Makkuni Jayaram - Publications

University of Texas at Austin, Austin, Texas, U.S.A. 
Molecular Biology, Microbiology Biology

139 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
2020 Fan HF, Su BY, Ma CH, Rowley PA, Jayaram M. A bipartite thermodynamic-kinetic contribution by an activating mutation to RDF-independent excision by a phage serine integrase. Nucleic Acids Research. PMID 32479633 DOI: 10.1093/Nar/Gkaa401  0.4
2019 Ma CH, Su BY, Maciaszek A, Fan HF, Guga P, Jayaram M. A Flp-SUMO hybrid recombinase reveals multi-layered copy number control of a selfish DNA element through post-translational modification. Plos Genetics. 15: e1008193. PMID 31242181 DOI: 10.1371/Journal.Pgen.1008193  0.4
2019 Sau S, Ghosh SK, Liu YT, Ma CH, Jayaram M. Hitchhiking on chromosomes: A persistence strategy shared by diverse selfish DNA elements. Plasmid. PMID 30726706 DOI: 10.1016/J.Plasmid.2019.01.004  0.4
2018 Fan HF, Ma CH, Jayaram M. Single-Molecule Tethered Particle Motion: Stepwise Analyses of Site-Specific DNA Recombination. Micromachines. 9. PMID 30424148 DOI: 10.3390/Mi9050216  0.4
2016 Xia J, Chen LT, Mei Q, Ma CH, Halliday JA, Lin HY, Magnan D, Pribis JP, Fitzgerald DM, Hamilton HM, Richters M, Nehring RB, Shen X, Li L, Bates D, ... ... Jayaram M, et al. Holliday junction trap shows how cells use recombination and a junction-guardian role of RecQ helicase. Science Advances. 2: e1601605. PMID 28090586 DOI: 10.1126/Sciadv.1601605  0.4
2016 Fan HF, Hsieh TS, Ma CH, Jayaram M. Single-molecule analysis of ϕC31 integrase-mediated site-specific recombination by tethered particle motion. Nucleic Acids Research. 44: 10804-10823. PMID 27986956 DOI: 10.1093/Nar/Gkw861  0.4
2016 Liu YT, Chang KM, Ma CH, Jayaram M. Replication-dependent and independent mechanisms for the chromosome-coupled persistence of a selfish genome. Nucleic Acids Research. PMID 27492289 DOI: 10.1093/Nar/Gkw694  0.56
2015 Sau S, Liu YT, Ma CH, Jayaram M. Stable persistence of the yeast plasmid by hitchhiking on chromosomes during vegetative and germ-line divisions of host cells. Mobile Genetic Elements. 5: 1-8. PMID 26442178 DOI: 10.1080/2159256X.2015.1031359  0.4
2015 Jayaram M, Ma CH, Kachroo AH, Rowley PA, Guga P, Fan HF, Voziyanov Y. An Overview of Tyrosine Site-specific Recombination: From an Flp Perspective. Microbiology Spectrum. 3. PMID 26350308 DOI: 10.1128/Microbiolspec.Mdna3-0021-2014  0.4
2015 Cannon B, Kachroo AH, Jarmoskaite I, Jayaram M, Russell R. Hexapeptides That Inhibit Processing of Branched DNA Structures Induce a Dynamic Ensemble of Holliday Junction Conformations. The Journal of Biological Chemistry. 290: 22734-46. PMID 26209636 DOI: 10.1074/Jbc.M115.663930  0.56
2015 Rowley PA, Kachroo AH, Ma CH, Maciaszek AD, Guga P, Jayaram M. Stereospecific suppression of active site mutants by methylphosphonate substituted substrates reveals the stereochemical course of site-specific DNA recombination. Nucleic Acids Research. 43: 6023-37. PMID 25999343 DOI: 10.1093/Nar/Gkv513  0.56
2015 Fan HF, Cheng YS, Ma CH, Jayaram M. Single molecule TPM analysis of the catalytic pentad mutants of Cre and Flp site-specific recombinases: contributions of the pentad residues to the pre-chemical steps of recombination. Nucleic Acids Research. 43: 3237-55. PMID 25765648 DOI: 10.1093/Nar/Gkv114  0.56
2014 Yen-Ting-Liu, Sau S, Ma CH, Kachroo AH, Rowley PA, Chang KM, Fan HF, Jayaram M. The partitioning and copy number control systems of the selfish yeast plasmid: an optimized molecular design for stable persistence in host cells. Microbiology Spectrum. 2. PMID 25541598 DOI: 10.1128/microbiolspec.PLAS-0003-2013  0.56
2014 Sau S, Conrad MN, Lee CY, Kaback DB, Dresser ME, Jayaram M. A selfish DNA element engages a meiosis-specific motor and telomeres for germ-line propagation. The Journal of Cell Biology. 205: 643-61. PMID 24914236 DOI: 10.1083/Jcb.201312002  0.56
2014 Ma CH, Liu YT, Savva CG, Rowley PA, Cannon B, Fan HF, Russell R, Holzenburg A, Jayaram M. Organization of DNA partners and strand exchange mechanisms during Flp site-specific recombination analyzed by difference topology, single molecule FRET and single molecule TPM. Journal of Molecular Biology. 426: 793-815. PMID 24286749 DOI: 10.1016/J.Jmb.2013.11.017  0.56
