Hopkins Biology Schleif

Publications

Books

"Practical Methods in Molecular Biology" Robert Schleif and Pieter Wensink, Springer-Verlag, New York, (1981).

"Genetics and Molecular Biology" Johns Hopkins Press 2nd Ed. (1993)

"A Beginner's Guide to CHARMM" Robert Schleif


Papers

1. Control of Production of Ribosomal Protein, R. Schleif, J. Mol. Biol. 27, 41-55 (1967)

2. The Metabolic Stability of Ribosomal Protein, R. Schleif, Molec. and Gen. Genetics 100, 252-255 (1967)

3. Origin of Chloramphenicol Particle Protein, R. Schleif, J. Mol. Biol. 37, 119-129 (1968)

4. Isolation and Characterization of a Streptolydigin Resistant RNA Polymerase, R. Schleif, Nature 223, 1068-1069 (1969)

5. An L-arabinose Binding Protein and Arabinose Permeation in Escherichia coli, R. Schleif, J. Mol. Biol. 46, 185-196 (1969)

6. Induction of the L-arabinose Operon, R. Schleif, J. Mol. Biol. 46, 197-199 (1969)

7. Transcription in the Lambda- ara Phage, R. Schleif and J. Greenblatt, Cold Spring Harbor Symp. Quant. Biol. 35, 369-373 (1970)

8. Dual Control of Arabinose Genes on Transducing Phage Lambda-d ara, R. Schleif, J. Greenblatt and R. W. Davis, J. Mol. Biol. 59, 127-150 (1971)

9. Lambda Lysozyme Synthesis in the Absence of N. Protein, J. Lis and R. Schleif, Virology, 45, 532-533 (1971)

10. L-arabinose Operon Messenger of Escherichia coli, R. F. Schleif, J. Mol. Biol. 61, 275-279 (1971)

11. Arabinose C. Protein: Regulation of the Arabinose Operon in vitro, J. Greenblatt and R. Schleif, Nature New Biology 233, 166-170 (1971)

12. The Specificity of Lamboid Phage Late Gene Induction, R. Schleif, Virology 50, 610-612 (1972)

13. Fine-Structure Deletion Map of the Escherichia coli L-arabinose Operon, R. Schleif, Proc. Nat. Acad. Sci. USA 69, 3479-3484 (1972)

14. Induction Kinetics of the L-arabinose Operon of Escherichia coli, R. Schleif, W. Hess, S. Finkelstein and D. Ellis, J. Bacteriology 115, 9-14 (1973)

15. A Novel Mutation to Dominant Fucose Resistance in the L-arabinose Operon of Escherichia coli, N. M. Nathanson and R. Schleif, J. Bact. 115, 711-713 (1973)

16. Different Cyclic AMP Requirements for Induction of the Arabinose and Lactose Operons of Escherichia coli, J. T. Lis and R. Schleif, J. Mol. Biol. 79, 149-162 (1973)

17. On the Mechanism of Action of L-arabinose C Gene Activator and Lactose Repressor, J. Hirsh and R. Schleif, J. Mol. Biol. 80, 433-444 (1973)

18. The Arabinose C Gene Product of Escherichia coli B/r is Hyperlabile in a Cell Free Protein Synthesis System, D. L. Steffen and R. F. Schleif, Molec. Gen. Genet. 128, 93-94 (1974)

19. Size Fractionation of Double-Stranded DNA by Precipitation with Polyethylene Glycol, J. Lis and R. Schleif, Nucleic Acids Research 2, 383-389 (1975)

20. The Isolation and Characterization of Plaque-forming Arabinose Transducing Bacteriophage, J. T. Lis and R. Schleif, J. Mol. Biol. 95, 395-407 (1975)

21. The Regulatory Region of the L-arabinose Operon: Its Isolation on a 1000 Base-pair Fragment from DNA Heteroduplexes, J. T. Lis and R. Schleif, J. Mol. Biol. 95, 409-416 (1975)

22. The Regulatory Region of the L-arabinose Operon: A Physical, Genetic and Physiological Study, R. Schleif and J. T. Lis, J. Mol. Biol. 95, 417-431 (1975)

23. Paucity of Sites Mutable to Constitutivity in the araC Activator Gene of the L-Arabinose Operon of Escherichia coli, N. M. Nathanson and R. Schleif, J. Mol. Biol. 96, 185-199 (1975).

