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Michael G. Fried, Ph.D. - Publications

Affiliations: 
Molecular and Cellular Biochemisry University of Kentucky, Lexington, KY 
Area:
Protein-nucleic acid interactions
Website:
http://biochemistry.med.uky.edu/users/mgfrie2
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68 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
2018 Fried MG, Melikishvili M. Quaternary Interactions and DNA Twist Modulate the Cooperative Binding of AGT Biophysical Journal. 114. DOI: 10.1016/J.Bpj.2017.11.488  0.337
2017 Melikishvili M, Fried MG. Quaternary interactions and supercoiling modulate the cooperative DNA binding of AGT. Nucleic Acids Research. PMID 28575445 DOI: 10.1093/Nar/Gkx223  0.36
2016 Chicka MC, Ren Q, Richards D, Hellman LM, Zhang J, Fried MG, Whiteheart SW. Role of Munc13-4 as a Ca2+-dependent tether during platelet secretion. The Biochemical Journal. 473: 627-39. PMID 26637270 DOI: 10.1042/Bj20151150  0.541
2015 Melikishvili M, Fried MG. Resolving the contributions of two cooperative mechanisms to the DNA Binding of AGT. Biopolymers. 103: 509-16. PMID 26017689 DOI: 10.1002/Bip.22684  0.369
2015 Fried MG, Melikishvili M, Tessmer I. Cooperativity and Supercoiling Modulate Functions of Human O6-alkylguanine DNA Alkyltransferase Biophysical Journal. 108. DOI: 10.1016/J.Bpj.2014.11.1036  0.367
2014 Hellman LM, Spear TJ, Koontz CJ, Melikishvili M, Fried MG. Repair of O6-methylguanine adducts in human telomeric G-quadruplex DNA by O6-alkylguanine-DNA alkyltransferase. Nucleic Acids Research. 42: 9781-91. PMID 25080506 DOI: 10.1093/Nar/Gku659  0.586
2014 Tessmer I, Fried MG. Insight into the cooperative DNA binding of the O⁶-alkylguanine DNA alkyltransferase. Dna Repair. 20: 14-22. PMID 24553127 DOI: 10.1016/J.Dnarep.2014.01.006  0.358
2013 Smith EC, Smith SE, Carter JR, Webb SR, Gibson KM, Hellman LM, Fried MG, Dutch RE. Trimeric transmembrane domain interactions in paramyxovirus fusion proteins: roles in protein folding, stability, and function. The Journal of Biological Chemistry. 288: 35726-35. PMID 24178297 DOI: 10.1074/Jbc.M113.514554  0.575
2012 Melikishvili M, Fried MG. Lesion-specific DNA-binding and repair activities of human O⁶-alkylguanine DNA alkyltransferase. Nucleic Acids Research. 40: 9060-72. PMID 22810209 DOI: 10.1093/Nar/Gks674  0.342
2012 Tessmer I, Melikishvili M, Fried MG. Cooperative cluster formation, DNA bending and base-flipping by O6-alkylguanine-DNA alkyltransferase. Nucleic Acids Research. 40: 8296-308. PMID 22730295 DOI: 10.1093/Nar/Gks574  0.333
2012 Smith EC, Culler MR, Hellman LM, Fried MG, Creamer TP, Dutch RE. Beyond anchoring: the expanding role of the hendra virus fusion protein transmembrane domain in protein folding, stability, and function. Journal of Virology. 86: 3003-13. PMID 22238302 DOI: 10.1128/Jvi.05762-11  0.571
2012 Popa A, Carter JR, Smith SE, Hellman L, Fried MG, Dutch RE. Residues in the hendra virus fusion protein transmembrane domain are critical for endocytic recycling. Journal of Virology. 86: 3014-26. PMID 22238299 DOI: 10.1128/Jvi.05826-11  0.533
