. Res., 40, 197-205. Download this article...

    115. Z. Luka, S. Pakhomova, L. V. Loukachevitch, M. Egli, M. E. Newcomer and C. Wagner* (2007) Five-methyltetrahydrofolate is Bound in Intersubunits Areas of Rat Liver Folate Binding Protein, Glycine N-methyltransferase. J. Biol. Chem., 4069-4075. Download this article...

    114. L. V. Loukachevitch and M. Egli* (2007) Crystallization and Preliminary X-ray Analysis of Escherichia coli RNase HI-dsRNA Complexes. Acta. Cryst. Sect. F 63, 84-88. Download this article...

    113. R. L. Eoff, A. Irimia, M. Egli and F. P. Guengerich* (2007) Sulfolobus solftataricus DNA polymerase Dpo4 is inhibited by wobble pairing between O6-methylguanine and cytosine but accurate bypass is preferred. J. Biol. Chem. 282, 1456-1467. Download this article...

    112. M. Egli*, P. Lubini and P. S. Pallan (2007) The Long and Winding Road to the Structure of Homo-DNA. Chem. Soc. Rev 36, 31-45. Download this article...

    111. M. Egli*, P. S. Pallan, R. Pattanayek, C. J. Wilds, P. Lubini, G. Minasov, M. Dobler, C. J. Leumann and A. Eschenmoser (2006) Crystal Structure of Homo-DNA and Nature's Choice of Pentose over Hexose in the Genetic System. J. Am. Chem. Soc. 128(33), 10847-10856. Download this article...

    110. P. S. Pallan, P. von Matt, C. J. Wilds, K.-H. Altmann and M. Egli* (2006) RNA-Binding Affinities and Crystal Structure of Oligonucleotides containing Five-Atom Amide-Based Backbone Structures. Biochemistry 45, 8048-8057. Download this article...

    109. M. Egli*(2006) DNA and RNA Structure. Chapter 2 in: Nucleic Acids in Chemistry and Biology (G. M. Blackburn, M. J. Gait, J. A. Grasby, D. Loakes & D. M. Williams, Eds.), Royal Society of Chemistry, Cambridge, UK, pp. 13-75. Download the chapter or Download chapter figures...

    108. R. Pattanayek, D. R. Williams, S. Pattanayek, Y. Xu, T. Mori, C. H. Johnson, P. L. Stewart and M. Egli* (2006) Analysis of KaiA-KaiC Protein Interactions in the Cyanobacterial Circadian Clock Using Hybrid Structural Methods EMBO J. 25, 2017-2028. Download this article...

    107. J. Xia, A. Noronha, I. Toudjarska, F. Li, A. Akinc, R. Braich, K. G. Rajeev, M. Egli and M. Manoharan (2006) siRNAs with a Ribo-difluorotoluyl Nucleotide: Structure, RISC-mediated Recognition, and Silencing. ACS Chem. Biol. 1, 176-183. Download this article...

    106. A. Irimia, H. Zang, L. V. Loukachevitch, F. P. Guengerich and M. Egli* (2006) Calcium is a Cofactor of Polymerization but Inhibits Pyrophosphorolysis by the Sulfolobus solfataricus DNA Polymerase Dpo4. Biochemistry 45, 5949-5956. Download this article...

    105. F. Li, S. Sarkhel, C. J. Wilds, Z. Wawrzak, T. P. Prakash, M. Manoharan and M. Egli* (2006) 2'-Fluoroarabino- and Arabinonucleic Acid Show Different Conformations, Resulting in Deviating RNA Affinities and Processing of Their Heteroduplexes with RNA by RNase H. Biochemistry 45, 4141-4152. Download this article...

    104. H. Zang, A. Irimia, J.-Y. Choi, K. C. Angel, L. V. Loukachevitch, M. Egli and F. P. Guengerich (2006) Efficient and High Fidelity Incorporation of dCTP Opposite 7,8-Dihydro-8-oxodeoxyguanosine by Sulfolobus solfataricus DNA Polymerase Dpo4. J. Biol. Chem. 281, 2358-2372. Download this article...

    103. B. Diop-Frimpong, T. P. Prakash, K. G. Rajeev, M. Manoharan and M. Egli* (2005) Crystal Structure of a DNA Duplex with 2'-O-[2-methoxy)ethyl]-2-thiothymidines: Stabilizing Contributions of the Sulfur-Modified Nucleotides. Nucleic Acids Res. 33, 5297-5307. Download this article...