24. Kinetics of the Onset of Catabolite Repression in Escherichia coli as Determined by lac Messenger Ribonucleic Acid Initiations and Intracellular Cyclic Adenosine 3', 5'-Monophosphate Levels, D. M. Haggerty and R. F. Schleif, J. of Bact. 123, 946-953 (1975)

25. Excision of Bacteriophage Lambda from a Site in the Arabinose B Gene, S. Kaplan and R. Schleif, J. of Bact. 124, 1403-1410 (1975)

26. Location in Bacteriophage Lambda DNA of Cleavage Sites of the Site-Specific Endonuclease from Bacillus amyloliquefaciensH, D. M. Haggerty and R. F. Schleif, J. of Virology 18, 659-663 (1976)

27. Electron Microscopy of Gene Regulation: The L-arabinose Operon, J. Hirsh and R. Schleif, Proc. Natl. Acad. Sci. USA 73, 1518-1522 (1976)

28. Electron Microscopy of RNA Polymerase on Promoters in "Control of Ribosome Synthesis," Alfred Benzon Symposium IX 84-89, Munksgaard, J. Hirsh and R. F. Schleif (1976)

29. High Resolution Electron Microscopic Studies of Genetic Regulation, J. Hirsh and R. Schleif, J. Mol. Biol. 108, 471-490 (1976)

30. The araC Promoter: Transcription, Mapping and Interaction with the araBAD Promoter, J. Hirsh and R. Schleif, Cell 11, 545-550 (1977)

31. Overproducing araC Protein with Lambda-Arabinose Transducing Phage, D. Steffen and R. Schleif. Molec. Gen. Gen. 157, 333-339 (1977)

32. In Vitro Construction of Plasmids which Result in Overproduction of the Protein Product of the araC gene of Escherichia coli, D. Steffen and R. Schleif, Molec. Gen. Gen. 157, 341-344 (1977)

33. In Vivo Titration of araC Protein, D. M. Haggerty, M. P. Oeschger and R. F. Schleif, J. Bact. 135, 775-781 (1978)

34. Nucleotide Sequence of the L-Arabinose Regulatory Region of Escherichia coli K-l2, B. R. Smith and R. Schleif, J. Biol. Chem. 253, 6931-6933 (1978)

35. The Escherichia coli L-arabinose Operon: Binding sites of the Regulatory Proteins and a Mechanism of Positive and Negative Regulation, S. Ogden, D. Haggerty, C. M. Stoner, D. Kolodrubetz and R. Schleif, Proc. Natl. Acad. Sci. USA 77, 3346-3350 (1980)

36. Identification of araC Protein on Two-dimensional Gels, its in vivo Instability and Normal Level. D. Kolodrubetz and R. Schleif, J. Mol. Biol. 149, 133-139 (1981)

37. Regulation of the L-Arabinose Transport Operons in Escherichia coli, D. Kolodrubetz and R. Schleif, J. Mol. Biol. 151, 215-227 (1981)

38. Hyperproduction of araC Protein from Escherichia coli, R. Schleif and A. Favreau, Biochemistry 21, 778-782 (1982)

39. An Arabinose Inducible Promoter from Escherichia coli: Its Cloning from Chromosomal DNA, Identification as the araFG Promoter and Sequence, B. Kosiba and R. Schleif, J. Mol. Biol. 156, 53-66 (1982)

40. L-arabinose Transport Systems in Escherichia coli K-l2, D. Kolodrubetz and R. Schleif, J. Bact. 148, 472-479 (1981)

41. Is the Amino Acid but Not the Nucleotide Sequence of the E. coli araC Gene Conserved? C. Stoner and R. Schleif, J. Mol. Biol. 154, 649-652 (1982)

42. Spacing Mutations between the Escherichia coli pBAD RNA Polymerase Binding Site and the araC (I) Induction Site, W. Hendrickson, J. Petithory, and R. Schleif, Nucleic Acids Res. 11, 1873-1880 (1983)

43. Transcription Start Site and Induction Kinetics of the araC Regulatory Gene in Escherichia coli K-12, C. M. Stoner and R. F. Schleif, J. Mol. Biol. 170, 1049-1053 (1983)