2012 Fried MG, Tessmer I, Melikishvili M. Substrate Interactions of a Human DNA Alkyltransferase Biophysical Journal. 102: 485a. DOI: 10.1016/J.Bpj.2011.11.2660  0.383
2012 Elverson HE, Hellman LM, Melikishvili M, Zhao C, Whiteheart SW, Fried MG. Histidine-Tag-Specific Optical Probes for Analytical Ultracentrifugation Analysis Biophysical Journal. 102: 483a-484a. DOI: 10.1016/J.Bpj.2011.11.2650  0.591
2011 Melikishvili M, Rodgers DW, Fried MG. 6-Carboxyfluorescein and structurally similar molecules inhibit DNA binding and repair by O⁶-alkylguanine DNA alkyltransferase. Dna Repair. 10: 1193-202. PMID 21982443 DOI: 10.1016/J.Dnarep.2011.09.007  0.362
2011 Adams CA, Fried MG. Mutations that probe the cooperative assembly of O⁶-alkylguanine-DNA alkyltransferase complexes. Biochemistry. 50: 1590-8. PMID 21226457 DOI: 10.1021/Bi101970D  0.371
2011 Hellman LM, Zhao C, Melikishvili M, Tao X, Hopper JE, Whiteheart SW, Fried MG. Histidine-tag-directed chromophores for tracer analyses in the analytical ultracentrifuge. Methods (San Diego, Calif.). 54: 31-8. PMID 21187151 DOI: 10.1016/J.Ymeth.2010.12.033  0.564
2010 Burns LH, Adams CA, Riley SP, Jutras BL, Bowman A, Chenail AM, Cooley AE, Haselhorst LA, Moore AM, Babb K, Fried MG, Stevenson B. BpaB, a novel protein encoded by the Lyme disease spirochete's cp32 prophages, binds to erp Operator 2 DNA. Nucleic Acids Research. 38: 5443-55. PMID 20421207 DOI: 10.1093/Nar/Gkq284  0.362
2010 Parker MW, Hellman LM, Xu P, Fried MG, Vander Kooi CW. Furin processing of semaphorin 3F determines its anti-angiogenic activity by regulating direct binding and competition for neuropilin. Biochemistry. 49: 4068-75. PMID 20387901 DOI: 10.1021/Bi100327R  0.552
2010 Zhao C, Hellman LM, Zhan X, Bowman WS, Whiteheart SW, Fried MG. Hexahistidine-tag-specific optical probes for analyses of proteins and their interactions. Analytical Biochemistry. 399: 237-45. PMID 20036207 DOI: 10.1016/J.Ab.2009.12.028  0.592
2010 Hellman LM, Rodgers DW, Fried MG. Phenomenological partial-specific volumes for G-quadruplex DNAs. European Biophysics Journal : Ebj. 39: 389-96. PMID 19238377 DOI: 10.1007/S00249-009-0411-7  0.575
2010 Zhao C, Hellman LM, Zhan X, Whiteheart SW, Fried MG. (his)6-Tag-Specific Optical Probes For Analyses of Proteins and Their Interactions Biophysical Journal. 98: 60a. DOI: 10.1016/J.Bpj.2009.12.345  0.588
2009 Melikishvili M, Hellman LM, Fried MG. Use of DNA length variation to detect periodicities in positively cooperative, nonspecific binding. Methods in Enzymology. 466: 65-81. PMID 21609858 DOI: 10.1016/S0076-6879(09)66004-3  0.606
2009 Cooley AE, Riley SP, Kral K, Miller MC, DeMoll E, Fried MG, Stevenson B. DNA-binding by Haemophilus influenzae and Escherichia coli YbaB, members of a widely-distributed bacterial protein family. Bmc Microbiology. 9: 137. PMID 19594923 DOI: 10.1186/1471-2180-9-137  0.357
2009 Tubbs JL, Latypov V, Kanugula S, Butt A, Melikishvili M, Kraehenbuehl R, Fleck O, Marriott A, Watson AJ, Verbeek B, McGown G, Thorncroft M, Santibanez-Koref MF, Millington C, Arvai AS, ... ... Fried MG, et al. Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature. 459: 808-13. PMID 19516334 DOI: 10.1038/Nature08076  0.342
