Bacteriophage lambda repressor mediates the formation of a complex enhancer-like structure

References

• Bulger M, Groudine M. Functional and mechanistic diversity of distal transcription enhancers. Cell 2011; 144:327 - 39; http://dx.doi.org/10.1016/j.cell.2011.01.024; PMID: 21295696
   PubMed Web of Science ®Google Scholar
• Browning DF, Busby SJ. The regulation of bacterial transcription initiation. Nat Rev Microbiol 2004; 2:57 - 65; http://dx.doi.org/10.1038/nrmicro787; PMID: 15035009
   PubMed Web of Science ®Google Scholar
• Gama-Castro S, Salgado H, Peralta-Gil M, Santos-Zavaleta A, Muñiz-Rascado L, Solano-Lira H, Jimenez-Jacinto V, Weiss V, García-Sotelo JS, López-Fuentes A, et al. RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units). Nucleic Acids Res 2011; 39:Database issue D98 - 105; http://dx.doi.org/10.1093/nar/gkq1110; PMID: 21051347
   PubMedGoogle Scholar
• Ptashne M, Gann A. Genes & Signals. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press, 2002.
   Google Scholar
• Ushida C, Aiba H. Helical phase dependent action of CRP: effect of the distance between the CRP site and the -35 region on promoter activity. Nucleic Acids Res 1990; 18:6325 - 30; http://dx.doi.org/10.1093/nar/18.21.6325; PMID: 2173826
   PubMed Web of Science ®Google Scholar
• Estrem ST, Ross W, Gaal T, Chen ZW, Niu W, Ebright RH, Gourse RL. Bacterial promoter architecture: subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit. Genes Dev 1999; 13:2134 - 47; http://dx.doi.org/10.1101/gad.13.16.2134; PMID: 10465790
   PubMed Web of Science ®Google Scholar
• Meng W, Belyaeva T, Savery NJ, Busby SJ, Ross WE, Gaal T, Gourse RL, Thomas MS. UP element-dependent transcription at the Escherichia coli rrnB P1 promoter: positional requirements and role of the RNA polymerase alpha subunit linker. Nucleic Acids Res 2001; 29:4166 - 78; http://dx.doi.org/10.1093/nar/29.20.4166; PMID: 11600705
   PubMed Web of Science ®Google Scholar
• Rappas M, Bose D, Zhang X. Bacterial enhancer-binding proteins: unlocking sigma54-dependent gene transcription. Curr Opin Struct Biol 2007; 17:110 - 6; http://dx.doi.org/10.1016/j.sbi.2006.11.002; PMID: 17157497
   PubMed Web of Science ®Google Scholar
• Révet B, von Wilcken-Bergmann B, Bessert H, Barker A, Müller-Hill B. Four dimers of lambda repressor bound to two suitably spaced pairs of lambda operators form octamers and DNA loops over large distances. Curr Biol 1999; 9:151 - 4; http://dx.doi.org/10.1016/S0960-9822(99)80069-4; PMID: 10021390
   PubMed Web of Science ®Google Scholar
• Bell CE, Lewis M. Crystal structure of the lambda repressor C-terminal domain octamer. J Mol Biol 2001; 314:1127 - 36; http://dx.doi.org/10.1006/jmbi.2000.5196; PMID: 11743728
   PubMed Web of Science ®Google Scholar
• Dodd IB, Shearwin KE, Perkins AJ, Burr T, Hochschild A, Egan JB. Cooperativity in long-range gene regulation by the lambda CI repressor. Genes Dev 2004; 18:344 - 54; http://dx.doi.org/10.1101/gad.1167904; PMID: 14871931
   PubMed Web of Science ®Google Scholar
• Svenningsen SL, Costantino N, Court DL, Adhya S. On the role of Cro in lambda prophage induction. Proc Natl Acad Sci U S A 2005; 102:4465 - 9; http://dx.doi.org/10.1073/pnas.0409839102; PMID: 15728734
   PubMed Web of Science ®Google Scholar