2013 Jayaram M. Mathematical validation of a biological model for unlinking replication catenanes by recombination. Proceedings of the National Academy of Sciences of the United States of America. 110: 20854-5. PMID 24335590 DOI: 10.1073/Pnas.1321214111  0.56
2013 Fan HF, Ma CH, Jayaram M. Real-time single-molecule tethered particle motion analysis reveals mechanistic similarities and contrasts of Flp site-specific recombinase with Cre and λ Int. Nucleic Acids Research. 41: 7031-47. PMID 23737451 DOI: 10.1093/Nar/Gkt424  0.56
2013 Chan KM, Liu YT, Ma CH, Jayaram M, Sau S. The 2 micron plasmid of Saccharomyces cerevisiae: a miniaturized selfish genome with optimized functional competence. Plasmid. 70: 2-17. PMID 23541845 DOI: 10.1016/J.Plasmid.2013.03.001  0.56
2013 Jayaram M, Chang KM, Ma CH, Huang CC, Liu YT, Sau S. Topological similarity between the 2μm plasmid partitioning locus and the budding yeast centromere: evidence for a common evolutionary origin? Biochemical Society Transactions. 41: 501-7. PMID 23514143 DOI: 10.1042/Bst20120224  0.56
2013 Liu YT, Ma CH, Jayaram M. Co-segregation of yeast plasmid sisters under monopolin-directed mitosis suggests association of plasmid sisters with sister chromatids. Nucleic Acids Research. 41: 4144-58. PMID 23423352 DOI: 10.1093/Nar/Gkt096  0.56
2013 Ma CH, Cui H, Hajra S, Rowley PA, Fekete C, Sarkeshik A, Ghosh SK, Yates JR, Jayaram M. Temporal sequence and cell cycle cues in the assembly of host factors at the yeast 2 micron plasmid partitioning locus. Nucleic Acids Research. 41: 2340-53. PMID 23275556 DOI: 10.1093/Nar/Gks1338  0.56
2011 Huang CC, Chang KM, Cui H, Jayaram M. Histone H3-variant Cse4-induced positive DNA supercoiling in the yeast plasmid has implications for a plasmid origin of a chromosome centromere. Proceedings of the National Academy of Sciences of the United States of America. 108: 13671-6. PMID 21807992 DOI: 10.1073/Pnas.1101944108  0.56
2011 Huang CC, Hajra S, Ghosh SK, Jayaram M. Cse4 (CenH3) association with the Saccharomyces cerevisiae plasmid partitioning locus in its native and chromosomally integrated states: implications in centromere evolution. Molecular and Cellular Biology. 31: 1030-40. PMID 21173161 DOI: 10.1128/Mcb.01191-10  0.56
2010 Kachroo AH, Ma CH, Rowley PA, Maciaszek AD, Guga P, Jayaram M. Restoration of catalytic functions in Cre recombinase mutants by electrostatic compensation between active site and DNA substrate. Nucleic Acids Research. 38: 6589-601. PMID 20511594 DOI: 10.1093/nar/gkq466  0.56
2010 Rowley PA, Kachroo AH, Ma CH, Maciaszek AD, Guga P, Jayaram M. Electrostatic suppression allows tyrosine site-specific recombination in the absence of a conserved catalytic arginine. The Journal of Biological Chemistry. 285: 22976-85. PMID 20448041 DOI: 10.1074/jbc.M110.112292  0.56
2010 Ghosh SK, Huang CC, Hajra S, Jayaram M. Yeast cohesin complex embraces 2 micron plasmid sisters in a tri-linked catenane complex. Nucleic Acids Research. 38: 570-84. PMID 19920123 DOI: 10.1093/Nar/Gkp993  0.56
2009 Ma CH, Kachroo AH, Macieszak A, Chen TY, Guga P, Jayaram M. Reactions of Cre with methylphosphonate DNA: similarities and contrasts with Flp and vaccinia topoisomerase. Plos One. 4: e7248. PMID 19789629 DOI: 10.1371/journal.pone.0007248  0.56
2009 Kachroo AH, Jayaram M, Rowley PA. Metabolic engineering without plasmids. Nature Biotechnology. 27: 729-31. PMID 19668179 DOI: 10.1038/nbt0809-729  0.56
2009 Ma CH, Rowley PA, Macieszak A, Guga P, Jayaram M. Active site electrostatics protect genome integrity by blocking abortive hydrolysis during DNA recombination. The Embo Journal. 28: 1745-56. PMID 19440204 DOI: 10.1038/emboj.2009.131  0.56
2009 Cui H, Ghosh SK, Jayaram M. The selfish yeast plasmid uses the nuclear motor Kip1p but not Cin8p for its localization and equal segregation. The Journal of Cell Biology. 185: 251-64. PMID 19364922 DOI: 10.1083/Jcb.200810130  0.56
2009 Cui H, Ghosh S, Jayaram M. A plasmid goes motoring study suggests that parasitic dna hitchhikes to its nuclear address on motor protein Journal of Cell Biology. 185: 179. DOI: 10.1083/jcb.1852if  0.56
2007 Ghosh SK, Hajra S, Jayaram M. Faithful segregation of the multicopy yeast plasmid through cohesin-mediated recognition of sisters. Proceedings of the National Academy of Sciences of the United States of America. 104: 13034-9. PMID 17670945 DOI: 10.1073/Pnas.0702996104  0.56