    102. P. S. Pallan, W. S. Marshall, J. Harp, F. C. Jewett III, Z. Wawrzak, B. A. Brown II, A. Rich, and M. Egli* (2005) Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Frameshifting Motif. Biochemistry, Accel. Publ., 44, 11315-11322. Download this article...

    101. P. Haeberli, I. Berger, P. S. Pallan, and M. Egli* (2005) Syntheses of 4'-thioribonucleosides and thermodynamic stability and crystal structure of RNA oligomers with incorporated 4'-thiocytosine. Nucleic Acids Res. 33, 3965-3975. Download this article...

    100. H. Zang, A. K. Goodenough, J.-Y. Choi, A. Irimia, L. V. Loukachevitch, I. D. Kozekov, K. C. Angel, C. J. Rizzo, M. Egli*, and F. Peter Guengerich* (2005) DNA Adduct Bypass Polymerization by Sulfolobus solfataricus DNA Polymerase Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine. J. Biol. Chem. 280, 29750-29764. Download this article...

    99. M. Egli*, G. Minasov, V. Tereshko, P. S. Pallan, M. Teplova, G. B. Inamati, E. A. Lesnik, S. R. Owens, B. S. Ross, T. P. Prakash and M. Manoharan* (2005) Comprehensive Analysis of the RNA Affinity, Nuclease Resistance and Crystal Structure of Ten 2'-O-Ribonucleic Acid Modifications. Biochemistry 44, 9045-9057. Download this article...

    98. R. Pattanayek, L. Sethaphong, C. Pan, M. Prhavc, T. P. Prakash, M. Manoharan, and M. Egli* (2004) Structural Rationalization of a Large Difference in RNA Affinity Despite a Small Difference in Chemistry Between Two 2'-O-Modified Nucleic Acid Analogs. J. Am. Chem. Soc., Vol. 126 Issue 46, Nov., 15006-7. Download this article...

    97. M. Egli* and V. Tereshko (2004) Lattice- and Sequence-Dependent Binding of Mg2+ in the Crystal Structure of a B-DNA Dodecamer. In: Curvature and Deformation of Nucleic Acids: Recent Advances, New Paradigms (N. Stellwagen & U. Mohanty, Eds), ACS Symposium Series, Vol. 884, 87-109. Download this article...

    96. M. Egli* (2004) Nucleic Acid Crystallography. Current Progress. Curr. Opin. Chem. Biol, Vol. 8 Issue 6, Dec., 580-91. Download this article...

    95. Y. Xu, T. Mori, R. Pattanayek, S. Pattanayek, M. Egli* and C. H. Johnson* (2004) Identification of Key Phosphorylation Sites in the Circadian Clock Protein KaiC by Crystallographic and Mutagenetic Analyses. Proc. Natl. Acad. Sci. U.S.A. 101, 13933-8. Download this article...

    94. M. Egli (2004) "Deoxyribo Nanonucleic Acid": Antiparallel, Parallel and Unparalleled. Chem. & Biol. 11, 1027-1035. Download this article...

    93. R. Pattanayek, J. Wang, T. Mori, X. Yu, C. H. Johnson* and M. Egli* (2004) Visualizing a Circadian Clock Protein: Crystal Structure of KaiC and Functional Insights. Molecular Cell 15, 375-388. Download this article...

    92. C. H. Johnson* and M. Egli* (2004) Visualizing a Biological Clockwork's Cogs. Nature Struct. Molec. Biol. 11, 584-585. Download this article...

    91. T. P. Prakash, A. Püeschl, E. Lesnik, V. Tereshko and M. Egli* and M. Manoharan* (2004) 2'-O-[2-(Guanidinium)ethyl]-5-methyluridine Modified Oligonucleotides: Synthesis and Stabilizing Effect on Duplex and Triplex Nucleic Acid Structures. Organic Lett. 6, 1971-1974. Download this article...

    90. P. S. Pallan, C. J. Wilds, Z. Wawrzak, R. Krishnamurthy, A. Eschenmoser and M. Egli* (2003) Why Does TNA Pair More Strongly with RNA than with DNA? - An Answer from X-ray Analysis. Angew. Chem. Int. Ed. 115, 5893-5895. Download this article...

    89. A. V. Velentza, M. S. Wainwright, M. Zasadzki, S. Mirzoeva, J. Haiech, P. J. Focia, M. Egli and D. M. Watterson* (2003) An Aminopyridazine Inhibitor of Death Associated Protein Kinase Attenuates Hypoxia-Ischemia Induced Brain Damage. Bioorg. Med. Chem. Lett. 13, 3465-3470. Download this article...