44. In vivo Regulation of the Escherichia coli araC Promoter, S. Hahn and R. Schleif, J. Bact. 155 593-600 (1983)

45. The araE Low Affinity L-arabinose Transport Promoter; Cloning, Sequence, Transcription Start Site and DNA Binding Sites of Regulatory Proteins, C. Stoner and R. Schleif, J. Mol. Biol. 171 369-381 (1983)

46. An Operator at -280 Base Pairs that is Required for Repression of araBAD Operon Promoter: Addition of DNA Helical Turns between the Operator and Promoter Cyclically Hinders Repression, T. Dunn, S. Hahn, S. Ogden, and R. Schleif, Proc. Natl. Acad. Sci. USA 81, 5017-5020 (1984)

47. Regulation of the Escherichia coli L-arabinose Operon Studied by Gel Electrophoresis DNA Binding Assay, W. Hendrickson and R. Schleif, J. Mol. Biol. 178, 611-628 (1984)

48. Upstream Repression and CRP Stimulation of the Escherichia coli L-arabinose Operon, S. Hahn, T. Dunn, and R. Schleif, J. Mol. Biol. 180, 61-72 (1984)

49. Deletion Analysis of the Escherichia coli pC and pBAD Promoters, T. Dunn and R. Schleif, J. Mol. Biol. 180, 201-204 (1984)

50. A Dimer of AraC Protein Contacts Three Adjacent Major Groove Regions of the araI DNA Site, W. Hendrickson and R. Schleif, Proc. Natl. Acad. Sci. USA 82, 3129-3133 (1985)

51. Altered DNA Contacts Made by a Mutant AraC Protein, A. Brunelle, W. Hendrickson, and R. Schleif, Nuc. Acids Res. 13, 5019-5026 (1985)

52. Transcription of Escherichia coli ara in Vitro, The Cyclic AMP Receptor Protein Requirement for pBAD Induction that Depends on the Presence and Orientation of the araO2 Site, S. Hahn, W. Hendrickson, and R. Schleif, J. Mol. Biol. 188, 355-367 (1986)

53. The DNA Loop Model for ara Repression: AraC Protein Occupies the Proposed Loop Sites in vivo and Repression-negative Mutations Lie in these Same Sites, K. Martin, L. Huo, and R. Schleif, Proc. Nat. Acad. Sci. USA 83, 3654-3658 (1986)

54. Feeling for the Bumps, R. Schleif, Nature 325, 14-15 (1987).

55. Why Should DNA Loop?, R. Schleif, Nature 327, 369-370 (1987)

56. The L-arabinose Operon, R. Schleif, in Escherichia coli and Salmonella typhimurium, Cellular and Molecular Biology, Eds. F. Neidhardt, J. Ingraham, K. Low, B. Magasanik, M. Schaechter, and H. Umbarger, American Society for Microbiology, 1473-1481 (1987)

57. Equilibrium DNA-binding of AraC Protein, Compensation for Displaced Ions, K. Martin and R. Schleif, J. Mol. Biol. 195, 741-744 (1987)

58. Cross-Induction of the L-Fucose System by L-Rhamnose in Escherichia coli, Y. Chen, J. Tobin, Y. Zhu, R. Schleif, and E. Lin, J. Bact. 169, 3712-3719 (1987)

59. Positive Regulation of the Escherichia coli L-Rhamnose Operon is Mediated by the Products of Tandemly Repeated Regulatory Genes, J. Tobin and R. Schleif, J. Mol. Biol. 196, 789-799 (1987)

60. Missing Contact Probing of DNA-Protein Interactions, A. Brunelle and R. Schleif, Proc. Nat. Acad. Sci. USA 84, 6673-6676 (1987)

61. DNA Looping, R. Schleif, Science 240, 127-128 (1988)

62. Alternative DNA Loops Regulate the Arabinose Operon in Escherichia coli, L. Huo, K. Martin, R. Schleif, Proc. Natl. Acad. Sci. USA 85, 5444-5448 (1988)

63. DNA Binding by Proteins, R. Schleif, Science 241, 1182-1187 (1988)

64. In vivo DNA Loops in araCBAD: Size Limit and Helical Repeat, D. Lee, R. Schleif, Proc. Nat. Acad. Sci. USA 86, 476-480 (1989)