2007 Yin Z, Suzuki A, Lou Z, Jayaram M, Harshey RM. Interactions of phage Mu enhancer and termini that specify the assembly of a topologically unique interwrapped transpososome. Journal of Molecular Biology. 372: 382-96. PMID 17669422 DOI: 10.1016/J.Jmb.2007.06.086  0.56
2007 Jayaram M. Split target specificity of ResT: a design for protein delivery, site selectivity and regulation of enzyme activity? Molecular Microbiology. 64: 575-9. PMID 17462008 DOI: 10.1111/j.1365-2958.2007.05700.x  0.56
2007 Ma CH, Kwiatek A, Bolusani S, Voziyanov Y, Jayaram M. Unveiling hidden catalytic contributions of the conserved His/Trp-III in tyrosine recombinases: assembly of a novel active site in Flp recombinase harboring alanine at this position. Journal of Molecular Biology. 368: 183-96. PMID 17367810 DOI: 10.1016/J.Jmb.2007.02.022  0.56
2007 Du Q, Livshits A, Kwiatek A, Jayaram M, Vologodskii A. Protein-induced local DNA bends regulate global topology of recombination products. Journal of Molecular Biology. 368: 170-82. PMID 17337001 DOI: 10.1016/J.Jmb.2007.02.010  0.56
2006 Harshey RM, Jayaram M. The mu transpososome through a topological lens. Critical Reviews in Biochemistry and Molecular Biology. 41: 387-405. PMID 17092824 DOI: 10.1080/10409230600946015  0.56
2006 Bolusani S, Ma CH, Paek A, Konieczka JH, Jayaram M, Voziyanov Y. Evolution of variants of yeast site-specific recombinase Flp that utilize native genomic sequences as recombination target sites. Nucleic Acids Research. 34: 5259-69. PMID 17003057 DOI: 10.1093/Nar/Gkl548  0.56
2006 Hajra S, Ghosh SK, Jayaram M. The centromere-specific histone variant Cse4p (CENP-A) is essential for functional chromatin architecture at the yeast 2-microm circle partitioning locus and promotes equal plasmid segregation. The Journal of Cell Biology. 174: 779-90. PMID 16966420 DOI: 10.1083/Jcb.200603042  0.56
2006 Ghosh SK, Hajra S, Paek A, Jayaram M. Mechanisms for chromosome and plasmid segregation. Annual Review of Biochemistry. 75: 211-41. PMID 16756491 DOI: 10.1146/Annurev.Biochem.75.101304.124037  0.56
2006 Mehta S, Yang XM, Jayaram M, Velmurugan S. Erratum: A novel role for the mitotic spindle during DNA segregation in yeast: Promoting 2μm Plasmid-Cohesin Association (Molecular and Cellular Biology (2005) 25, 10 (4283-4298)) Molecular and Cellular Biology. 26. DOI: 10.1128/Mcb.01041-06  0.52
2005 Dobson MJ, Pickett AJ, Velmurugan S, Pinder JB, Barrett LA, Jayaram M, Chew JS. The 2 microm plasmid causes cell death in Saccharomyces cerevisiae with a mutation in Ulp1 protease. Molecular and Cellular Biology. 25: 4299-310. PMID 15870298 DOI: 10.1128/Mcb.25.10.4299-4310.2005  0.56
2005 Mehta S, Yang XM, Jayaram M, Velmurugan S. A novel role for the mitotic spindle during DNA segregation in yeast: promoting 2 microm plasmid-cohesin association. Molecular and Cellular Biology. 25: 4283-98. PMID 15870297 DOI: 10.1128/Mcb.25.10.4283-4298.2005  0.56
2005 Yin Z, Jayaram M, Pathania S, Harshey RM. The Mu transposase interwraps distant DNA sites within a functional transpososome in the absence of DNA supercoiling. The Journal of Biological Chemistry. 280: 6149-56. PMID 15563455 DOI: 10.1074/Jbc.M411679200  0.56
2005 Voziyanov Y, Grainge I, Jayaram M. Applications of fungal site-specific recombination as a tool in biotechnology and basic biology Applied Mycology and Biotechnology. 5: 189-210. DOI: 10.1016/S1874-5334(05)80010-3  0.56
2004 Jayaram M, Mehta S, Uzri D, Voziyanov Y, Velmurugan S. Site-specific recombination and partitioning systems in the stable high copy propagation of the 2-micron yeast plasmid. Progress in Nucleic Acid Research and Molecular Biology. 77: 127-72. PMID 15196892 DOI: 10.1016/S0079-6603(04)77004-X  0.56
2004 Yang XM, Mehta S, Uzri D, Jayaram M, Velmurugan S. Mutations in a partitioning protein and altered chromatin structure at the partitioning locus prevent cohesin recruitment by the Saccharomyces cerevisiae plasmid and cause plasmid missegregation. Molecular and Cellular Biology. 24: 5290-303. PMID 15169893 DOI: 10.1128/Mcb.24.12.5290-5303.2004  0.56
2004 Konieczka JH, Paek A, Jayaram M, Voziyanov Y. Recombination of hybrid target sites by binary combinations of Flp variants: mutations that foster interprotomer collaboration and enlarge substrate tolerance. Journal of Molecular Biology. 339: 365-78. PMID 15136039 DOI: 10.1016/J.Jmb.2004.03.060  0.56