    88. M. Egli*, V. Tereshko, G. N. Murshudov, R. Sanishvili, X. Liu and F. D. Lewis (2003) Face-to-face and Edge-to-face Pi-Pi Interactions in a Synthetic DNA with a Stilbenediether Linker. J. Am. Chem. Soc. 125, 10842-10849. Download this article...

    87. S. Sarkhel, A. Rich and M. Egli* (2003) Water-Nucleobase "Stacking": H-Pi and Lone Pair-Pi Interactions in the Atomic Resolution Crystal Structure of an RNA Pseudoknot. J. Am. Chem. Soc. 125, 8998-8999. Download this article...

    86. M. Egli*, S. Sarkhel, G. Minasov and A. Rich* (2003) Structure and Function of the Ribosomal Frameshifting Pseudoknot RNA from Beet Western Yellow Virus. Helv. Chim. Acta ("Festschrift Jack D. Dunitz") 86, 1709-1727. Download this article...

    85. C. J. Wilds, M. A. Maier, M. Manoharan* and M. Egli* (2003) Structural Basis for Recognition of Guanosine by a Synthetic Tricyclic Cytosine Analogue: Guanidinium G-Clamp. Helv. Chim. Acta ("Festschrift Jack D. Dunitz") 86, 966-978. Download this article...

    84. M. Prhavc, T. P. Prakash, G. Minasov, M. Egli* and M. Manoharan* (2003) 2'-O-{2-[2-(N,N-Dimethylamino)ethoxy]ethyl} Modified Antisense Oligonucleotides: Symbiosis of Charge Interaction Factors and Stereoelectronic Effects. Organic Lett. 5, 2017-2020. Download this article...

    83. C. J. Wilds, R. Pattanayek, C. Pan, Z. Wawrzak and M. Egli* (2002) Selenium-Assisted Nucleic Acid Crystallography: Use of DNA Phosphoroselenoates for MAD Phasing. J. Am. Chem. Soc. 124, 14910-14916. Download this article...

    82. T. P. Prakash, M. Manoharan*, A. S. Fraser, A. M. Kawasaki, E. Lesnik, N. Sioufi, J. M. Leeds, M. Teplova, and M. Egli (2002) 2'-O-[2-(Methylthio)ethyl]-Modified Oligonucleotide: An Analog of 2'-O-[2-(Methoxy)ethyl]-Modified Oligonucleotide with Improved Protein Binding Properties and High Binding Affinity to Target RNA. Biochemistry 41, 11642-11648. Download this article...

    81. C. J. Wilds, Z. Wawrzak, R. Krishnamurthy, A. Eschenmoser and M. Egli* (2002) Crystal Structure of a B-form DNA Duplex Containing (L)-alpha-Threofuranosyl (3'-2') Nucleosides (TNA): A Simple Four Carbon Sugar is Easily Accommodated into the Backbone of DNA. J. Am. Chem. Soc. 124, 13716-13721. Download this article...

    80. M. Teplova, C. J. Wilds, Z. Wawrzak, V. Tereshko, Q. Du, N. Carrasco, Z. Huang and M. Egli* (2002) Covalent Incorporation of Selenium Into Oligonucleotides for X-ray Crystal Structure Determination via MAD: Proof of Principle. Biochimie 84, 849-858. Download this article...

    79. M. Egli* (2002) DNA-Cation Interactions: Quo Vadis? Chemistry& Biology 9, 277-286. Download this article...

    78. M. Egli*, G. Minasov, L. Su and A. Rich* (2002) Metal Ion Coordination and Conformational Flexibility in a Viral RNA Pseudoknot at Atomic Resolution. Proc. Natl. Acad. Sci. U.S.A. 99, 4302-4307. Download this article...

    77. Q. Du, N. Carasco, M. Teplova, C. J. Wilds, X. Kong, M. Egli and Z. Huang* (2002) Internal Derivatization of Oligonucleotides with Selenium for X-ray Crystallography Using MAD. J. Am. Chem. Soc. Comm. Ed. 124, 24-25. Download this article...

    76. C. J. Wilds, M. A. Maier, V. Tereshko, M. Manoharan* and M. Egli* (2002) Direct Observation of a Cytosine Analogue that Forms Five Hydrogen Bonds to Guanosine: Guanyl G-Clamp. Angew. Chem. Int. Ed. 114, 123-125. Download this article...