65. Determining Residue-Base Interactions Between AraC Protein and araI DNA, A. Brunelle, R. Schleif, J. Mol. Biol. 209, 607-622 (1989)

66. Transcription from the rha Operon pSR Promoter, J. F. Tobin, R. Schleif, J. Mol. Biol. 211, 1-4 (1990)

67. Purification and Properties of RhaR, the Positive Regulator of the L-Rhamnose Operons of Escherichia coli, J. F. Tobin, R. Schleif, J. Mol. Biol. 211, 75-89 (1990)

68. DNA Looping and Unlooping by AraC Protein, R. Lobell, R. Schleif, Science 250, 528-532 (1990)

69. Characterization of the Escherichia coli araFGH and araJ Promoters, W. Hendrickson, C. Stoner, R. Schleif, J. Mol. Biol. 215, 497-510 (1990)

70. AraC-DNA Looping: Orientation and Distance-dependent Loop Breaking by the cyclic AMP Receptor Protein, R. B. Lobell, Robert F. Schleif, J. Mol. Biol. 218, 45-54 (1991)

71. Mapping, Sequence, and Apparent Lack of Function of araJ, a Gene of the Escherichia coli Arabinose Operon, T. Reeder, R. Schleif, J. Bact. 173, 7765-7771 (1991)

72. Repression of the araBAD Promoter from araO1, D. Lee, R. Schleif, J. J. Mol. Biol. 224, 335-341 (1992)

73. DNA Looping, R. Schleif, Annu. Rev. Biochem. 61, 199-223 (1992)

74. Variation of Half-site Organization and DNA Looping by AraC Protein, J. Carra, R. Schleif, EMBO Journal 12, 35-44 (1993)

75. Formation of AraC-DNA Sandwiches, J. Carra, R. Schleif, Nucleic Acids Res. 21, 435-438 (1993)

76. Functional Domains of AraC Protein, S. Bustos, R. Schleif, Proc. Natl. Acad. Sci. USA 90, 5638-5642 (1993)

77. AraC Protein Can Activate Transcription from Only One Position and When Pointed in Only One Direction, T. Reeder, R. Schleif, J. Mol. Biol. 231, 205-213 (1993)

78. Regulation of the L-arabinose Catabolic Operon araBAD, Robert Schleif, in "Transcriptional Regulation," 643-665, Eds. S. McKnight, K. Yamamoto, Cold Spring Harbor Press, Cold Spring Harbor (1992)

79. A Regulatory Cascade in the Induction of rhaBAD, S. Egan, R. Schleif, J. Mol. Biol. 234, 87-98 (1993)

80. Reaching Out: Locating and Lengthening the Interdomain Linker in AraC Protein, R. Eustance, S. Bustos, R. Schleif, J. Mol. Biol. 242, 330-338 (1994)

81. DNA-dependent Renaturation of an Insoluble DNA Binding Protein, S. Egan, R. Schleif, J. Mol. Biol. 243, 821-829 (1994)

82. In vivo Induction Kinetics of the Arabinose Promoters in Escherichia coli, C. Johnson, R. Schleif, J. Bact. 177, 3438-3442 (1995)

83. Transcription Activation Parameters at ara pBAD, X. Zhang, T. Reeder, R. Schleif, J. Mol. Biol. 258, 14-24 (1996)

84. Obligatory Activator-polymerase Addition Order at Promoters, X. Zhang, R. Schleif, Nuc. Acids Res. 24, 2575-2577 (1996)

85. Two Positively Regulated Systems, ara and mal, R. Schleif, in Escherichia coli and Salmonella typhimurium, Cellular and Molecular Biology, Second Ed. Eds. F. Neidhardt, R. Curtiss III, J. Ingraham, E. Lin, K. Low, B. Magasanik. W. Reznikoff, M. Riley, M. Schaechter, and H. Umbarger, American Society for Microbiology, 1300-1309 (1996)

86. In Vivo Association of Protein Fragments Giving Active AraC, R. Eustance, R. Schleif, Proteins 25, 501-505 (1996)

87. The Linker Region of AraC Protein, R. Eustance, R. Schleif, J. Bact. 178, 7025-7030 (1996)

88. Structural Basis for Ligand-Regulated Oligomerization of AraC, S. Soisson, B. MacDougall-Shackleton, R. Schleif, C. Wolberger, Science 276, 421-425 (1997)

