The Tse-Dinh Lab
The Tse-Dinh Lab
1. Wang W, Tse-Dinh YC. Recent Advances in Use of Topoisomerase Inhibitors in Combination Cancer Therapy. Curr Top Med Chem. 2019;19(9):730-740. doi: 10.2174/1568026619666190401113350. Review. PMID: 30931861
2. Jeanne Dit Fouque K, Garabedian A, Leng F, Tse-Dinh YC, Fernandez-Lima F. Microheterogenecity of Topoisomerase IA/IB and Their DNA Bound States. ACS Omega. 2019 Feb 28;4(2):3619-3626. doi: 10.1021/acsomega.8b02887. Epub 2019 Feb 18. PMID: 30842985
3. Garcia PK, Annamalai T, Wang W, Bell RS, Le D, Martin Pancorbo P, Sikandar S, Seddek A, Yu X, Sun D, Uhlemann AC, Tiwari PB, Leng F, Tse-Dinh YC. Mechanism and Resistance for Antimycobacterial Activity of a Fluoroquinophenoxazine Compound. PLoS One. 2019 Feb 22;14(2):e0207733. doi: 10.1371/journal.pone.0207733. eCollection 2019. PMID: 30794538
4. Mills M, Tse-Dinh YC, Neuman KC. Direct Observation of Topoisomerase IA gate Dynamics. Nat Struct Mol Biol. 2018 Dec;25(12):1111-1118. doi: 10.1038/s41594-018-0158-x. Epub 2018 Nov 26. PMID: 30478267
5. Cao N, Tan K, Annamalai T, Joachimiak A, Tse-Dinh YC. Investigating Mycobacterial Topoisomerase I mechanism from the analysis of metal and DNA substrate interactions at the active site. Nucleic Acids Res. 2018 Aug 21;46(14):7296-7308. doi: 10.1093/nar/gky492. PMID: 29905859
6. Zhou Q, Gomez Hernandez ME, Fernandez-Lima F, Tse-Dinh YC. Biochemical basis of E coli Topoisomerase I Relaxation Activity Reduction by Nonenzymatic Lysine Acetylation.Int J Mol Sci. 2018 May 11;19(5). pii: E1439. doi: 10.3390/ijms19051439. PMID: 29751635
7. Ahmed MS, Annamalai T, Li X, Seddek A, Teng P, Tse-Dinh YC, Moon JH. Synthesis of Antimicrobial Poly(guanylurea)s. Bioconjug Chem. 2018 Apr 18;29(4):1006-1009. doi: 10.1021/acs.bioconjchem.8b00057. Epub 2018 Mar 12. PMID: 29528223
8. Gupta R, Rodrigues Felix C, Akerman MP, Akerman KJ, Slabber CA, Wang W, Adams J, Shaw LN, Tse-Dinh YC, Munro OQ, Rohde KH. Evidence for Inhibition of Topoisomerase 1A by Gold(III) Macrocycles and Chelates Targeting Mycobacterium tuberculosis and Mycobacterium abscessus. Antimicrob Agents Chemother. 2018 Apr 26;62(5). pii: e01696-17. doi: 10.1128/AAC.01696-17. Print 2018 May. PMID: 29483110
9. Sandhaus S, Chapagain PP, Tse-Dinh YC. Discovery of novel bacterial topoisomerase I inhibitors by use of in silico docking and in vitro assays. Sci Rep. 2018 Jan 23;8(1):1437. doi: 10.1038/s41598-018-19944-4. PMID: 29362471
10. Annamalai T, Cheng B, Keswani N, Tse-Dinh YC. A Fluorescence-Based Assay for Identification of Bacterial Topoisomerase I Poisons. Methods Mol Biol. 2018;1703:259-268. doi: 10.1007/978-1-4939-7459-7_18. PMID: 29177747
11. Liu Y, Berrido AM, Hua ZC, Tse-Dinh YC, Leng F. Biochemical and biophysical properties of positively supercoiled DNA. Biophys Chem. 2017 Nov;230:68-73. doi: 10.1016/j.bpc.2017.08.008. Epub 2017 Sep 1. PMID: 28887044
12. Banda S, Cao N, Tse-Dinh YC.Distinct Mechanism Evolved for Mycobacterial RNA Polymerase and Topoisomerase I Protein-Protein Interaction. J Mol Biol. 2017 Sep 15;429(19):2931-2942. doi: 10.1016/j.jmb.2017.08.011. Epub 2017 Aug 24. PMID: 28843989
13. Ranjan N, Story S, Fulcrand G, Leng F, Ahmad M, King A, Sur S, Wang W, Tse-Dinh YC, Arya DP. Selective Inhibition of Escherichia coli RNA and DNA Topoisomerase I by Hoechst 33258 Derived Mono- and Bisbenzimidazoles. J Med Chem. 2017 Jun 22;60(12):4904-4922. doi: 10.1021/acs.jmedchem.7b00191. Epub 2017 May 31. PMID: 28513176