    75. V. Tereshko, M. Teplova, J. Brunzelle, D. M. Watterson and M. Egli* (2001) Crystal Structures of the Catalytic Domain of Human Protein Kinase Associated with Apoptosis and Tumor Suppression. Nature Struct. Biol. 8, 899-907. Download this article...

    74. A. V. Velentza, A. M. Schumacher, C. Weiss, M. Egli and D. M. Watterson* (2001) A Protein Kinase Associated with Apoptosis and Tumor Suppression: Structure, Activity and Discovery of Peptide Substrates. J. Biol. Chem. 276, 38956-38965. Download this article...

    73. C. J. Wilds, G. Minasov, P. von Matt, K.-H. Altmann and M. Egli* (2001) Studies of a Chemically Modified Oligodeoxynucleotide Containing a 5-Atom Amide Backbone Which Exhibits Improved Binding to RNA. Nucleosides, Nucleotides & Nucleic Acids. 20, 991-994. Download this article...

    72. M. Egli*, G. Minasov, M. Teplova, R. Kumar and J. Wengel (2001) X-ray Crystal Structure of a Locked Nucleic Acid (LNA) Duplex Composed of a Palindromic 10-mer DNA Strand Containing One LNA Thymine Monomer. Chem. Comm., 651-652. Download this article...

    71. V. Tereshko, S. T. Wallace, N. Usman, F. Wincott and M. Egli* (2001) X-ray Crystallographic Observation of "In-line" and "Adjacent" Conformations in a Bulged Self-Cleaving RNA/DNA Hybrid. RNA 7, 405-420. Download this article...

    70. V. Tereshko, C. J. Wilds, G. Minasov, T. P. Prakash, M. A. Maier, A. Howard, Z. Wawrzak, M. Manoharan and M. Egli* (2001) Detection of Alkali Metal Ions in DNA Crystals Using State-of-the-Art X-ray Diffraction Experiments. Nucleic Acids Res. 29, 1208-1215. Download this article...

    69. M. Teplova, V. Tereshko, R Sanishvili, A. Joachimiak, T. Bushueva, W. F. Anderson and M. Egli* (2000) The Structure of the yrdC Gene Product From E. coli Reveals a New Fold and Suggests a Role in RNA-Binding. Protein Sci. 9, 2557-2566. Download this article...

    68. G. Minasov, J. Matulic-Adamic, C. J. Wilds, P. Haeberli, N. Usman, L. Beigelman and M. Egli* (2000) Crystal Structure of an RNA Duplex Containing Phenyl-ribonucleotides, Hydrophobic Isosteres of the Natural Pyrimidines. RNA 6, 1516-1528. Download this article...

    67. M. Egli* and S. M. Gryaznov* (2000) Synthetic Oligonucleotides as RNA Mimetics: 2’-Modified RNAs and N3’® P5’ Phosphoramidates. Cell. Mol. Life Sci. 57, 1440-1456. Download this article...

    66. M. Egli* and G. Minasov (2000) Recent Advances in RNA Crystallography. In "Ribozymes, Biochemistry and Biotechnology" (Krupp, G. & Gaur, R., Eds.), Eaton Publishing, Natick, MA, pp. 315-349. Download this article...

    65. N. Mashhoon, A. J. DeMaggio, V. Tereshko, S. C. Bergmeier, M. Egli, M. F. Hoekstra and J. Kuret* (2000) Crystal Structure of a Conformation-Selective Casein Kinase-1 Inhibitor. J. Biol. Chem. 275, 20052-20060. Download this article...

    64. G. Minasov, M. Teplova, G. C. Stewart, E. V. Koonin, W. F. Anderson and M. Egli* (2000) Functional Implications From Crystal Structures of the Conserved Bacillus subtilis Maf Protein With and Without dUTP. Proc. Natl. Acad. Sci. U.S.A. 97, 6328-6333. Download this article...

    63. G. Minasov, M. Teplova, P. Nielsen, J. Wengel and M. Egli* (2000) Structural Basis of Cleavage by RNase H of Hybrids of Arabinonucleic Acids and RNA. Biochemistry 39, 3525-3532. Download this article...