2004 Jayaram M, Mehta S, Uzri D, Velmurugan S. Segregation of the yeast plasmid: similarities and contrasts with bacterial plasmid partitioning. Plasmid. 51: 162-78. PMID 15109823 DOI: 10.1016/J.Plasmid.2004.02.005  0.56
2003 Velmurugan S, Mehta S, Jayaram M. Selfishness in moderation: evolutionary success of the yeast plasmid. Current Topics in Developmental Biology. 56: 1-24. PMID 14584724 DOI: 10.1016/S0070-2153(03)01005-6  0.56
2003 Velmurugan S, Mehta S, Uzri D, Jayaram M. Stable propagation of 'selfish' genetic elements. Journal of Biosciences. 28: 623-36. PMID 14517366 DOI: 10.1007/Bf02703338  0.56
2003 Pathania S, Jayaram M, Harshey RM. A unique right end-enhancer complex precedes synapsis of Mu ends: the enhancer is sequestered within the transpososome throughout transposition. The Embo Journal. 22: 3725-36. PMID 12853487 DOI: 10.1093/Emboj/Cdg354  0.56
2003 Voziyanov Y, Konieczka JH, Stewart AF, Jayaram M. Stepwise manipulation of DNA specificity in Flp recombinase: progressively adapting Flp to individual and combinatorial mutations in its target site. Journal of Molecular Biology. 326: 65-76. PMID 12547191 DOI: 10.1016/S0022-2836(02)01364-5  0.56
2003 Jayaram M, Chen L, Xi F. Functional modeling of complex mechatronic systems Proceedings of the Asme Design Engineering Technical Conference. 3: 413-422.  0.44
2002 Mehta S, Yang XM, Chan CS, Dobson MJ, Jayaram M, Velmurugan S. The 2 micron plasmid purloins the yeast cohesin complex: a mechanism for coupling plasmid partitioning and chromosome segregation? The Journal of Cell Biology. 158: 625-37. PMID 12177044 DOI: 10.1083/Jcb.200204136  0.56
2002 Grainge I, Pathania S, Vologodskii A, Harshey RM, Jayaram M. Symmetric DNA sites are functionally asymmetric within Flp and Cre site-specific DNA recombination synapses. Journal of Molecular Biology. 320: 515-27. PMID 12096907 DOI: 10.1016/S0022-2836(02)00517-X  0.56
2002 Pathania S, Jayaram M, Harshey RM. Path of DNA within the Mu transpososome. Transposase interactions bridging two Mu ends and the enhancer trap five DNA supercoils. Cell. 109: 425-36. PMID 12086600 DOI: 10.1016/S0092-8674(02)00728-6  0.56
2002 Voziyanov Y, Stewart AF, Jayaram M. A dual reporter screening system identifies the amino acid at position 82 in Flp site-specific recombinase as a determinant for target specificity. Nucleic Acids Research. 30: 1656-63. PMID 11917027 DOI: 10.1093/Nar/30.7.1656  0.56
2002 Chen L, Jayaram M, Xi JF. A new functional representation scheme for conceptual modeling of mechatronic systems Proceedings of the Asme Design Engineering Technical Conference. 4: 127-138.  0.44
2001 Grainge I, Lee J, Xu CJ, Jayaram M. DNA recombination and RNA cleavage activities of the Flp protein: Roles of two histidine residues in the orientation and activation of the nucleophile for strand cleavage Journal of Molecular Biology. 314: 717-733. PMID 11733992 DOI: 10.1006/Jmbi.2001.5194  0.56
2001 Sau AK, DeVue Tribble G, Grainge I, Frohlich RF, Knudsen BR, Jayaram M. Biochemical and kinetic analysis of the RNase active sites of the integrase/tyrosine family site-specific DNA recombinases. The Journal of Biological Chemistry. 276: 46612-23. PMID 11585826 DOI: 10.1074/Jbc.M106492200  0.56
2001 Lisby M, Olesen JR, Skouboe C, Krogh BO, Straub T, Boege F, Velmurugan S, Martensen PM, Andersen AH, Jayaram M, Westergaard O, Knudsen BR. Residues within the N-terminal domain of human topoisomerase I play a direct role in relaxation. The Journal of Biological Chemistry. 276: 20220-7. PMID 11283003 DOI: 10.1074/Jbc.M010991200  0.56
2001 Frøhlich RF, Hansen SG, Lisby M, Grainge I, Westergaard O, Jayaram M, Knudsen BR. Inhibition of Flp recombinase by the topoisomerase I-targeting drugs, camptothecin and NSC-314622. The Journal of Biological Chemistry. 276: 6993-7. PMID 11152668 DOI: 10.1074/Jbc.C000901200  0.56
2000 Grainge I, Buck D, Jayaram M. Geometry of site alignment during Int family recombination: Antiparallel synapsis by the Flp recombinase Journal of Molecular Biology. 298: 749-764. PMID 10801346 DOI: 10.1006/Jmbi.2000.3679  0.56
2000 Velmurugan S, Yang XM, Chan CS, Dobson M, Jayaram M. Partitioning of the 2-microm circle plasmid of Saccharomyces cerevisiae. Functional coordination with chromosome segregation and plasmid-encoded rep protein distribution. The Journal of Cell Biology. 149: 553-66. PMID 10791970 DOI: 10.1083/Jcb.149.3.553  0.56
