Alfonso Mondragón - Publications

Biochemistry Northwestern University, Evanston, IL 
structure and function of proteins and nucleic acids

64 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Zhang Y, Rajan R, Seifert HS, Mondragón A, Sontheimer EJ. DNase H Activity of Neisseria meningitidis Cas9. Molecular Cell. 60: 242-55. PMID 26474066 DOI: 10.1016/j.molcel.2015.09.020  1
2015 Philips SJ, Canalizo-Hernandez M, Yildirim I, Schatz GC, Mondragón A, O'Halloran TV. TRANSCRIPTION. Allosteric transcriptional regulation via changes in the overall topology of the core promoter. Science (New York, N.Y.). 349: 877-81. PMID 26293965 DOI: 10.1126/science.aaa9809  1
2015 Clark MD, Marcum R, Graveline R, Chan CW, Xie T, Chen Z, Ding Y, Zhang Y, Mondragón A, David G, Radhakrishnan I. Structural insights into the assembly of the histone deacetylase-associated Sin3L/Rpd3L corepressor complex. Proceedings of the National Academy of Sciences of the United States of America. PMID 26124119 DOI: 10.1073/pnas.1504021112  1
2014 Gilston BA, Wang S, Marcus MD, Canalizo-Hernández MA, Swindell EP, Xue Y, Mondragón A, O'Halloran TV. Structural and mechanistic basis of zinc regulation across the E. coli Zur regulon. Plos Biology. 12: e1001987. PMID 25369000 DOI: 10.1371/journal.pbio.1001987  1
2014 Terekhova K, Marko JF, Mondragón A. Single-molecule analysis uncovers the difference between the kinetics of DNA decatenation by bacterial topoisomerases I and III. Nucleic Acids Research. 42: 11657-67. PMID 25232096 DOI: 10.1093/nar/gku785  1
2014 Rajan R, Osterman AK, Gast AT, Mondragón A. Biochemical characterization of the topoisomerase domain of Methanopyrus kandleri topoisomerase V. The Journal of Biological Chemistry. 289: 28898-909. PMID 25135643 DOI: 10.1074/jbc.M114.590711  1
2013 Chetnani B, Mondragón A. RNA exerts self-control Nature. 500: 279-280. PMID 23892780 DOI: 10.1038/nature12460  1
2013 Chan CW, Chetnani B, Mondragón A. Structure and function of the T-loop structural motif in noncoding RNAs Wiley Interdisciplinary Reviews: Rna. 4: 507-522. PMID 23754657 DOI: 10.1002/wrna.1175  1
2013 Mondragón A. Structural studies of RNase P Annual Review of Biophysics. 42: 537-557. PMID 23654306 DOI: 10.1146/annurev-biophys-083012-130406  1
2013 Rajan R, Prasad R, Taneja B, Wilson SH, Mondragón A. Identification of one of the apurinic/apyrimidinic lyase active sites of topoisomerase V by structural and functional studies. Nucleic Acids Research. 41: 657-66. PMID 23125368 DOI: 10.1093/nar/gks1017  1
2012 Terekhova K, Gunn KH, Marko JF, Mondragón A. Bacterial topoisomerase I and topoisomerase III relax supercoiled DNA via distinct pathways. Nucleic Acids Research. 40: 10432-40. PMID 22923519 DOI: 10.1093/nar/gks780  1
2012 Reiter NJ, Osterman AK, Mondragón A. The bacterial ribonuclease P holoenzyme requires specific, conserved residues for efficient catalysis and substrate positioning Nucleic Acids Research. 40: 10384-10393. PMID 22904083 DOI: 10.1093/nar/gks744  1
2012 Yasunaga M, Ipsaro JJ, Mondragón A. Structurally similar but functionally diverse ZU5 domains in human erythrocyte ankyrin. Journal of Molecular Biology. 417: 336-50. PMID 22310050 DOI: 10.1016/j.jmb.2012.01.041  1
2011 Reiter NJ, Chan CW, Mondragón A. Emerging structural themes in large RNA molecules. Current Opinion in Structural Biology. 21: 319-26. PMID 21474301 DOI: 10.1016/  1
2011 Godley LA, Mondragón A. Molecular biology. Preference by exclusion. Science (New York, N.Y.). 331: 1017-8. PMID 21350155 DOI: 10.1126/science.1202090  1
