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GEORGIA STATE UNIVERSITY
PUBLICATIONS WITH UNDERGRADUATE RESEARCH STUDENTS
Asterisk (*) indicates undergraduate student
  1. Zhang, Y.; Ballard, C. E.; Zheng, S.; Gao, X.; Ko, K. C.; Yang, H.; *Brandt, G.; Lou, X.; Tai, P.C.; Lu, C.-D.; Wang, B.  Design, synthesis and evaluation of efflux substrate-metal chelator conjugates as potential anti-microbial agents. Bioorg. Med. Chem. Lett. 2007, 17, 707-711.

  2. Winkeljohn, W. R.; Leggett-Robinson, P.; *Peets, M. R.; Strekowski, L.; Vasquez, P. C.; Baumstark, A.L.  N-Oxidation of 2-Substituted Pyridines and Quinolines by Dimethyldioxirane: Kinetics and Steric Effects. Heterocyclic Communications 2007, 13, 25.

  3. Gadda, G.; Francis, K.; *Belaineh, M.  The mechanism of 2-nitropropane dioxygenase:  A model for flavin semiquinone intermediates in enzymatic catalysis. FASEB Journal 2007, 21, A272-A272.

  4. **Hoang, J. V.; Gadda, G.  Trapping choline oxidase in a nonfunctional conformation by freezing at low pH.  Proteins-Structure Function and Bioinformatics 2007, 66, 611-620.

  5. Xin, Y.; *Mitchell, H.; *Cameron, H.; Allison, S. A.  Modeling the electrophoretic mobility and diffusion of weakly charged peptides. J. Phys. Chem. B 2006, 110, 1038-1045.

  6. Xin, Y.; *Hess, R.; *Ho, N.; Allison, S. A.  Modeling the Electrophoresis of Peptides and Proteins:  Improvements in the "Bead Method: to Include Ion Relaxation and Finite Size Effects.  J. Phys. Chem. B 2006, 110, 250330-225044.

  7. Maniccia, A. W.; Yang, W.; Li, S. Y.; *Johnson, J. A.; Yang, J. J.  Using protein design to dissect the effect of charged residues on metal binding and protein stability.  Biochemistry 2006, 45, 5848-5856.

  8. Logan, G.; *Igunbor, C.; Chen, G.; Davis, H.; Simon, A.; Salon, J.; Huang, Z.  A Novel and Simple Strategy for Incorporation, Protection, and Deprotection of Selenium Functionality. Syn. Lett, 2006, 10, 1554-1558.

  9. Gadda, G.; Fan, F.; *Hoang, J. V. On the Contribution of the Positively Charged Headgroup of Choline to Substrate Binding and Catalysis in the Reaction Catalyzed by 2-Nitroproprane Dioxygenase with Solvent Viscosity, pH, and Substrate Kinetic Isotope Effects. Biochemistry 2006, 45, 13889-13898.

  10. **Flores, L. V.; Staples, A. M.; Mackay, H.; *Howard, C. M.; *Uthe, P. B.; Sexton, J. S.; Buchmueller, K. L.; Wilson, W. D.; O'Hare, C.; Kluza, J.; Hochhauser, D.; Hartley, J. A.; Lee, M.  Synthesis and evaluation of an intercalator-polyamide hairpin designed to target the inverted CCAAT box 2 in the topoisomerase II alpha promoter.  Chembiochem 2006, 7, 1722-1729.

  11. **Carroll, A.; Yang, W.; Ye, Y. M.; Simmons, R.; Yang, J. J.  Amyloid fibril formation by a domain of rat cell adhesion molecule.  Cell Biochemistry and Biophysics 2006, 44, 241-249.

  12. Carrasco, N.; Canton-Williams, J.; *Brandt, G.; Wang, S.; Huang, Z.   Efficient Enzymatic Synthesis of Phosphoroselenoate RNA Using Adenosine 5'-(α-P-seleno)triphosphate.  Angew. Chem. 2006, 118, 100-103;  Angew. Chem. Int. Ed. 2006, 45, 94-97.

  13. **Brandt, G.; Carrasco, N.; Huang, Z.  RNA Substrate Cleavage Catalyzed by Phosphoroselenoate Hammerhead Ribozymes Transcribed Using 5'-(α-P-Seleno)Triphosphates.  Biochemistry, 2006, 45, 8972-8977.