2000 Tribble G, Ahn YT, Lee J, Dandekar T, Jayaram M. DNA recognition, strand selectivity, and cleavage mode during integrase family site-specific recombination Journal of Biological Chemistry. 275: 22255-22267. PMID 10748094 DOI: 10.1074/Jbc.M908261199  0.56
2000 Lee J, Tribble G, Jayaram M. Resolution of tethered antiparallel and parallel holliday junctions by the Flp site-specific recombinase Journal of Molecular Biology. 296: 403-419. PMID 10669597 DOI: 10.1006/Jmbi.1999.3472  0.56
1999 Grainge I, Jayaram M. The integrase family of recombinases: Organization and function of the active site Molecular Microbiology. 33: 449-456. PMID 10577069 DOI: 10.1046/J.1365-2958.1999.01493.X  0.56
1999 Voziyanov Y, Pathania S, Jayaram M. A general model for site-specific recombination by the integrase family recombinases. Nucleic Acids Research. 27: 930-41. PMID 9927723 DOI: 10.1093/Nar/27.4.930  0.56
1999 Lee J, Jayaram M, Grainge I. Wild-type Flp recombinase cleaves DNA in trans Embo Journal. 18: 784-791. PMID 9927438 DOI: 10.1093/Emboj/18.3.784  0.56
1998 Velmurugan S, Ahn YT, Yang XM, Wu XL, Jayaram M. The 2 micrometer plasmid stability system: analyses of the interactions among plasmid- and host-encoded components. Molecular and Cellular Biology. 18: 7466-77. PMID 9819432 DOI: 10.1128/Mcb.18.12.7466  0.56
1998 Xu CJ, Ahn YT, Pathania S, Jayaram M. Flp ribonuclease activities. Mechanistic similarities and contrasts to site-specific DNA recombination. The Journal of Biological Chemistry. 273: 30591-8. PMID 9804830 DOI: 10.1074/Jbc.273.46.30591  0.56
1998 Knudsen BR, Lee J, Lisby M, Westergaard O, Jayaram M. Alcoholysis and strand joining by the Flp site-specific recombinase: Mechanistically equivalent reactions mediated by distinct catalytic configurations Journal of Biological Chemistry. 273: 22028-22036. PMID 9705345 DOI: 10.1074/Jbc.273.34.22028  0.56
1998 Xu CJ, Grainge I, Lee J, Harshey RM, Jayaram M. Unveiling two distinct ribonuclease activities and a topoisomerase activity in a site-specific DNA recombinase Molecular Cell. 1: 729-739. PMID 9660956 DOI: 10.1016/S1097-2765(00)80072-6  0.56
1998 Lee J, Voziyanov Y, Pathania S, Jayaram M. Structural alterations and conformational dynamics in Holliday junctions induced by binding of a site-specific recombinase. Molecular Cell. 1: 483-93. PMID 9660933 DOI: 10.1016/S1097-2765(00)80049-0  0.56
1998 Namgoong SY, Kim K, Saxena P, Yang JY, Jayaram M, Giedroc DP, Harshey RM. Mutational analysis of domain IIβ of bacteriophage Mu transposase: Domains IIα and IIβ belong to different catalytic complementation groups Journal of Molecular Biology. 275: 221-232. PMID 9466905 DOI: 10.1006/Jmbi.1997.1466  0.56
1997 Ahn YT, Wu XL, Biswal S, Velmurugan S, Volkert FC, Jayaram M. The 2μm-plasmid-encoded Rep1 and Rep2 proteins interact with each other and colocalize to the Saccharomyces cerevisiae nucleus Journal of Bacteriology. 179: 7497-7506. PMID 9393716 DOI: 10.1128/Jb.179.23.7497-7506.1997  0.56
1997 Lee J, Tonozuka T, Jayaram M. Mechanism of active site exclusion in a site-specific recombinase: Role of the DNA substrate in conferring half-of-the-sites activity Genes and Development. 11: 3061-3071. PMID 9367987 DOI: 10.1101/Gad.11.22.3061  0.56
1997 Lee J, Jayaram M. A tetramer of the Flp recombinase silences the trimers within it during resolution of a Holliday junction substrate Genes and Development. 11: 2438-2447. PMID 9308970 DOI: 10.1101/Gad.11.18.2438  0.56
1997 Saxena P, Whang I, Voziyanov Y, Harkey C, Argos P, Jayaram M, Dandekar T. 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 Biochimica Et Biophysica Acta - Protein Structure and Molecular Enzymology. 1340: 187-204. PMID 9252106 DOI: 10.1016/S0167-4838(97)00017-4  0.56
1997 Jayaram M. The cis-trans paradox of integrase Science. 276: 49-51. PMID 9122709 DOI: 10.1126/Science.276.5309.49  0.56
1997 Knudsen BR, Dahlstrøm K, Westergaard O, Jayaram M. The yeast site-specific recombinase Flp mediates alcoholysis and hydrolysis of the strand cleavage product: Mimicking the strand-joining reaction with non-DNA nucleophiles Journal of Molecular Biology. 266: 93-107. PMID 9054973 DOI: 10.1006/Jmbi.1996.0767  0.56
1996 Lee J, Whang I, Jayaram M. Assembly and orientation of Flp recombinase active sites on two-, three- and four-armed DNA substrates: Implications for a recombination mechanism Journal of Molecular Biology. 257: 532-549. PMID 8648622 DOI: 10.1006/Jmbi.1996.0183  0.56