2011 Baker NM, Weigand S, Maar-Mathias S, Mondragón A. Solution structures of DNA-bound gyrase. Nucleic Acids Research. 39: 755-66. PMID 20870749 DOI: 10.1093/nar/gkq799  1
2010 Reiter NJ, Osterman A, Torres-Larios A, Swinger KK, Pan T, Mondragón A. Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA. Nature. 468: 784-9. PMID 21076397 DOI: 10.1038/nature09516  1
2010 Rajan R, Taneja B, Mondragón A. Structures of minimal catalytic fragments of topoisomerase V reveals conformational changes relevant for DNA binding. Structure (London, England : 1993). 18: 829-38. PMID 20637419 DOI: 10.1016/j.str.2010.03.006  1
2010 Patel A, Yakovleva L, Shuman S, Mondragón A. Crystal structure of a bacterial topoisomerase IB in complex with DNA reveals a secondary DNA binding site. Structure (London, England : 1993). 18: 725-33. PMID 20541510 DOI: 10.1016/j.str.2010.03.007  1
2010 Ipsaro JJ, Harper SL, Messick TE, Marmorstein R, Mondragón A, Speicher DW. Crystal structure and functional interpretation of the erythrocyte spectrin tetramerization domain complex. Blood. 115: 4843-52. PMID 20197550 DOI: 10.1182/blood-2010-01-261396  1
2010 Ipsaro JJ, Mondragón A. Structural basis for spectrin recognition by ankyrin. Blood. 115: 4093-101. PMID 20101027 DOI: 10.1182/blood-2009-11-255604  1
2010 Alvarez HM, Xue Y, Robinson CD, Canalizo-Hernández MA, Marvin RG, Kelly RA, Mondragón A, Penner-Hahn JE, O'Halloran TV. Tetrathiomolybdate inhibits copper trafficking proteins through metal cluster formation. Science (New York, N.Y.). 327: 331-4. PMID 19965379 DOI: 10.1126/science.1179907  1
2010 Mondragón A. Structural studies of ribonuclease P Protein Reviews. 10: 63-78. DOI: 10.1007/978-1-4419-1142-1-4  1
2009 Ipsaro JJ, Huang L, Mondragón A. Structures of the spectrin-ankyrin interaction binding domains. Blood. 113: 5385-93. PMID 19141864 DOI: 10.1182/blood-2008-10-184358  1
2009 Baker NM, Rajan R, Mondragón A. Structural studies of type I topoisomerases. Nucleic Acids Research. 37: 693-701. PMID 19106140 DOI: 10.1093/nar/gkn1009  0.84
2007 Taneja B, Schnurr B, Slesarev A, Marko JF, Mondragón A. Topoisomerase V relaxes supercoiled DNA by a constrained swiveling mechanism. Proceedings of the National Academy of Sciences of the United States of America. 104: 14670-5. PMID 17804808 DOI: 10.1073/pnas.0701989104  1
2007 Changela A, DiGate RJ, Mondragón A. Structural studies of E. coli topoisomerase III-DNA complexes reveal a novel type IA topoisomerase-DNA conformational intermediate. Journal of Molecular Biology. 368: 105-18. PMID 17331537 DOI: 10.1016/j.jmb.2007.01.065  1
2006 Torres-Larios A, Swinger KK, Pan T, Mondragón A. Structure of ribonuclease P--a universal ribozyme. Current Opinion in Structural Biology. 16: 327-35. PMID 16650980 DOI: 10.1016/  1
2006 Baird NJ, Srividya N, Krasilnikov AS, Mondragón A, Sosnick TR, Pan T. Structural basis for altering the stability of homologous RNAs from a mesophilic and a thermophilic bacterium. Rna (New York, N.Y.). 12: 598-606. PMID 16581805 DOI: 10.1261/rna.2186506  1
2006 Taneja B, Patel A, Slesarev A, Mondragón A. Structure of the N-terminal fragment of topoisomerase V reveals a new family of topoisomerases. The Embo Journal. 25: 398-408. PMID 16395333 DOI: 10.1038/sj.emboj.7600922  1
2006 Patel A, Shuman S, Mondragón A. Crystal structure of a bacterial type IB DNA topoisomerase reveals a preassembled active site in the absence of DNA. The Journal of Biological Chemistry. 281: 6030-7. PMID 16368685 DOI: 10.1074/jbc.M512332200  1