    62. M. Egli*, V. Tereshko, M. Teplova, G. Minasov, A. Joachimiak, R. Sanishvili, C. M. Weeks, R. Miller, M. A. Maier, H. An, P. D. Cook and M. Manoharan (2000) X-ray Crystallographic Analysis of the Hydration of A- and B-Form DNA at Atomic Resolution. Biopolymers (Nucleic Acid Sciences) 48, 234-252. Download this article...

    61. M. Teplova, S. T. Wallace, G. Minasov, V. Tereshko, A. Symons, P. D. Cook, M. Manoharan* and M. Egli* (1999) Structural Origins of the Exonuclease Resistance of a Zwitterionic RNA. Proc. Natl. Acad. Sci. U.S.A. 96, 14240-14245. Download this article...

    60. F. D. Lewis*, X. Liu, Y. Wu, S. Miller, M. R. Wasielewski, R. L. Letsinger, R. Sanishvili, A. Joachimiak, V. Tereshko and M. Egli (1999) Structure and Photoinduced Electron Transfer in Exceptionally Stable Synthetic DNA Hairpins with Stilbenediether Linkers. J. Am. Chem. Soc. 121, 9905-9906. Download this article...

    59. I. Berger, M. Egli, N. Spackova, J. Sponer and A. Rich* (1999) Four-Stranded Intercalated Cytosine-Rich Molecules: Novel Insights into DNA Structure and Stability. Nucleosides & Nucleotides 18, 1583-1585. Download this article...

    58. G. Minasov, V. Tereshko and M. Egli* (1999) Atomic-Resolution Crystal Structures of B-DNA Reveal Specific Influences of Divalent Metal Ions on Conformation and Packing. J. Mol. Biol 291, 83-99. Download this article...

    57. M. Teplova, G. Minasov, V. Tereshko, G. Inamati, P. D. Cook, M. Manoharan* and M. Egli* (1999) Crystal Structure and Improved Antisense Properties of 2’-O-(2-methoxyethyl)-RNA. Nature Struct. Biology 6, 535-539. Download this article...

    56. V. Tereshko, G. Minasov and M. Egli* (1999) A "Hydrat-Ion" Spine in a B-DNA Minor Groove. J. Am. Chem. Soc. 121, 3590-3595. Download this article...

    55. T. V. Maltseva , K.-H. Altmann, M. Egli and J. Chattopadhyaya* (1999) The Residence Time of the Bound Water in the Hydrophobic Minor Groove of the Carbocyclic-Nucleoside Analogs of Dickerson-Drew Dodecamers. J. Biomol. Struct. Dyn. 16, 569-578. Download this article...

    54. A. Y. Denisov, E. V. Zamaratski, T. V. Maltseva, A. Sandström, S. Bekiroglu, K.-H. Altmann, M. Egli and J. Chattopadhyaya* (1999) The Solution Conformation of a Carbocyclic Analog of the Dickerson-Drew Dodecamer: Comparison with its own X-ray Structure and that of the NMR Structure of the Native Counterpart. J. Biomol. Struct. Dyn. 16, 547-568. Download this article...

    53. L. Su, L. Chen, M. Egli, J. M. Berger and A. Rich* (1999) A Minor Groove RNA Triplex in the Crystal Structure of a Viral Pseudoknot Involved in Ribosomal Frameshifting. Nature Struct. Biology 6, 285-292. Download this Article...

    52. V. Tereshko, G. Minasov and M. Egli* (1999) The Dickerson-Drew B-DNA Dodecamer Revisited - At Atomic Resolution. J. Am. Chem. Soc. 121, 470-471. Download this Article...

    51. H. H. Engelhard*, M. Egli and J. M. Rozental (1998) Use of Antisense Vectors and Oligodeoxynucleotides in Neuro-Oncology. Pediatr. Neurosurg. 28, 279-285. Download this article...

    50. V. Tereshko, S. Portmann, E. Tay, P. Martin, F. Natt, K.-H. Altmann and M. Egli* (1998) Structure and Stability of DNA Duplexes with Incorporated 2’-O-Modified RNA Analogues. Biochemistry 37, 10626-10634. Download this article...

    49. N. Spackova, I. Berger, M. Egli and J. Sponer* (1998) Molecular Dynamics of Hemiprotonated Intercalated Four Stranded i-DNA: Stable Trajectories on a Nanosecond Scale. J. Am. Chem. Soc. 120, 6147-6151. Download this article...

    48. I. Berger, V. Tereshko, H. Ikeda, V. E. Marquez and M. Egli* (1998) Crystal Structures of B-DNA with Incorporated 2’-Deoxy-2’-fluoro-arabinofuranosyl Thymines: Implications of Conformational Preorganization for Duplex Stability. Nucleic Acids Res. 26, 2473-2480. Download this article...