2009 Adams CA, Melikishvili M, Rodgers DW, Rasimas JJ, Pegg AE, Fried MG. Topologies of complexes containing O6-alkylguanine-DNA alkyltransferase and DNA. Journal of Molecular Biology. 389: 248-63. PMID 19358853 DOI: 10.1016/J.Jmb.2009.03.067  0.368
2009 Riley SP, Bykowski T, Cooley AE, Burns LH, Babb K, Brissette CA, Bowman A, Rotondi M, Miller MC, DeMoll E, Lim K, Fried MG, Stevenson B. Borrelia burgdorferi EbfC defines a newly-identified, widespread family of bacterial DNA-binding proteins. Nucleic Acids Research. 37: 1973-83. PMID 19208644 DOI: 10.1093/Nar/Gkp027  0.37
2008 Melikishvili M, Rasimas JJ, Pegg AE, Fried MG. Interactions of human O(6)-alkylguanine-DNA alkyltransferase (AGT) with short double-stranded DNAs. Biochemistry. 47: 13754-63. PMID 19061338 DOI: 10.1021/Bi801666C  0.376
2008 Lu P, Liu J, Melikishvili M, Fried MG, Chi YI. Crystallization of hepatocyte nuclear factor 4 alpha (HNF4 alpha) in complex with the HNF1 alpha promoter element. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 64: 313-7. PMID 18391435 DOI: 10.1107/S1744309108007136  0.315
2008 Hellman LM, Tackett WJ, Lawson EL, Fried MG. Cold Denaturation of Quadruplex DNA The Faseb Journal. 22: 192-192. DOI: 10.1096/Fasebj.22.2_Supplement.192  0.578
2007 Hellman LM, Fried MG. Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions. Nature Protocols. 2: 1849-61. PMID 17703195 DOI: 10.1038/Nprot.2007.249  0.562
2007 Rasimas JJ, Kar SR, Pegg AE, Fried MG. Interactions of human O6-alkylguanine-DNA alkyltransferase (AGT) with short single-stranded DNAs. The Journal of Biological Chemistry. 282: 3357-66. PMID 17138560 DOI: 10.1074/Jbc.M608876200  0.375
2007 Stickle DF, Fried MG. Cation binding linked to a sequence-specific CAP-DNA interaction. Biophysical Chemistry. 126: 106-16. PMID 16782261 DOI: 10.1016/J.Bpc.2006.05.016  0.367
2004 Surguladze N, Thompson KM, Beard JL, Connor JR, Fried MG. Interactions and reactions of ferritin with DNA. The Journal of Biological Chemistry. 279: 14694-702. PMID 14734543 DOI: 10.1074/Jbc.M313348200  0.335
2004 Rasimas JJ, Dalessio PA, Ropson IJ, Pegg AE, Fried MG. Active-site alkylation destabilizes human O6-alkylguanine DNA alkyltransferase. Protein Science : a Publication of the Protein Society. 13: 301-5. PMID 14691244 DOI: 10.1110/Ps.03319404  0.332
2003 Rasimas JJ, Kanugula S, Dalessio PM, Ropson IJ, Fried MG, Pegg AE. Effects of zinc occupancy on human O6-alkylguanine-DNA alkyltransferase. Biochemistry. 42: 980-90. PMID 12549918 DOI: 10.1021/Bi026970B  0.334
2003 Rasimas JJ, Pegg AE, Fried MG. DNA-binding mechanism of O6-alkylguanine-DNA alkyltransferase. Effects of protein and DNA alkylation on complex stability. The Journal of Biological Chemistry. 278: 7973-80. PMID 12496275 DOI: 10.1074/Jbc.M211854200  0.359
2002 Fried MG, Stickle DF, Smirnakis KV, Adams C, MacDonald D, Lu P. Role of hydration in the binding of lac repressor to DNA. The Journal of Biological Chemistry. 277: 50676-82. PMID 12379649 DOI: 10.1074/Jbc.M208540200  0.314
2002 Dyckman D, Fried MG. The Escherichia coli cyclic AMP receptor protein forms a 2:2 complex with RNA polymerase holoenzyme, in vitro. The Journal of Biological Chemistry. 277: 19064-70. PMID 11904295 DOI: 10.1074/Jbc.M110554200  0.302