2005 Torres-Larios A, Swinger KK, Krasilnikov AS, Pan T, Mondragón A. Crystal structure of the RNA component of bacterial ribonuclease P. Nature. 437: 584-7. PMID 16113684 DOI: 10.1038/nature04074  1
2005 Mondragón A. Unraveling the mechanistic details of topoisomerases. Structure (London, England : 1993). 13: 502-3. PMID 15837188 DOI: 10.1016/j.str.2005.03.002  1
2005 Changela A, Martins A, Shuman S, Mondragón A. Crystal structure of baculovirus RNA triphosphatase complexed with phosphate. The Journal of Biological Chemistry. 280: 17848-56. PMID 15713658 DOI: 10.1074/jbc.M500885200  1
2004 Kusunoki H, Minasov G, Macdonald RI, Mondragón A. Independent movement, dimerization and stability of tandem repeats of chicken brain alpha-spectrin. Journal of Molecular Biology. 344: 495-511. PMID 15522301 DOI: 10.1016/j.jmb.2004.09.019  1
2004 Krasilnikov AS, Xiao Y, Pan T, Mondragón A. Basis for structural diversity in homologous RNAs. Science (New York, N.Y.). 306: 104-7. PMID 15459389 DOI: 10.1126/science.1101489  0.44
2004 Kusunoki H, MacDonald RI, Mondragón A. Structural insights into the stability and flexibility of unusual erythroid spectrin repeats. Structure (London, England : 1993). 12: 645-56. PMID 15062087 DOI: 10.1016/j.str.2004.02.022  1
2003 Taneja B, Maar S, Shuvalova L, Collart F, Anderson W, Mondragón A. Structure of the bacillus subtilis YYCN protein: a putative N-acetyltransferase. Proteins. 53: 950-2. PMID 14635137 DOI: 10.1002/prot.10561  1
2003 Perry K, Mondragón A. Structure of a complex between E. coli DNA topoisomerase I and single-stranded DNA. Structure (London, England : 1993). 11: 1349-58. PMID 14604525 DOI: 10.1016/j.str.2003.09.013  1
2003 Changela A, Chen K, Xue Y, Holschen J, Outten CE, O'Halloran TV, Mondragón A. Molecular basis of metal-ion selectivity and zeptomolar sensitivity by CueR. Science (New York, N.Y.). 301: 1383-7. PMID 12958362 DOI: 10.1126/science.1085950  1
2003 Krasilnikov AS, Mondragón A. On the occurrence of the T-loop RNA folding motif in large RNA molecules. Rna (New York, N.Y.). 9: 640-3. PMID 12756321 DOI: 10.1261/rna.2202703  1
2003 Krasilnikov AS, Yang X, Pan T, Mondragón A. Crystal structure of the specificity domain of ribonuclease P. Nature. 421: 760-4. PMID 12610630 DOI: 10.1038/nature01386  1
2003 Changela A, Perry K, Taneja B, Mondragón A. DNA manipulators: caught in the act. Current Opinion in Structural Biology. 13: 15-22. PMID 12581655 DOI: 10.1016/S0959-440X(02)00006-4  1
2002 Perry K, Mondragón A. Biochemical characterization of an invariant histidine involved in Escherichia coli DNA topoisomerase I catalysis. The Journal of Biological Chemistry. 277: 13237-45. PMID 11809772 DOI: 10.1074/jbc.M112019200  1
2001 Li D, Macdonald RJ, Mondragón A, Pozharski EV, Ruffatti JA, Tokars VL. Structural and Thermodynamic Studies of Cloned Fragments of Spectrin. Cellular & Molecular Biology Letters. 6: 218. PMID 11544670  1
2001 Changela A, DiGate RJ, Mondragón A. Crystal structure of a complex of a type IA DNA topoisomerase with a single-stranded DNA molecule. Nature. 411: 1077-81. PMID 11429611 DOI: 10.1038/35082615  1
2001 Changela A, Ho CK, Martins A, Shuman S, Mondragón A. Structure and mechanism of the RNA triphosphatase component of mammalian mRNA capping enzyme. The Embo Journal. 20: 2575-86. PMID 11350947 DOI: 10.1093/emboj/20.10.2575  1