  14. Zheng, Y. J.; Balasubramanyam, K.; Cebrat, M.; *Buck, D.; Guidez, F.; Zelent, A.; Alani, R. M.; Cole, P. A.  Synthesis and evaluation of a potent and selective cell-permeable p300 histone acetyltransferase inhibitor.  J. Am. Chem. Soc. 2005, 127, 17182-17183

  15. Ray, G. B.; *Cook, J. W.  Molecular Modeling of Heme Proteins using MOE:  Bio-Inorganic and Structure-Function Activity for Undergraduates.  Biochem. Mol. Biol. Educ. 2005, 33, 194-201.

  16. Buchmueller, K. L.; Staples, A. M.; *Uthe, P. B.; *Howard, C. M.; Pacheco, K. A. O.; *Cox, K. K.; Henry, J. A.; Bailey, S. L.; *Horick, S. M.; Nguyen, B.; Wilson, W. D.; Lee, M.  Molecular recognition of DNA base pairs by the formamido/pyrrole and formamido/imidazole pairings in stacked polyamides.  Nucleic Acids Research 2005, 33, 912-921.

  17. Buchmueller, K. L.; Staples, A. M.; *Howard, C. M.; *Horick, S. M.; *Uthe, P. B.; *Le, N. M.; *Cox, K. K.’ Nguyen, B.; *Pacheco, K. A. O.; Wilson, W. D.; Lee, M.  Extending the language of DNA molecular recognition by polyamides:  Unexpected influence of imidazole and pyrrole arrangment on binding affinity and specificity.  J. Am. Chem. Soc. 2005, 127, 742-750.

  18. Buchmueller, K. L.; *Taherbhai, Z.; *Howard, C. M.; *Bailey, S. L.; Nguyen, B.; O'Hare, C.; Hochhauser, D.; Hartley, J. A.; Wilson, W. D.; Lee, M.  Design of a hairpin polyamide, ZT65B, for targeting the inverted CCAAT box (ICB) site in the multildrug resistant (MDR1) gene.  Chembiochem 2005, 6, 2305-2311.

  19. Allison, S. A.; Xin, Y.; *Mitchell, H.  Electrophoresis of Weakly Charged Macroions Modeled as Bead Arrays.  Recent Research Developments in Macromolecules, Research Signpost Publishers. 2005, 8, 25-46.

  20. *Francis, K.; *Russell, B.; Gadda, G.  Involvement of a Flavosemiquinone in the Enzymatic Oxidation of Nitroalkanes Catalyzed by 2-Nitropropane Dioxygenase.  J. Biol. Chem. 2005, 280, 5195-5204.

  21. Zheng, Y. J.; Thomposon, P. R.; Cebrat, M.; Wang, L.; *Devlin, M. K.; Alani, R. M.; Cole, P. A.  Selective HAT inhibitors as mechanistic tools for protein acetylation.  Methods Enzymol. 2004, 376, 188-199.

  22. Lacy, E. R.; Nguyen, B.; *Le, M.; *Cox, K. K.; O'Hare, C.; Hartley, J. A.; Lee, M.; Wilson, W. D.  Energetic basis for selective recognition of T•G mismatched base pairs in DNA by imidazole-rich polyamides.  Nucleic Acids Research 2004, 32, 2000-2007.

  23. Henry, J. A.; *Le, N. M.; Nguyen, B.; *Howard, C. M.; *Bailey, S. L.; *Horick, S. M.; Buchmueller, K. L.; Kotecha, M.; Hochhauser, D.; Hartley, J. A.; Wilson, W. D.; Lee, M.  Targeting the inverted CCAAT box 2 in the topoisomerase II alpha promoter by JH-37, an imidazole-pyrrole polyamide hairpin:  Design, synthesis, molecular biology, and biophysical studies.  Biochemistry 2004, 43, 12249-12257

  24. Yang, W.; Jones, L. M.; Isley, L.; Ye, Y. M.; *Lee, H. W.; *Wilkins, A.; Liu, Z. R.; Hellinga, H. W.; Malchow, R.; Ghazi, M.; Yang, J. J.  Rational design of a calcium-binding protein.  J. Am. Chem. Soc. 2003, 125, 6165-6171.