89. The 1.6 ? Crystal Structure of the AraC Sugar-binding and Dimerization Domain Complexed with D-Fucose, S. Soisson, B. MacDougall-Shackleton, R. Schleif, C. Wolberger, J. Mol. Biol. 273, 226-237 (1997)

90. AraC/XylS Family of Transcriptional Regulators, M. Gallegos, R. Schleif, A. Bairoch, K. Hofmann, J. Ramos, Microbiology and Molecular Biology Reviews 61, 393-410 (1997)

91. Catabolite Gene Activator Protein Mutations Affecting Activity of the araBAD Promoter, X. Zhang, R. Schleif, J. Bact. 180, 195-200 (1998)

92. Apo-AraC Actively Seeks to Loop, R. Seabold, R. Schleif, J. Mol. Biol. 278, 529-538 (1998)

93. Arm-Domain Interactions in AraC, B. Saviola, R. Seabold, R. Schleif, J. Mol. Biol. 278, 539-548 (1998)

94. DNA Bending by AraC: a Negative Mutant, B. Saviola, R. Seabold, R. Schleif, J. Bact. 180, 4227-4232 (1998)

95. Isolation and Physical Characterization of Random Insertions in Staphylococcal Nuclease, D. Nguyen, R. Schleif, J. Mol. Biol. 282, 751-759 (1998)

96. Arm-Domain Interactions in Proteins: A Review, R. Schleif, Proteins 34, 1-3 (1999)

97. Hemiplegic Mutations in AraC Protein, W. Reed, R. Schleif. J. Mol. Biol. 294, 417-425 (1999)

98. Cooperative Action of the Catabolite Activator Protein and AraC in vitro at the araFGH Promoter, C. Johnson, R. Schleif, J. Bact. 182, 1995-2000 (2000)

99. Recognition of Overlapping Nucleotides by AraC and the Sigma Subunit of RNA Polymerase, A. Dhiman, R. Schleif, J. Bact. 182, 5076-5081 (2000)

100. Regulation of the L-arabinose Operon of Escherichia coli, R. Schleif, Trends in Genetics 16, 559-565 (2000)

101. The Role of Rigidity in DNA Looping-unlooping by AraC, T. Harmer, M. Wu, R. Schleif, Proc. Natl. Acad. Sci. USA 98, 427-431 (2001)

102. Stabilizing C-Terminal Tails on AraC, M. Ghosh, R. Schleif, Proteins 42, 177-181 (2001)

103. Strengthened Arm-Dimerization Domain Interactions in AraC, M. Wu, R. Schleif, J. Biol. Chem. 276, 2562-2564 (2001)

104. The C-terminal End of AraC Tightly Binds to the Rest of Its Domain, T. L. Harmer, R. Schleif, J. Biol. Chem. 276, 4886-4888 (2001)

105. Mapping Arm-DNA-Binding Domain Interactions in AraC, Martin Wu, R. Schleif, J. Mol. Biol. 307, 1001-1009 (2001)

106. Identification of Oligomerizing Peptides, A. Dhiman, M. Rodgers, R. Schleif, J. Biol. Chem. 276, 20017-20021 (2001)

107. Biophysical Evidence of Arm-Domain Interactions in AraC, M. Ghosh, R. Schleif, Anal. Biochem. 295, 107-112 (2001)

108. Regulation of the L-arabinose Operon in Escherichia coli, in "Signals, Switches, Regulons and Cascades: Control of Bacterial Gene Expression" SGM Symposium 61, Eds. D. Hodgson, C. M. Thomas, Cambridge University Press, 155-168 (2002)

109. The AraC Protein: a Love-hate Relationship, Robert Schleif, BioEssays 25, 274-282 (2003)

110. Mutational Analysis of Residue Roles in AraC Function, J. Ross, U. Gryczynski, R. Schleif, J. Mol. Biol. 328, 85-93 (2003)

111. Modeling and Studying Proteins with Molecular Dynamics, Robert Schleif, Methods in Enzymology 338, Ed. L. Brand, M. Johnson, Elsevier Academic Press, San Diego (2004)

112. Biochemical and Physiological Properties of the DNA Binding Domain of AraC Protein, A. Timmes, M. Rodgers, Robert Schleif, J. Mol. Bio. 340, 731-738 (2004)

113. A Portable Allosteric Mechanism, U. Gryczynski, R. Schleif, Proteins, 57, 9-11 (2004)

114. Arm-Domain Interactions Can Provide High Binding Cooperativity, R. Schleif, C. Wolberger, Protein Science 13, 2829-2831 (2004)

115. Building Family Traditions, R. Schleif, Mol. Micro. 53, 355-356 (2004)

116. ara Operon, Robert F. Schleif, Encyclopedia of Biological Chemistry, Volume 1, (2004), Elsevier.