    47. M. Egli* (1998) Conformational Preorganization and Thermodynamic Stability in Oligonucleotide Duplexes. Antisense & Nucleic Acid Drug Development 8, 123-128. Download this article...

    46. M. Egli* (1998) Towards the Structure-Based Design of Nucleic Acid Therapeutics. Advances in Enzyme Regulation. G. Weber (Ed.) Vol. 38, Elsevier Science Ltd., Oxford, UK, pp. 181-203. Download this article...

    45. V. Tereshko, S. Gryaznov and M. Egli* (1998) Consequences of Replacing the DNA 3’-Oxygen by an Amino Group: High-Resolution Crystal Structure of a Fully Modified N3’-->P5’ Phosphoramidate DNA Dodecamer Duplex. J. Am. Chem. Soc. 120, 269-283. Download this article...

    44. R. K. Allemann and M. Egli* (1997) DNA Bending and Recognition. Chem. & Biol. 4, 643-650. Download this article...

    43. I. Berger and M. Egli* (1997) The Role of Backbone Oxygen Atoms in the Organization of Nucleic Acid Tertiary Structure: Zippers, Networks, Clamps and C-H...O Hydrogen Bonds. Chem. Europ. J. 3, 1400-1404. Download this article...

    42. M. Egli* (1997) In Vitro Selected Receptors Rationalized: The First 3D-Structures of RNA Aptamer/Substrate Complexes. Angew. Chem. Int. Ed. Engl. 36, 480-482. Download this article...

    41. S. Portmann, K.-H. Altmann, N. Reynes and M. Egli* (1997) Crystal Structures of Oligodeoxyribonucleotides Containing 6'-alpha-Methyl and 6'-alpha-Hydroxy Carbocyclic Thymidines. J. Am. Chem. Soc. 119, 2396-2403. Download this article...

    40. I. Berger, M. Egli and A. Rich* (1996) Inter-strand C-H...O Hydrogen Bonds Stabilizing Four-Stranded Intercalated Molecules: Stereoelectronic Effects of O4' in Cytosine-Rich DNA. Proc. Natl. Acad. Sci. U.S.A. 93, 12116-12121. Download this article

    39. M. Egli* (1996) Structural Aspects of Nucleic Acid Analogs and Antisense Oligonucleotides. Angew. Chem. Int. Ed. Engl. 35, 1894-1909. Download this article...

    38. M. Egli*, S. Portmann and N. Usman (1996) RNA Hydration: A Detailed Look. Biochemistry 35, 8489-8494. Download this article...

    37. J. Matulic-Adamic, L. Beigelman, S. Portmann, M. Egli and N. Usman* (1996) Synthesis and Structure of 1-Deoxy-1-Phenyl-beta-D-Ribofuranose and Its Incorporation Into Oligonucleotides. J. Org. Chem. 61, 3909-3911. Download this article...

    36. S. Portmann, S. Grimm, C. Workman, N. Usman and M. Egli* (1996) Crystal Structures of an A-Form Duplex Containing Single-Base Bulges and a Conformational Basis for Site-Specific RNA Self-Cleavage. Chemistry & Biology 3, 173-184. Download this article

    35. M. Egli*, S. Portmann, D. Tracz, C. Workman and N. Usman (1995) Crystallization and Preliminary X-Ray Diffraction Analysis of Double-Helical RNA Octamers. Acta Cryst. D 51, 1065-1070. Download this article...

    34. B. Hyrup, C. Richert, T. Schulte-Herbrüggen, S. A. Benner and M. Egli* (1995) X-Ray Crystal Structure of a Dimethylene Sulfone-Bridged Ribonucleotide Dimer in a Single-Stranded State. Nucleic Acids Res. 23, 2427-2433. Download this article...

    33. A. L. Roughton, S. Portmann, S. A. Benner and M. Egli* (1995) Crystal Structure of a Dimethylene Sulfone Linked Ribodinucleotide Analog. J. Am. Chem. Soc. 117, 7249-7250. Download this article...

    32. S. Zhang and M. Egli* (1995) A Proposed Complementary Pairing Mode Between Single-Stranded Nucleic Acids and b-Stranded Peptides: A Possible Pathway for Generating Complex Biological Molecules. Complexity 1, 49-56. Download this article...