1996 Voziyanov Y, Lee J, Whang I, Jayaram M. Analyses of the first chemical step in Flp site-specific recombination: Synapsis may not be a pre-requisite for strand cleavage Journal of Molecular Biology. 256: 720-735. PMID 8642593 DOI: 10.1006/Jmbi.1996.0120  0.56
1996 Yang JY, Jayaram M, Harshey RM. Positional information within the MU transposase tetramer: Catalytic contributions of individual monomers Cell. 85: 447-455. PMID 8616899 DOI: 10.1016/S0092-8674(00)81122-8  0.56
1995 Jayaram M, Lee J. Return to sobriety after the catalytic party Trends in Genetics. 11: 432-433. PMID 8578599 DOI: 10.1016/S0168-9525(00)89140-4  0.56
1995 Lee J, Jayaram M. Role of partner homology in DNA recombination: Complementary base pairing orients the 5′-hydroxyl for strand joining during Flp site-specific recombination Journal of Biological Chemistry. 270: 4042-4052. PMID 7876153 DOI: 10.1074/Jbc.270.8.4042  0.56
1995 Kim K, Namgoong SY, Jayaram M, Harshey RM. Step-arrest mutants of Phage Mu transposase: Implications in DNA-protein assembly, Mu end cleavage, and strand transfer Journal of Biological Chemistry. 270: 1472-1479. PMID 7836417 DOI: 10.1074/Jbc.270.3.1472  0.56
1995 Yang JY, Kim K, Jayaram M, Harshey RM. A domain sharing model for active site assembly within the Mu A tetramer during transposition: The enhancer may specify domain contributions Embo Journal. 14: 2374-2384. PMID 7774595 DOI: 10.1002/J.1460-2075.1995.Tb07232.X  0.56
1995 Kimball AS, Kimball ML, Jayaram M, Tullius TD. Chemical probe and missing nucleoside analysis of flp recombinase bound to the recombination target sequence Nucleic Acids Research. 23: 3009-3017. PMID 7659525 DOI: 10.1093/Nar/23.15.3009  0.56
1995 Lee J, Jayaram M. Junction mobility and resolution of holliday structures by Flp site-specific recombinase: Testing partner compatibility during recombination Journal of Biological Chemistry. 270: 19086-19092. PMID 7642573 DOI: 10.1074/Jbc.270.32.19086  0.56
1995 Yang JY, Jayaram M, Harshey RM. Enhancer-independent variants of phage Mu transposase: Enhancer-specific stimulation of catalytic activity by a partner transposase Genes and Development. 9: 2545-2555. PMID 7590234 DOI: 10.1101/Gad.9.20.2545  0.56
1995 Lee J, Jayaram M. Functional roles of individual recombinase monomers in strand breakage and strand union during site-specific DNA recombination Journal of Biological Chemistry. 270: 23203-23211. PMID 7559468 DOI: 10.1074/Jbc.270.39.23203  0.56
1995 Yang JY, Kim K, Jayaram M, Harshey RM. Corrignedum: A domain sharing model for active site assembly within the Mu A tetramer during transposition: The enhancer may specify domain contributions (The Embo Journal (1995) 14 (2374-2384)) Embo Journal. 14: 3596.  0.56
1994 Namgoong SY, Jayaram M, Kim K, Harshey RM. DNA-protein cooperativity in the assembly and stabilization of Mu strand transfer complex: Relevance of DNA phasing and att site cleavage Journal of Molecular Biology. 238: 514-527. PMID 8176742 DOI: 10.1006/Jmbi.1994.1311  0.56
1994 Yang SH, Jayaram M. Generality of the shared active site among yeast family site-specific recombinases. The ARg site-specific recombinase follows the Flp paradigm Journal of Biological Chemistry. 269: 12789-12796. PMID 8175691  0.56
1994 Jayaram M. Phosphoryl transfer in Flp recombination: a template for strand transfer mechanisms Trends in Biochemical Sciences. 19: 78-82. PMID 8160270 DOI: 10.1016/0968-0004(94)90039-6  0.56
1994 Lee J, Whang I, Jayaram M. Directed protein replacement in recombination full sites reveals trans-horizontal DNA cleavage by Flp recombinase Embo Journal. 13: 5346-5354. PMID 7957100 DOI: 10.1002/J.1460-2075.1994.Tb06869.X  0.56
1994 Whang I, Lee J, Jayaram M. Active-site assembly and mode of DNA cleavage by Flp recombinase during full-site recombination Molecular and Cellular Biology. 14: 7492-7498. PMID 7935464 DOI: 10.1128/Mcb.14.11.7492  0.56
1993 Kimball AS, Lee J, Jayaram M, Tullius TD. Sequence-specific cleavage of DNA via nucleophilic attack of hydrogen peroxide, assisted by Flp recombinase Biochemistry. 32: 4698-4701. PMID 8490015 DOI: 10.1021/Bi00069A002  0.56
1993 Serre MC, Lei-Zheng, Jayaram M. DNA splicing by an active site mutant of Flp recombinase: Possible catalytic cooperativity between the inactive protein and its DNA substrate Journal of Biological Chemistry. 268: 455-463. PMID 8416950  0.56