2001 Fried MG, Daugherty MA. In vitro interaction of the Escherichia coli cyclic AMP receptor protein with the lactose repressor. The Journal of Biological Chemistry. 276: 11226-9. PMID 11152685 DOI: 10.1074/Jbc.M009087200  0.355
2000 Daugherty MA, Brenowitz M, Fried MG. Participation of the amino-terminal domain in the self-association of the full-length yeast TATA binding protein. Biochemistry. 39: 4869-80. PMID 10769145 DOI: 10.1021/Bi992423N  0.332
1998 Fried MG, Daugherty MA. Electrophoretic analysis of multiple protein-DNA interactions. Electrophoresis. 19: 1247-53. PMID 9694259 DOI: 10.1002/Elps.1150190804  0.347
1998 Magoulas C, Zatsepina OV, Jordan PW, Jordan EG, Fried M. The SURF-6 protein is a component of the nucleolar matrix and has a high binding capacity for nucleic acids in vitro. European Journal of Cell Biology. 75: 174-83. PMID 9548374 DOI: 10.1016/S0171-9335(98)80059-9  0.312
1997 Vossen KM, Wolz R, Daugherty MA, Fried MG. Role of macromolecular hydration in the binding of the Escherichia coli cyclic AMP receptor to DNA. Biochemistry. 36: 11640-7. PMID 9305953 DOI: 10.1021/Bi971193E  0.322
1997 Fried MG, Bromberg JL. Factors that affect the stability of protein-DNA complexes during gel electrophoresis. Electrophoresis. 18: 6-11. PMID 9059813 DOI: 10.1002/Elps.1150180103  0.335
1997 Vossen KM, Fried MG. Sequestration stabilizes lac repressor-DNA complexes during gel electrophoresis. Analytical Biochemistry. 245: 85-92. PMID 9025972 DOI: 10.1006/Abio.1996.9944  0.35
1996 Fried MG, Kanugula S, Bromberg JL, Pegg AE. DNA binding mechanism of O6-alkylguanine-DNA alkyltransferase: stoichiometry and effects of DNA base composition and secondary structure on complex stability. Biochemistry. 35: 15295-301. PMID 8952480 DOI: 10.1021/Bi960971K  0.361
1996 Vossen KM, Stickle DF, Fried MG. The mechanism of CAP-lac repressor binding cooperativity at the E. coli lactose promoter. Journal of Molecular Biology. 255: 44-54. PMID 8568874 DOI: 10.1006/Jmbi.1996.0005  0.343
1994 Stickle DF, Vossen KM, Riley DA, Fried MG. Free DNA concentration in E. coli estimated by an analysis of competition for DNA binding proteins. Journal of Theoretical Biology. 168: 1-12. PMID 8022188 DOI: 10.1006/Jtbi.1994.1082  0.375
1994 Stickle DF, Liu G, Fried MG. Analysis of the thermodynamic linkage of DNA binding and ion binding for dimeric and tetrameric forms of the lac repressor. European Journal of Biochemistry / Febs. 226: 869-76. PMID 7813477 DOI: 10.1111/J.1432-1033.1994.00869.X  0.329
1994 Fried MG, Liu G. Molecular sequestration stabilizes CAP-DNA complexes during polyacrylamide gel electrophoresis. Nucleic Acids Research. 22: 5054-9. PMID 7800499 DOI: 10.1093/Nar/22.23.5054  0.344
1993 Gerstle JT, Fried MG. Measurement of binding kinetics using the gel electrophoresis mobility shift assay. Electrophoresis. 14: 725-31. PMID 8404816 DOI: 10.1002/Elps.11501401115  0.306
1993 Hudson JM, Crowe M, Fried MG. Effects of anions on the binding of the cAMP receptor protein to the lactose promoter. European Journal of Biochemistry / Febs. 212: 539-48. PMID 8383049 DOI: 10.1111/J.1432-1033.1993.Tb17691.X  0.364
