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1990’s Parsons, R. L., B. R. Evans, L. Zheng, and M. Jayaram. (1990). "Functional analysis of Arg-308 mutants of Flp recombinase. Possible role of Arg-308 in coupling substrate binding to catalysis." J. Biol. Chem. 265(8):4527-33.
Evans, B. R., J. W. Chen, R. L. Parsons, T. K. Bauer, D. B. Teplow, and M. Jayaram. (1990). "Identification of the active site tyrosine of Flp recombinase. Possible relevance of its location to the mechanism of recombination" J. Biol. Chem. 265(30):18504-10.
Chen, J. W., B. R. Evans, L. Zheng, and M. Jayaram. (1991). "Tyr60 variants of Flp recombinase generate conformationally altered protein-DNA complexes. Differential activity in full-site and half-site recombinations." J. Mol. Biol. 218(1):107-18.
Chen, J. W., B. R. Evans, S. H. Yang, D. B. Teplow, and M. Jayaram. (1991). "Domain of a yeast site-specific recombinase (Flp) that recognizes its target site." Proc. Natl. Acad. Sci. USA 88(14):5944-8.
Kuo, C. F., A. H. Zou, M. Jayaram, E. Getzoff, and R. Harshey. (1991). "DNA-protein complexes during attachment-site synapsis in Mu DNA transposition." EMBO J. 10(6):1585-91.
Serre, M. C., B. R. Evans, H. Araki, Y. Oshima, and M. Jayaram. (1992). "Half-site recombinations mediated by yeast site-specific recombinases Flp and R." J. Mol. Biol. 225(3):621-42.
Chen, J. W., B. Evans, H. Rosenfeldt, and M. Jayaram. (1992). "Bending-incompetent variants of Flp recombinase mediate strand transfer in half-site recombinations: role of DNA bending in recombination." Gene 119(1):37-48.
Chen, J. W., B. R. Evans, S. H. Yang, H. Araki, Y. Oshima, and M. Jayaram. (1992). "Functional analysis of box I mutations in yeast site-specific recombinases Flp and R: pairwise complementation with recombinase variants lacking the active-site tyrosine." Mol. Cell. Biol. 12(9):3757-65.
Lee, J., M. C. Serre, S. H. Yang, I. Whang, H. Araki, Y. Oshima, and M. Jayaram. (1992). "Functional analysis of Box II mutations in yeast site-specific recombinases Flp and R. Significance of amino acid conservation within the Int family and the yeast sub-family." J. Mol. Biol. 228(4):1091-103.
Chen, J. W., J. Lee, and M. Jayaram. (1992). "DNA cleavage in trans by the active site tyrosine during Flp recombination: switching protein partners before exchanging strands." Cell 69(4):647-58.
Serre, M. C., and M. Jayaram. (1992). "Half-site strand transfer by step-arrest mutants of yeast site-specific recombinase Flp." J. Mol. Biol. 225(3):643-9.
Araki, H., N. Nakanishi, B. R. Evans, H. Matsuzaki, M. Jayaram, and Y. Oshima. (1992). "Site-specific recombinase, R, encoded by yeast plasmid pSR1." J. Mol. Biol. 225(1):25-37.
Serre, M. C., L. Zheng, and M. Jayaram. (1993). "DNA splicing by an active site mutant of Flp recombinase. Possible catalytic cooperativity between the inactive protein and its DNA substrate." J. Biol. Chem. 268(1):455-63.
Pan, G., K. Luetke, and P. D. Sadowski. (1993). "Mechanism of cleavage and ligation by FLP recombinase: classification of mutations in FLP protein by in vitro complementation analysis." Mol. Cell. Biol. 13(6):3167-75.
Miyazaki, A., M. Momany, P. J. Szaniszlo, M. Jayaram, and T. Ootaki. (1993). "Chitin synthase-encoding gene(s) of the Zygomycete fungus Phycomyces blakesleeanus." Gene 134(1):129-34.