  25. Yang, J. J.; *Gawthrop, A.; Ye, Y. Y.  Obtaining site-specific calcium-binding affinities of calmodulin.  Protein and Peptide Letters 2003, 10, 331-345.

  26. Ghanem, M.; Fan, F.; *Francis, K.; Gadda, G.  Spectroscopic and Kinetic Properties of Recombinant Choline Oxidase from Arthrobacter globiformis.  Biochemistry 2003, 42, 15179-15188.

  27. Gattas-Asufra, K. M.; Zheng, Y. J.; Micic, M.; *Snedaker, M. J.; Ji, X. J.; Sui, G. D.; Orbulescu, J.; Andreopoulos, F. M.; Pham, S. M.; Wang, C. M.; Leblanc, R. M.  Immobilization of quatum dots in the photo-cross-linked ploy(ethylene glycol)-based hydrogel.  J. Phys. Chem. B. 2003, 107, 10464-10469.

  28. Gadda, G.; *McAllister-Wilkins, E. E.  Cloning, Expression, and Purification of Choline Dehydrogenese From the Moderate Halphile Halomonas elongata.  Appl. Environ. Microbiol. 2003, 64, 2126-2132.

  29. **Wilkins, A. L.; Yang, W.; Yang, J. J.  Structural biology of the cell adhesion protein CD2:  From molecular recognition to protein folding and design.  Current Protein & Peptide Science 2003, 4, 367-373.

  30. Yang, W.; *Lee, H.; Hellinga, H.; Yang, J. J.  Identification and Design of Metal-Binding Proteins.  Proteins 2002, 47, 344-356.

  31. **Lee, H. W.; Yang, W.; Ye, Y. M.; Liu, Z. R.; Glushka, J.; Yang, J. J.  Isolated EF-loop III of calmodulin in a scaffold protein remains unpaired in solution using pulsed-field-gradient NMR spectroscopy.  Biochimica Et Biophysica Acta-Proteins and Proteomics 2002, 1598, 80-87.

  32. **Ellis, A. L.; Mason, J. C.; Lee, H. W.; Strekowski, L.; Patonay, G.; Choi, H.; Yang, J. J.  Design, synthesis, and characterization of a calcium-sensitive near infrared dye.  Talanta 2002, 56, 1099-1107.

  33. Ye, Y. M.; *Lee, H. W.; Yang, W.; Shealy, S. J.; *Wilkins, A. L.; Liu, Z. R.; Yang, J. J.  Metal binding affinity and structural properties of an isolated EF-loop in a scaffold protein.  Protein Engineering 2001, 14, 1001-1013.

  34. Parrill, A. L.; Ray, G. B.; *Abu-Khudeir, M.; *Hirsh, A.; *Jolly, A.  HIV Integrase Inhibitor Interactions with Active Site Metal Ions: Fact or Fiction?  In Computational Organometallic Chemistry; Cundari, T. R. Ed.; Marcel Dekker: New York, 2001; pp 185-203.

  35. Baumstark, A. L.; *Anderson, S. L.; *Sapp, C. J.; Vasquez, P. C.  Thermolysis of 3-alkyl-3-methyl-1,2-dioxetanes:  Activation parameters and chemiexcitation yields.  Heteroatom Chemistry 2001, 12, 176-179.

  36. Yang, W.; Tsai, T.; *Kats, M.; Yang, J. J.  Peptide analogs from E-cadherin with different calcium-binding affinities.  Journal of Peptide Research 2000, 55, 203-215.

  37. Yang, W.; *Lee, H.; Hellinga, H.; Pu, M.; Yang, J. J.  Design Calcium Binding Sites by Computer Algorithm; Kluwer Academic/Plenum Publishers., 2000; 127-138.

  38. Yang, J. J.; *Carroll, A. R.; Yang, W.; Ye, Y. M.; *Nguyen, C. N.  Nonnative intermediate state of acid-stable beta-sheet protein.  Cell Biochemistry and Biophysics 2000, 33, 253-273.

  39. Strekowski, L.; Mason, J. C.; *Britton, J. E.; Lee, H.; Van Aken, K.; Patonay, G.  The addition reaction of hydroxide or ethoxide ion with benzindolium heptamethine cyanine dyes.  Dyes and Pigments 2000, 46, 163-168.