2001 Li Z, Mondragón A, DiGate RJ. The mechanism of type IA topoisomerase-mediated DNA topological transformations. Molecular Cell. 7: 301-7. PMID 11239459 DOI: 10.1016/S1097-2765(01)00178-2  1
2000 Li Z, Mondragón A, Hiasa H, Marians KJ, DiGate RJ. Identification of a unique domain essential for Escherichia coli DNA topoisomerase III-catalysed decatenation of replication intermediates. Molecular Microbiology. 35: 888-95. PMID 10692165 DOI: 10.1046/j.1365-2958.2000.01763.x  1
1999 Mondragón A, DiGate R. The structure of Escherichia coli DNA topoisomerase III. Structure (London, England : 1993). 7: 1373-83. PMID 10574789 DOI: 10.1016/S0969-2126(00)80027-1  1
1999 Feinberg H, Changela A, Mondragón A. Protein-nucleotide interactions in E. coli DNA topoisomerase I. Nature Structural Biology. 6: 961-8. PMID 10504732 DOI: 10.1038/13333  1
1999 Feinberg H, Lima CD, Mondragón A. Conformational changes in E. coli DNA topoisomerase I. Nature Structural Biology. 6: 918-22. PMID 10504724 DOI: 10.1038/13283  0.48
1999 Grum VL, Li D, MacDonald RI, Mondragón A. Structures of two repeats of spectrin suggest models of flexibility. Cell. 98: 523-35. PMID 10481916 DOI: 10.1016/S0092-8674(00)81980-7  1
1995 Lue N, Sharma A, Mondragón A, Wang JC. A 26 kDa yeast DNA topoisomerase I fragment: crystallographic structure and mechanistic implications. Structure (London, England : 1993). 3: 1315-22. PMID 8747458 DOI: 10.1016/S0969-2126(01)00269-6  1
1995 Sharma A, Mondragón A. DNA topoisomerases. Current Opinion in Structural Biology. 5: 39-47. PMID 7773745 DOI: 10.1016/0959-440X(95)80007-N  1
1995 Mondragón A. Unraveling transposition: gamma delta resolvase in complex with DNA. Structure (London, England : 1993). 3: 755-8. PMID 7582892 DOI: 10.1016/S0969-2126(01)00210-6  1
1994 Lima CD, Wang JC, Mondragón A. Three-dimensional structure of the 67K N-terminal fragment of E. coli DNA topoisomerase I. Nature. 367: 138-46. PMID 8114910 DOI: 10.1038/367138a0  1
1994 Sharma A, Hanai R, Mondragón A. Crystal structure of the amino-terminal fragment of vaccinia virus DNA topoisomerase I at 1.6 A resolution. Structure (London, England : 1993). 2: 767-77. PMID 7994576 DOI: 10.1016/S0969-2126(94)00077-8  1
1994 Lima CD, Mondragón A. Mechanism of type II DNA topoisomerases: a tale of two gates. Structure (London, England : 1993). 2: 559-60. PMID 7922032 DOI: 10.1016/S0969-2126(00)00055-1  1
1993 Lima CD, Wang JC, Mondragón A. Crystallization of a 67 kDa fragment of Escherichia coli DNA topoisomerase I. Journal of Molecular Biology. 232: 1213-6. PMID 8396651 DOI: 10.1006/jmbi.1993.1474  1
1991 Mondragón A, Harrison SC. The phage 434 Cro/OR1 complex at 2.5 A resolution. Journal of Molecular Biology. 219: 321-34. PMID 2038059 DOI: 10.1016/0022-2836(91)90568-Q  1
1989 Mondragón A, Subbiah S, Almo SC, Drottar M, Harrison SC. Structure of the amino-terminal domain of phage 434 repressor at 2.0 A resolution. Journal of Molecular Biology. 205: 189-200. PMID 2926803 DOI: 10.1016/0022-2836(89)90375-6  1
1989 Mondragón A, Wolberger C, Harrison SC. Structure of phage 434 Cro protein at 2.35 A resolution. Journal of Molecular Biology. 205: 179-88. PMID 2647998 DOI: 10.1016/0022-2836(89)90374-4  1
1988 Harrison SC, Anderson JE, Koudelka GB, Mondragon A, Subbiah S, Wharton RP, Wolberger C, Ptashne M. Recognition of DNA sequences by the repressor of bacteriophage 434. Biophysical Chemistry. 29: 31-7. PMID 3359001 DOI: 10.1016/0301-4622(88)87022-4  1
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