14. Zhou Q, Zhou YN, Jin DJ, Tse-Dinh YC. Deacetylation of topoisomerase I is an important physiological function of E. coli CobB. Nucleic Acids Res. 2017 May 19;45(9):5349-5358. doi: 10.1093/nar/gkx250. PMID: 28398568
15. Liu D, Shao Y, Chen G, Tse-Dinh YC, Piccirilli JA, Weizmann Y. Synthesizing topological structures containing RNA. Nat Commun. 2017 Mar 31;8:14936. doi: 10.1038/ncomms14936. PMID: 28361879
16. Cheng B, Zhou Q, Weng L, Leszyk JD, Greenberg MM, Tse-Dinh YC. Identification of proximal sites for unwound DNA substrate in Escherichia coli topoisomerase I with oxidative crosslinking. FEBS Lett. 2017 Jan;591(1):28-38. doi: 10.1002/1873-3468.12517. Epub 2016 Dec 20. PMID: 27926785
17. Yu X, Zhang M, Annamalai T, Bansod P, Narula G, Tse-Dinh YC, Sun D. Synthesis, evaluation, and CoMFA study of fluoroquinophenoxazine derivatives as bacterial topoisomerase IA inhibitors.Eur J Med Chem. 2017 Jan 5;125:515-527. doi: 10.1016/j.ejmech.2016.09.053. Epub 2016 Sep 18. PMID: 27689733
18. Sandhaus S, Annamalai T, Welmaker G, Houghten RA, Paz C, Garcia PK, Andres A, Narula G, Rodrigues Felix C, Geden S, Netherton M, Gupta R, Rohde KH, Giulianotti MA, Tse-Dinh YC. Small Molecule Inhibitors Targeting Topoisomerase I as Novel Antituberculosis Agents. Antimicrob Agents Chemother. 2016; 60:4028-36. PMID: 27114277; PMCID: PMC4914652
19. Tiwari PB, Chapagain PP, Banda S, Darici Y, Üren A, Tse-Dinh YC. Characterization of molecular interactions between Escherichia coli RNA polymerase and topoisomerase I by molecular simulations. FEBS Lett. 2016;590:2844-51. PMID: 27448274; PMCID: PMC5014613
20. Tan K, Cao N, Cheng B, Joachimiak A, Tse-Dinh YC. Insights from the Structure of Mycobacterium tuberculosis Topoisomerase I with a novel protein fold. J Mol Biol. 2016 16;428(1):182-93. PMID: 26655023; PMCID: PMC4738035
21. Tan K, Zhou Q, Cheng B, Zhang Z, Joachimiak J, Tse-Dinh YC. Structural basis for suppression of hypernegative DNA supercoiling by E. coli topoisomerase I, Nucl Acids Res 2015; 43(22):11031-46. PMID: 26490962; PMCID: PMC4678816
22. Yang J, Annamalai T, Cheng B, Banda S, Tyagi R, Tse-Dinh YC. Antimicrobial Susceptibility and SOS-dependent Increase in Mutation Frequency are Impacted by E. coli Topoisomerase I C-terminal Point Mutation. Antimicrob Agents Chemother. 2015; 59:6195-202. PMID: 26248366; PMCID: PMC4576087
23. Tse-Dinh YC. Targeting bacterial topoisomerase I to meet the challenge of finding new antibiotics. Future Med Chem 2015; 7(4):459-71. PMID:25875873; PMCID: PMC4415981
24. Cheng B, Cao S, Vasquez V, Annamalai T, Tamayo-Castillo G, Clardy J, Tse-Dinh YC. Identification of Anziaic Acid, a Lichen depside from Hypotrachyna sp., as a New Topoisomerase Poison Inhibitor. PLOS ONE 2013, Apr 8;8(4):e60770. PMC3620467
25. Sissi C, Cheng B, Lombardo V, Tse-Dinh YC, Palumbo M. Metal ion and inter-domain interactions as functional networks in E. coli topoisomerase I. Gene. 2013 Jul 25;524(2):253-60. PMC3876943
26. Aedo S, Tse-Dinh YC. SbcCD-mediated processing of covalent gyrase-DNA complex in Escherichia coli. Antimicrob Agents Chemother. 2013 Oct;57(10):5116-9. PMC3811449
27. Lin H, Annamalai T, Bansod P, Tse-Dinh YC, Sun D. Synthesis and antibacterial evaluation of anziaic acid and analogues as topoisomerase I inhibitors. Medchemcomm. 2013 Dec 1;4(12). PMC3867937
28. Cheng B, Cao S, Vasquez V, Annamalai T, Tamayo-Castillo G, Clardy J, Tse-Dinh YC. Identification of anziaic acid, a lichen depside from Hypotrachyna sp., as a new topoisomerase poison inhibitor. PLoS One. 2013;8:e60770. PMID: 23593306; PMCID: PMC3620467