    31. S. Portmann, N. Usman and M. Egli* (1995) The Crystal Structure of r(CCCCGGGG) in Two Distinct Lattices. Biochemistry 34, 7569-7575. Download this article...

    30. M. Egli* and R. V. Gessner (1995) Stereoelectronic Effects of Deoxyribose O4' on DNA Conformation. Proc. Natl. Acad. Sci. U.S.A. 92, 180-185. Download this article...

    29. S. Zhang and M. Egli* (1994) A Hypothesis: Reciprocal Information Transfer Between Oligonucleotides and Oligopeptides in Prebiotic Molecular Evolution. Origins of Life 24, 495-505. Download this article...

    28. P. Lubini, W. Zürcher and M. Egli* (1994) Crystal Structure of an Oligodeoxynucleotide Duplex Containing 2'-O-methylated Adenosines. Chemistry & Biology 1, 39-45. Download this article...

    27. R. V. Gessner, G. J. Quigley and M. Egli* (1994) Comparative Studies of High Resolution Z-DNA Crystal Structures. Part 1: Common Hydration Patterns of Alternating dC-dG. J. Mol. Biol. 236, 1154-1168. Download this article...

    26. P. Lubini and M. Egli* (1994) A Parallel-Stranded Double Helix at Atomic Resolution. In: Structural Biology: State of the Art 1993: Proceedings of the Eighth Conversations. R. H. Sarma, M. H. Sarma, (Eds) Adenine Press, Albany, NY, Vol. 2, pp. 155-176. Download this article...

    25. D. Bancroft, L. D. Williams, A. Rich and M. Egli* (1994) The Low Temperature Crystal Structure of the Pure-Spermine Form of Z-DNA Reveals Binding of a Spermine Molecule in the Minor Groove. Biochemistry 33, 1073-1086. Download this article...

    24. M. Egli* (1994) Structural Patterns in Nucleic Acids. pp. 705-749. In: Structure Correlations. J. D. Dunitz and H. B. Bürgi (Eds.) VCH-Publishers, Weinheim. Download this article...

    23. M.Egli*, P. Lubini, M. Bolli, M. Dobler and Ch. Leumann (1993) Crystal Structure of a Parallel-Stranded Duplex of a Deoxycytidylyl-(3'-5')-deoxycytidine Analogue Containing Intranucleosidyl C(3')-C(5') Ethylene Bridges. J. Am. Chem. Soc. 115, 5855-5856. Download this article...

    22. M. Egli*, N. Usman and A. Rich (1993) Conformational Influence of the Ribose 2'-Hydroxyl Group: Crystal Structures of DNA-RNA Chimeric Duplexes. Biochemistry 32, 3221-3237. Download this article...

    21. N. Usman, M. Egli and A. Rich* (1992) Large Scale Chemical Synthesis, Purification and Crystallization of RNA-DNA Chimeras. Nucleic Acids Res. 20, 6695-6699. Download this article...

    20. D. Seebach*, B. Lamatsch, R. Amstutz, A. K. Beck, M. Dobler, M. Egli, R. Fitzi, M. Gautschi, B. Herradon, et al. (1992) Structure and Reactivity of Five- and Six-ring N,N-, N,O-, and O,O-Acetals: A Lesson in A1,3 Strain. Helv. Chim. Acta 75, 913-934. Download this article...

    19. L. D. Williams, M. Egli, Q. Gao and A. Rich* (1992) DNA Intercalation: Helix Unwinding and Neighbor-Exclusion. In: Structure & Function: Proceedings of the Seventh Conversation in Biomolecular Stereodynamics, R. H. Sarma, M. H. Sarma (Eds) Adenine Press, Albany, NY, pp. 107-125. Download this article...

    18. M. Egli, N. Usman, S. Zhang and A. Rich* (1992) Crystal Structure of an Okazaki Fragment at 2 Ã… Resolution. Proc. Natl. Acad. Sci. U.S.A. 89, 534-538. Download this article...

    17. M. Egli*, L. D. Williams, Q. Gao and A. Rich* (1991) Structure of the Pure-Spermine Form of Z-DNA (Magnesium Free) at 1Å Resolution. Biochemistry 30, 11388-11402. Download this article...

    16. Q. Gao, L. D. Williams, M. Egli, D. Rabinovich, S.-L. Chen, G. J. Quigley and A. Rich* (1991) Drug induced DNA Repair: X-ray Structure of a DNA-Ditercalinium Complex. Proc. Natl. Acad. Sci. U.S.A. 88, 2422-2426. Download this article...