1993 Lee J, Jayaram M. Mechanism of site-specific recombination: Logic of assembling recombinase catalytic site from fractional active sites Journal of Biological Chemistry. 268: 17564-17570. PMID 8349636  0.56
1993 Chen JW, Yang SH, Jayaram M. 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 Journal of Biological Chemistry. 268: 14417-14425. PMID 8314800  0.56
1993 Miyazaki A, Momany M, Szaniszlo PJ, Jayaram M, Ootaki T. Chitin synthase-encoding gene(s) of the Zygomycete fungus Phycomyces blakesleeanus. Gene. 134: 129-34. PMID 8244024 DOI: 10.1016/0378-1119(93)90186-7  0.56
1993 Jayaram M. Introduction Cellular and Molecular Biology Research. 39: 309.  0.56
1992 Serre MC, Jayaram M. Half-site strand transfer by step-arrest mutants of yeast site-specific recombinase Flp Journal of Molecular Biology. 225: 643-649. PMID 1602475 DOI: 10.1016/0022-2836(92)90391-V  0.56
1992 Serre MC, Evans BR, Araki H, Oshima Y, Jayaram M. Half-site recombinations mediated by yeast site-specific recombinases Flp and R. Journal of Molecular Biology. 225: 621-42. PMID 1602474 DOI: 10.1016/0022-2836(92)90390-6  0.56
1992 Chen JW, Lee J, Jayaram M. DNA cleavage in trans by the active site tyrosine during Flp recombination: Switching protein partners before exchanging strands Cell. 69: 647-658. PMID 1586945 DOI: 10.1016/0092-8674(92)90228-5  0.56
1992 Araki H, Nakanishi N, Evans BR, Matsuzaki H, Jayaram M, Oshima Y. Site-specific recombinase, R, encoded by yeast plasmid pSR1. Journal of Molecular Biology. 225: 25-37. PMID 1583692 DOI: 10.1016/0022-2836(92)91023-I  0.56
1992 Chen JW, Evans BR, Yang SH, Araki H, Oshima Y, Jayaram M. Functional analysis of box I mutations in yeast site-specific recombinases Flp and R: pairwise complementation with recombinase variants lacking the active-site tyrosine. Molecular and Cellular Biology. 12: 3757-65. PMID 1508181 DOI: 10.1128/Mcb.12.9.3757  0.56
1992 Lee J, Serre MC, Yang SH, Whang I, Araki H, Oshima Y, Jayaram M. 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 Journal of Molecular Biology. 228: 1091-1103. PMID 1474580 DOI: 10.1016/0022-2836(92)90317-D  0.56
1992 Jing-Wen C, Evans B, Rosenfeldt H, Jayaram M. Bending-incompetent variants of Flp recombinase mediate strand transfer in half-site recombinations: role of DNA bending in recombination Gene. 119: 37-48. PMID 1398089 DOI: 10.1016/0378-1119(92)90064-V  0.56
1991 Chen JW, Evans BR, Yang SH, Teplow DB, Jayaram M. Domain of a yeast site-specific recombinase (Flp) that recognizes its target site. Proceedings of the National Academy of Sciences of the United States of America. 88: 5944-8. PMID 2068070 DOI: 10.1073/Pnas.88.14.5944  0.56
1991 Chen JW, Evans BR, Zheng L, Jayaram M. Tyr60 variants of Flp recombinase generate conformationally altered protein-DNA complexes. Differential activity in full-site and half-site recombinations. Journal of Molecular Biology. 218: 107-18. PMID 2002496 DOI: 10.1016/0022-2836(91)90877-9  0.56
1991 Kuo CF, Zou A, Jayaram M, Getzoff E, Harshey R. DNA-protein complexes during attachment-site synapsis in Mu DNA transposition Embo Journal. 10: 1585-1591. PMID 1851088  0.56
1991 Ootaki T, Miyazaki A, Fukui J, Kimura Y, Umemura S, Okazaki R, Jayaram M. A high efficient method for introduction of exogenous genes into Phycomyces blakesleeanus Japanese Journal of Genetics. 66: 189-195. DOI: 10.1266/Jjg.66.189  0.56
1990 Parsons RL, Evans BR, Zheng L, Jayaram M. Functional analysis of Arg-308 mutants of Flp recombinase. Possible role of Arg-308 in coupling substrate binding to catalysis. The Journal of Biological Chemistry. 265: 4527-33. PMID 2407737  0.56
1988 Lebreton B, Prasad PV, Jayaram M, Youderian P. Mutations that improve the binding of yeast FLP recombinase to its substrate Genetics. 118: 393-400. PMID 3284782  0.56
1988 Choi HT, Revuelta JL, Sadhu C, Jayaram M. Structural organization of the TRP1 gene of Phycomyces blakesleeanus: implications for evolutionary gene fusion in fungi Gene. 71: 85-95. PMID 3215529 DOI: 10.1016/0378-1119(88)90080-7  0.56
1988 Jayaram M, Crain KL, Parsons RL, Harshey RM. Holliday junctions in FLP recombination: resolution by step-arrest mutants of FLP protein. Proceedings of the National Academy of Sciences of the United States of America. 85: 7902-6. PMID 3054874 DOI: 10.1073/Pnas.85.21.7902  0.56