1993 Fried MG, Stickle DF. Ion-exchange reactions of proteins during DNA binding. European Journal of Biochemistry / Febs. 218: 469-75. PMID 8269936 DOI: 10.1111/J.1432-1033.1993.Tb18398.X  0.361
1992 Gaston K, Bell A, Busby S, Fried M. A comparison of the DNA bending activities of the DNA binding proteins CRP and TFIID. Nucleic Acids Research. 20: 3391-6. PMID 1630910 DOI: 10.1093/Nar/20.13.3391  0.368
1991 Hudson JM, Fried MG. The binding of cyclic AMP receptor protein to two lactose promoter sites is not cooperative in vitro. Journal of Bacteriology. 173: 59-66. PMID 1987134 DOI: 10.1128/Jb.173.1.59-66.1991  0.354
1990 Hudson JM, Fried MG. Co-operative interactions between the catabolite gene activator protein and the lac repressor at the lactose promoter. Journal of Molecular Biology. 214: 381-96. PMID 2166165 DOI: 10.1016/0022-2836(90)90188-R  0.381
1989 Fried MG. Measurement of protein-DNA interaction parameters by electrophoresis mobility shift assay. Electrophoresis. 10: 366-76. PMID 2670548 DOI: 10.1002/Elps.1150100515  0.35
1984 Fried MG, Bloomfield VA. DNA gelation in concentrated solutions. Biopolymers. 23: 2141-55. PMID 6498295 DOI: 10.1002/Bip.360231104  0.544
1984 Fried MG, Crothers DM. Kinetics and mechanism in the reaction of gene regulatory proteins with DNA. Journal of Molecular Biology. 172: 263-82. PMID 6319716 DOI: 10.1016/S0022-2836(84)80026-1  0.557
1984 Fried MG, Crothers DM. Equilibrium studies of the cyclic AMP receptor protein-DNA interaction. Journal of Molecular Biology. 172: 241-62. PMID 6319715 DOI: 10.1016/S0022-2836(84)80025-X  0.555
1983 Fried MG, Wu HM, Crothers DM. CAP binding to B and Z forms of DNA. Nucleic Acids Research. 11: 2479-94. PMID 6344018 DOI: 10.1093/Nar/11.8.2479  0.563
1983 Fried MG, Crothers DM. CAP and RNA polymerase interactions with the lac promoter: binding stoichiometry and long range effects. Nucleic Acids Research. 11: 141-58. PMID 6306561 DOI: 10.1093/Nar/11.1.141  0.553
1983 Hayday AC, Chaudry F, Fried M. Loss of polyoma virus infectivity as a result of a single amino acid change in a region of polyoma virus large T-antigen which has extensive amino acid homology with simian virus 40 large T-antigen. Journal of Virology. 45: 693-9. PMID 6300429 DOI: 10.1128/Jvi.45.2.693-699.1983  0.301
1982 Crothers DM, Fried M. Transmission of long-range effects in DNA Cold Spring Harbor Symposia On Quantitative Biology. 47: 263-269. PMID 6345058  0.462
1982 Lania L, Boast S, Fried M. Excision of polyoma virus genomes from chromosomal DNA by homologous recombination. Nature. 295: 349-50. PMID 6276767 DOI: 10.1038/295349A0  0.309
1981 Fried M, Crothers DM. Equilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel electrophoresis Nucleic Acids Research. 9: 6505-6525. DOI: 10.1093/Nar/9.23.6505  0.551
1979 Fried M, Klein B, Murray K, Greenaway P, Tooze J, Boll W, Weissmann C. Infectivity in mouse fibroblasts of polyoma DNA integrated into plasmid pBR322 or lambdoid phage DNA. Nature. 279: 811-6. PMID 221838 DOI: 10.1038/279811A0  0.301
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