Chen, J. W., S. H. Yang, and M. Jayaram. (1993). "Tests for the fractional active-site model in Flp site-specific recombination. Assembly of a functional recombination complex in half- site and full-site strand transfer." J. Biol. Chem. 268(19):14417-25.
Lee, J., and M. Jayaram. (1993). "Mechanism of site-specific recombination. Logic of assembling recombinase catalytic site from fractional active sites." J. Biol. Chem. 268(23):17564-70.
Kimball, A. S., J. Lee, M. Jayaram, and T. D. Tullius. (1993). "Sequence-specific cleavage of DNA via nucleophilic attack of hydrogen peroxide, assisted by Flp recombinase." Biochemistry 32(18):4698-701.
Saxena, P., I. Whang, J. Lee, Y. Voziyanov, V. Mendoza, and M. Jayaram. (1994). "Role of tyrosine phosphorylation-dephosphorylation in copy number control of the yeast plasmid 2 micron circle." Cell Mol. Biol. Res. 40(3):215-22.
Jayaram, M. (1994). "Phosphoryl transfer in Flp recombination: a template for strand transfer mechanisms." Trends Biochem. Sci. 19(2):78-82.
Namgoong, S. Y., M. Jayaram, K. Kim, and R. M. Harshey. (1994). "DNA-protein cooperativity in the assembly and stabilization of mu strand transfer complex. Relevance of DNA phasing and att site cleavage." J. Mol. Biol. 238(4):514-27.
Lee, J., I. Whang, and M. Jayaram. (1994). "Directed protein replacement in recombination full sites reveals trans- horizontal DNA cleavage by Flp recombinase." EMBO J. 13(22):5346-54.
Yang, S. H., and M. Jayaram. (1994). "Generality of the shared active site among yeast family site-specific recombinases. The R site-specific recombinase follows the Flp paradigm" J. Biol. Chem. 269(17):12789-96.
Whang, I., J. Lee, and M. Jayaram. (1994). "Active-site assembly and mode of DNA cleavage by Flp recombinase during full-site recombination." Mol. Cell. Biol. 14(11):7492-8.
Kim, K., S. Y. Namgoong, M. Jayaram, and R. M. Harshey. (1995). “Step-arrest mutants of phage Mu transposase. Implications in DNA- protein assembly, Mu end cleavage, and strand transfer.” J. Biol. Chem. 270(3):1472-9.
Jayaram, M., and J. Lee. (1995).“Return to sobriety after the catalytic party” Trends Genet. 11(11):432-3.
Lee, J., and M. Jayaram. (1995). “Role of partner homology in DNA recombination. Complementary base pairing orients the 5'-hydroxyl for strand joining during Flp site- specific recombination.” J. Biol. Chem. 270(8):4042-52.
Lee, J., and M. Jayaram. (1995). “Junction mobility and resolution of Holliday structures by Flp site- specific recombinase. Testing partner compatibility during recombination.” J. Biol. Chem. 270(32):19086-92.
Lee, J., and M. Jayaram. (1995). “Functional roles of individual recombinase monomers in strand breakage and strand union during site-specific DNA recombination.” J. Biol. Chem. 270(39):23203-11.
Yang, J. Y., K. Kim, M. Jayaram, and R. M. Harshey. (1995). “A domain sharing model for active site assembly within the Mu A tetramer during transposition: the enhancer may specify domain contributions”. EMBO J. 14(10):2374-84.
Yang, J. Y., M. Jayaram, and R. M. Harshey. (1995). “Enhancer-independent variants of phage Mu transposase: enhancer- specific stimulation of catalytic activity by a partner transposase.” Genes Dev. 9(20):2545-55.
Kimball, A. S., M. L. Kimball, M. Jayaram, and T. D. Tullius. (1995). “Chemical probe and missing nucleoside analysis of Flp recombinase bound to the recombination target sequence.” Nucleic Acids Res. 23(15):3009-17.
Lee, J., I. Whang, and M. Jayaram. (1996). “Assembly and orientation of Flp recombinase active sites on two-, three- and four-armed DNA substrates: implications for a recombination mechanism.” J. Mol. Biol. 257(3):532-549.