    15. M. Egli, L. D. Williams, C. A. Frederick and A. Rich* (1991) DNA-Nogalamycin Interactions. Biochemistry 30, 1364-1372. Download this article...

    14. L. D. Williams, M. Egli, G. Ughetto, G. A. van der Marel, J. H. van Boom, G. J. Quigley, A. H.-J. Wang, A. Rich* and C. A. Frederick* (1990) Structure of 11-Deoxydaunomycin Bound to DNA Containing a Phosphorothioate. J. Mol. Biol. 215, 313-320. Download this article...

    13. M. Egli, R. Gessner, L. D. Williams, G. J. Quigley, G. A. van der Marel, J. H. van Boom, A. Rich* and C. A. Frederick* (1990) Atomic-resolution Structure of the Cellulose Synthase Regulator Cyclic Diguanylic Acid. Proc. Natl. Acad. Sci. U.S.A. 87, 3235-3239. Download this article...

    12. L. D. Williams, M. Egli, Q. Gao, P. Bash, G. A. van der Marel, J. H. van Boom, A. Rich* and C. A. Frederick* (1990) Structure of Nogalamycin Bound to a DNA Hexamer. Proc. Natl. Acad. Sci. U.S.A. 87, 2225-2229. Download this article...

    11. D. Seebach*, U. Brändli, H.-M. Müller, M. Dobler, M. Egli, M. Przybylski and K. Schneider (1989) On the Macrolactonization of b-Hydroxyacids. Crystal Structures of the Pentolide and the Hexolide from (R)-3-Hydroxybutanoic Acid. Molecular Modeling Studies of the Tetrolide. Helv. Chim. Acta 72, 1704- 1717. Download this article...

    10. V. Prelog*, M. Kovacevic and M. Egli (1989) Lipophilic Tartaric Acid Esters as Enantioselective Ionophores. Angew. Chem. Int. Ed. Engl. 28, 1147-1152. Download this article...

    9. M. Egli and M. Dobler* (1989) Structural Aspects of the Enantioselectivity of Tartrates with a-Amino-alcohol Salts, Part II: Crystal Structures of (1R,2S)-Norephedrine Hydrochloride and (1R,2R)-Norpseudo-ephedrine Hydrochloride. Helv. Chim. Acta 72, 1151-1157. Download this article...

    8. M. Egli and M. Dobler* (1989) Structural Aspects of the Enantioselectivity of Tartrates with a-Amino-alcohol Salts, Part I: Crystal Structures of Eleven Tartaric Acid Diesters. Helv. Chim. Acta 72, 1136-1150. Download this article...

    7. M. Egli, R. Polt and D. Seebach* (1989) Diastereoselective Cyclisation of a Glycil-alanine Azomethine to a Imidazolidinone: Determination of the Product Configuration by X-Ray Analysis. Chimia 43, 4-5.

    6. M. Eberle, M. Egli and D. Seebach* (1988) Enantioselective Saponification of Diacetates of 2-Nitro-1,3-propanediols by Pig Liver Esterase and Preparation of Enantiomerically Pure Derivatives of 2-Nitro-allylic Alcohols. Helv. Chim. Acta 71, 1-23. Download this article...

    5. K. Thiele, L. Zirngibel, M. H. Pfenninger, M. Egli and M. Dobler* (1987) Synthesis and X-Ray Analysis of Omoconazol. Helv. Chim. Acta 70, 441-444. Download this article...

    4. E. Metzger, R. Aeschimann, M. Egli, R. Dohner, D. Amman, M. Dobler and W. Simon* (1986) 3,7-Dioxaazelaamides as Ionophores for Lithium Ion Selective Liquid Membrane Electrodes. Helv. Chim. Acta 69, 1821-1828. Download this article...

    3. M. Egli and M. Dobler (1986) Crystal Structures of Chiral Ionophores. Helv. Chim. Acta 69, 626-631. Download this article...

    2. M. Egli, J. D. Wallis and J. D. Dunitz* (1986) Structure of N,N-Dimethyl-8-nitro-1-naphthaleneamine in Seven Crystalline Environments. Helv. Chim. Acta 69, 255-266. Download this article...

    1. M. Dobler, M. Dumic, M. Egli and V. Prelog* (1985) Chiral Poly((9,9’)-spirobifluorene) Crown Ethers. Angew. Chem. Int. Ed. Engl. 24, 792-794. Download this article...