117. Specific Interactions by the N-terminal Arm Inhibit Self-association of the AraC Dimerization Domain, John E. Weldon, Robert F. Schleif, Protein Science 15,2828-2835 (2006)

118. Structure and Properties of a Truely Apo Form of AraC Dimerization Domain John E. Weldon, Michael E. Rodgers, Christopher Larkin, and Robert F. Schleif, Proteins 66, 646-654 (2007)

119. DNA Tape Measurements of AraC, Michael Rodgers and Robert Schleif, Nucleic Acids Res. 36, 404-410 (2008). PMID 18039712

120. The Salt Dependence of the Interferon Regulatory Factor 1 DNA Binding Domain Binding to DNA Reveals Ions Are Localized around Protein and DNA, V. V. Hargreaves and R. F. Schleif, Biochemistry 47, 4119-28 (2008). PMID 18324782

121. Functional Modes of the Regulatory Arm of AraC, M. Rodgers, N. Holder, S. Dirla, and R. Schleif, Proteins 74, 81-91 (2009). PMID: 18561170

122. Constitutive Mutations in E. coli AraC Protein, S. Dirla, Y. Heh-Heng Chien, and R. Schleif, J. Bacteriol. 191, 2668-2674 (2009). PMID 19218388

123. Opposite Allosteric Mechanisms in TetR and CAP, J. Seedorff, M. Rodgers, and R. Schleif, Prot. Sci. 18, 775-781 (2009). PMID 19309730

124. Solution Structure of the DNA Binding Domain of AraC Protein, M. Rodgers and R. Schleif, Proteins, 77, 202-208 (2009). PMCID: PMC2745637

125. A DNA-Assisted Binding Assay for Weak Protein-Protein Interactions, Katherine E. Frato and Robert F. Schleif, J. Mol. Biol. 394, 805-814 (2009). PMCID: PMC2790015

126. Computational Predictions of the Mutant Behavior of AraC Monica Berrondo, Jeffrey J. Gray, and Robert Schleif, J. Mol. Biol. 398, 462-470 (2010)

127. AraC Protein, Regulation of the L-arabinose Operon in Escherichia coli, and the Light Switch Mechanismof AraC Action, FEMS Microbiology Reviews 34, 779-798 (2010)

128. Active Role of the Interdomain Linker of AraC, Jennifer Seedorff and Robert Schleif, J. Bacteriol. 193, 5737-5746 (2011). PMID: 21840981

129. New and Unexpected Domain-domain Interaction in AraC Protein, Stephanie Dirla Cole and Robert Schleif, Proteins 80, 1465-1475 (2012). PMID: 22383259

130. Heterodimers Reveal that Two Arabinose Molecules are Required for the Normal Arabinose Response of AraC, Michael Rodgers, Robert Schleif, Biochemistry 51, 8085-8091 (2012). PMID: 23002904

131. Understanding the basis of a class of paradoxical mutations in AraC through simulations, A. Damjanovic, B.T. Miller, and R. Schleif, Proteins 81, 490-498 (2013). PMID: 23150197

132. Modulation of DNA Binding by Gene-Specific Transcription Factors, Robert F. Schleif, Biochemistry 52, 67556765 (2013). PMID: 23962133

133. Computational and Experimental Investigation of Constitutive Behavior in AraC Mary Lowe, David Gullotti, Ana Damjanovic, Ann Cheng, Stephanie Dirla, and Robert Schleif, Proteins, 82, 3385-3396 (2014)

134. A genetic and Physical Study of the Interdomain Linker of the E. coli AraC Protein-a Trans-subunit Communication Pathway, Fabiana Malaga, Ory Mayberry, David J. Park, Michael E. Rodgers, Dmitri Toptygin, and Robert F. Schleif, Proteins, 84, 448-460 (2016)