Yang, J. Y., M. Jayaram, and R. M. Harshey. (1996). “Positional information within the Mu transposase tetramer: catalytic contributions of individual monomers.” Cell 85(3):447-55.
Voziyanov, Y., J. Lee, I. Whang, and M. Jayaram. (1996). “Analyses of the first chemical step in Flp site-specific recombination: Synapsis may not be a pre-requisite for strand cleavage.” J. Mol. Biol. 256(4):720-35.
Saxena, P., I. Whang, Y. Voziyanov, C. Harkey, P. Argos, M. Jayaram, and T. Dandekar. (1997). “Probing Flp: a new approach to analyze the structure of a DNA recognizing protein by combining the genetic algorithm, mutagenesis and non-canonical DNA target sites.” Biochim. Biophys. Acta. 1340(2): 187-204.
Jayaram, M. (1997). "The cis-trans paradox of integrase." Science 276(5309):49-51.
Lee, J., and M. Jayaram. (1997). “A tetramer of the Flp recombinase silences the trimers within it during resolution of a Holliday junction substrate.” Genes Dev. 11(18): 2438-47.
Lee, J., T. Tonozuka, and M. Jayaram. (1997). “Mechanism of active site exclusion in a site-specific recombinase: role of the DNA substrate in conferring half-of-the-sites activity.” Genes Dev. 11(22):3061-71.
Ahn, Y. T., X. L. Wu, S. Biswal, S. Velmurugan, F. C. Volkert, and M. Jayaram. (1997). “The 2micron-plasmid-encoded Rep1 and Rep2 proteins interact with each other and colocalize to the Saccharomyces cerevisiae nucleus.” J. Bacteriol. 179(23):7497-506.
Knudsen, B. R., K. Dahlstrom, O. Westergaard, and M. Jayaram. (1997). “The yeast site-specific recombinase Flp mediates alcoholysis and hydrolysis of the strand cleavage product: mimicking the strand-joining reaction with non-DNA nucleophiles.” J. Mol. Biol. 266(1):93-107.
Velmurugan, S., Y. T. Ahn, X. M. Yang, X. L. Wu, and M. Jayaram. (1998). “The 2 micron plasmid stability system: analyses of the interactions among plasmid- and host-encoded components.” Mol. Cell. Biol. 18(12): 7466-77.
Namgoong, S. Y., K. Kim, P. Saxena, J. Y. Yang, M. Jayaram, D. P. Giedroc, and R. M. Harshey. (1998). “Mutational analysis of domain II beta of bacteriophage Mu transposase: domains II alpha and II beta belong to different catalytic complementation groups.” J. Mol. Biol. 275(2):221-32.
Lee, J., Y. Voziyanov, S. Pathania, and M. Jayaram. (1998). “Structural alterations and conformational dynamics in Holliday junctions induced by binding of a site-specific recombinase.” Mol. Cell 1(4): 483-93.
Xu, C. J., I. Grainge, J. Lee, R. M. Harshey, and M. Jayaram. (1998). “Unveiling two distinct ribonuclease activities and a topoisomerase activity in a site-specific DNA recombinase.” Mol. Cell 1(5): 729-39.
Knudsen, B. R., J. Lee, M. Lisby, O. Westergaard, and M. Jayaram. (1998). “Alcoholysis and strand joining by the Flp site-specific recombinase. Mechanistically equivalent reactions mediated by distinct catalytic configurations.” J. Biol. Chem. 273(34): 22028-36.
Grainge I and Jayaram M. (1999). “The integrase family of recombinase: organization and function of the active site.” Mol. Microbiol. 33(3): 449-56.
Lee, J., M. Jayaram, and I. Grainge. (1999). “Wild-type Flp recombinase cleaves DNA in trans.” EMBO J. 18(3): 784-791.
Voziyanov, Y., S. Pathania, and M. Jayaram. (1999). “A general model for site-specific recombination by the integrase family recombinases.” Nucleic Acids Res. 27(4): 930-941. |
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