1988 Parsons RL, Prasad PV, Harshey RM, Jayaram M. Step-arrest mutants of FLP recombinase: implications for the catalytic mechanism of DNA recombination. Molecular and Cellular Biology. 8: 3303-10. PMID 2974924 DOI: 10.1128/Mcb.8.8.3303  0.56
1988 Jayaram M. The Int family of site-specific recombinases: Some thoughts on a general reaction mechanism Journal of Genetics. 67: 29-36. DOI: 10.1007/BF02927735  0.56
1987 Prasad PV, Young LJ, Jayaram M. Mutations in the 2-microns circle site-specific recombinase that abolish recombination without affecting substrate recognition. Proceedings of the National Academy of Sciences of the United States of America. 84: 2189-93. PMID 3104911  0.56
1987 Revuelta JL, Jayaram M. Phycomyces blakesleeanus TRP1 gene: organization and functional complementation in Escherichia coli and Saccharomyces cerevisiae Molecular and Cellular Biology. 7: 2664-2670. PMID 2823101  0.56
1987 Govind NS, Jayaram M. Rapid localization and characterization of random mutations within the 2μ circle site-specific recombinase: a general strategy for analysis of protein function Gene. 57: 149. DOI: 10.1016/0378-1119(87)90471-9  0.56
1986 Prasad PV, Horensky D, Young LJ, Jayaram M. Substrate recognition by the 2 micron circle site-specific recombinase: effect of mutations within the symmetry elements of the minimal substrate. Molecular and Cellular Biology. 6: 4329-34. PMID 3796604  0.56
1986 Revuelta JL, Jayaram M. Transformation of Phycomyces blakesleeanus to G-418 resistance by an autonomously replicating plasmid Proceedings of the National Academy of Sciences of the United States of America. 83: 7344-7347. PMID 3532110  0.56
1986 Jayaram M. Association of reciprocal exchange with gene conversion between the repeated segments of 2-μm circle Journal of Molecular Biology. 191: 341-354. PMID 3029381 DOI: 10.1016/0022-2836(86)90131-2  0.56
1986 Jayaram M. Mating type-like conversion promoted by the 2 micrograms circle site-specific recombinase: implications for the double-strand-gap repair model Molecular and Cellular Biology. 6: 3831-3837. PMID 3025614  0.56
1986 Jayaram M, Sumida S, Young LJ. Inducible expression of REP1 causes inducible expression of the 2 micron circle stability system. Current Genetics. 11: 85-91. PMID 2834084 DOI: 10.1007/BF00378198  0.56
1985 Jayaram M, Sutton A, Broach JR. Properties of REP3: A cis-acting locus required for stable propagation of the Saccharomyces cerevisiae plasmid 2μm circle Molecular and Cellular Biology. 5: 2466-2475. PMID 3915543 DOI: 10.1128/Mcb.5.9.2466  0.56
1985 Jayaram M. Two-micrometer circle site-specific recombination: The minimal substrate and the possible role of flanking sequences Proceedings of the National Academy of Sciences of the United States of America. 82: 5875-5879. PMID 3898075  0.56
1983 Jayaram M, Li YY, Broach JR. The yeast plasmid 2μ circle encodes components required for its high copy propagation Cell. 34: 95-104. PMID 6883512 DOI: 10.1016/0092-8674(83)90139-3  0.56
1983 Broach JR, Li YY, Feldman J, Jayaram M, Abraham J, Nasmyth KA, Hicks JB. Localization and sequence analysis of yeast origins of DNA replication. Cold Spring Harbor Symposia On Quantitative Biology. 47: 1165-73. PMID 6345070 DOI: 10.1101/Sqb.1983.047.01.132  0.56
1983 Jayaram M, Broach JR. Yeast plasmide 2-μm circle promotes recombination within bacterial transposon Tn5 Proceedings of the National Academy of Sciences of the United States of America. 80: 7264-7268. PMID 6316350 DOI: 10.1073/Pnas.80.23.7264  0.56
1982 Broach JR, Guarascio VR, Jayaram M. Recombination within the yeast plasmid 2μ circle is site-specific Cell. 29: 227-234. PMID 6286142 DOI: 10.1016/0092-8674(82)90107-6  0.56
1981 Otto MK, Jayaram M, Hamilton RM, Delbruck M. Replacement of riboflavin by an analogue in the blue-light photoreceptor of Phycomyces Proceedings of the National Academy of Sciences of the United States of America. 78: 266-269.  0.56
1979 Jayaram M, Presti D, Delbrück M. Light-induced carotene synthesis in Phycomyces Experimental Mycology. 3: 42-52. DOI: 10.1016/S0147-5975(79)80017-1  0.56
1979 Harshey RM, Jayaram M, Chamberlin ME. DNA sequence organization in Phycomyces blakesleeanus Chromosoma. 73: 143-151. DOI: 10.1007/BF00331567  0.56
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