29. Narula G, Tse-Dinh YC 2012. Residues of E. coli topoisomerase I conserved for interaction with a specific cytosine base to facilitate DNA cleavage. Nucl Acids Res, 40, 9233-9243. PMC3467081
30. Aedo S, Tse-Dinh YC. Isolation and quantitation of topoisomerase complexes accumulated on E. coli chromosomal DNA. Antimicrob Agents Chemother 2012, Nov; 56(11):5458-64. PMC3486612
31. Bansal S, Singh M, Sinha D, Cheng B, Tse-Dinh YC, Tandon V. 3, 4 dimethoxyphenyl bis-benzimidazole, a novel DNA Topoisomerase Inhibitor that Preferentially Targets E. coli Topoisomerase I. J Antimicrob Chemother 2012 Dec; 67(12):2882-91
32. Narula G, Tse-Dinh YC. Residues of E. coli topoisomerase I conserved for interaction with a specific cytosine base to facilitate DNA cleavage. Nucleic Acids Res. 2012; 40:9233-43. PMID: 22833607; PMCID: PMC3467081
33. Zhang Z, Cheng B, Tse-Dinh YC. Crystal structure of a covalent intermediate in DNA cleavage and rejoining by Escherichia coli DNA topoisomerase I. Proc Natl Acad Sci USA. 2011; 108:6939-6944. PMID: 21482796; PMCID: PMC3084087
34. Narula G, Annamalai T, Aedo S, Cheng B, Sorokin E, Wong A, Tse-Dinh YC 2011. The strictly conserved Arg-321 residue in the active site of Escherichia coli topoisomerase I plays a critical role in DNA rejoining. J Biol Chem 286, 18673-18682. PMC3099684
35. Liu IF, Sutherland JH, Cheng B, Tse-Dinh YC 2011. Topoisomerase I function during Escherichia coli response to antibiotics and stress enhances cell killing from stabilization of its cleavage complex. J Antimicrob Chemother. 66, 1518-1524. PMC3112028
36. Zhang Z, Cheng B, Tse-Dinh YC 2011. Crystal structure of a covalent intermediate in DNA cleavage and rejoining by Escherichia coli DNA topoisomerase I. Proc Natl Acad Sci USA 108, 6939-6944. PMC3084087
37. Liu IF, Sutherland JH, Cheng B, Tse-Dinh YC. Topoisomerase I function during Escherichia coli response to antibiotics and stress enhances cell killing from stabilization of its cleavage complex. J Antimicrob Chemother. 2011; 66:1518-24. PMID: 21486853; PMCID: PMC3112028
38. Sutherland JH, Tse-Dinh YC 2010. Analysis of RuvABC and RecG involvement in the Escherichia coli response to the covalent topoisomerase-DNA complex. J Bacteriol 192, 4445-51. PMC2937393
39. Tse-Dinh YC 2009. Bacterial topoisomerase I as a target for discovery of antibacterial compounds. Invited peer reviewed Survey and Summary for Nucl Acids Res 37, 731-737. PMC2647297
40. Cheng B, Annamalai T, Sorokin E, Abrenica M, Aedo S, Tse-Dinh YC 2009. Asp to Asn substitution at the first position of the DxD TOPRIM motif of recombinant bacterial topoisomerase I is extremely lethal to E. coli. J Mol Biol 385, 558-67. PMC2905861
41. Sorokin, E, Cheng B, Rathi S, Aedo S, Abrenica MV, Tse-Dinh YC 2008. Inhibition of Mg2+ binding and DNA religation by bacterial topoisomerase I via introduction of additional positive charge into the active site region. Nucl Acids Res 36, 4788-96. PMC2504298
42. Cheng B, Sorokin E, Tse-Dinh YC 2008. Mutation adjacent to the active site tyrosine can enhance DNA cleavage and cell killing by the TOPRIM Gly to Ser mutant of bacterial topoisomerase I. Nucleic Acids Res. 36,1017-25. PMC2241903
43. Cheng B, Zhu CX, Ji C, Ahumada A, Tse-Dinh YC. Direct interaction between Escherichia coli RNA polymerase and the zinc ribbon domains of DNA topoisomerase I. J Biol Chem. 2003; 278:30705-10. PMID: 12788950
44. Tse YC, Kirkegaard K, Wang JC. Covalent bonds between protein and DNA. Formation of phosphotyrosine linkage between certain DNA topoisomerases and DNA. J Biol Chem. 1980; 255:5560-5. PMID: 6155377. JBC Classic Paper