• Dodd IB, Perkins AJ, Tsemitsidis D, Egan JB. Octamerization of lambda CI repressor is needed for effective repression of P(RM) and efficient switching from lysogeny. Genes Dev 2001; 15:3013 - 22; http://dx.doi.org/10.1101/gad.937301; PMID: 11711436
   PubMed Web of Science ®Google Scholar
• Zurla C, Manzo C, Dunlap D, Lewis DE, Adhya S, Finzi L. Direct demonstration and quantification of long-range DNA looping by the lambda bacteriophage repressor. Nucleic Acids Res 2009; 37:2789 - 95; http://dx.doi.org/10.1093/nar/gkp134; PMID: 19276206
   PubMed Web of Science ®Google Scholar
• Lewis D, Le P, Zurla C, Finzi L, Adhya S. Multilevel autoregulation of λ repressor protein CI by DNA looping in vitro. Proc Natl Acad Sci U S A 2011; 108:14807 - 12; http://dx.doi.org/10.1073/pnas.1111221108; PMID: 21873207
   PubMed Web of Science ®Google Scholar
• Cui L, Murchland I, Shearwin KE, Dodd IB. Enhancer-like long-range transcriptional activation by λ CI-mediated DNA looping. Proc Natl Acad Sci U S A 2013; 110:2922 - 7; http://dx.doi.org/10.1073/pnas.1221322110; PMID: 23382214
   PubMed Web of Science ®Google Scholar
• Michalowski CB, Little JW. Role of cis-Acting Sites in Stimulation of the Phage λ PRM Promoter by CI-Mediated Looping. J Bacteriol 2013; 195:3401 - 11; http://dx.doi.org/10.1128/JB.02148-12; PMID: 23708136
   PubMed Web of Science ®Google Scholar
• Li M, McClure WR, Susskind MM. Changing the mechanism of transcriptional activation by phage lambda repressor. Proc Natl Acad Sci U S A 1997; 94:3691 - 6; http://dx.doi.org/10.1073/pnas.94.8.3691; PMID: 9108039
   PubMed Web of Science ®Google Scholar
• Jain D, Nickels BE, Sun L, Hochschild A, Darst SA. Structure of a ternary transcription activation complex. Mol Cell 2004; 13:45 - 53; http://dx.doi.org/10.1016/S1097-2765(03)00483-0; PMID: 14731393
   PubMed Web of Science ®Google Scholar
• Kedzierska B, Szambowska A, Herman-Antosiewicz A, Lee DJ, Busby SJ, Wegrzyn G, Thomas MS. The C-terminal domain of the Escherichia coli RNA polymerase alpha subunit plays a role in the CI-dependent activation of the bacteriophage lambda pM promoter. Nucleic Acids Res 2007; 35:2311 - 20; http://dx.doi.org/10.1093/nar/gkm123; PMID: 17389649
   PubMed Web of Science ®Google Scholar
• Anderson LM, Yang H. DNA looping can enhance lysogenic CI transcription in phage lambda. Proc Natl Acad Sci U S A 2008; 105:5827 - 32; http://dx.doi.org/10.1073/pnas.0705570105; PMID: 18391225
   PubMed Web of Science ®Google Scholar
• Little JW, Michalowski CB. Stability and instability in the lysogenic state of phage lambda. J Bacteriol 2010; 192:6064 - 76; http://dx.doi.org/10.1128/JB.00726-10; PMID: 20870769
   PubMed Web of Science ®Google Scholar
• Ackers GK, Johnson AD, Shea MA. Quantitative model for gene regulation by lambda phage repressor. Proc Natl Acad Sci U S A 1982; 79:1129 - 33; http://dx.doi.org/10.1073/pnas.79.4.1129; PMID: 6461856
   PubMed Web of Science ®Google Scholar
• Shea MA, Ackers GK. The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation. J Mol Biol 1985; 181:211 - 30; http://dx.doi.org/10.1016/0022-2836(85)90086-5; PMID: 3157005
   PubMed Web of Science ®Google Scholar
• Dodd IB, Shearwin KE, Perkins AJ, Burr T, Hochschild A, Egan JB. Cooperativity in long-range gene regulation by the lambda CI repressor. Genes Dev 2004; 18:344 - 54; http://dx.doi.org/10.1101/gad.1167904; PMID: 14871931
   PubMed Web of Science ®Google Scholar
• Johnson AD, Meyer BJ, Ptashne M. Interactions between DNA-bound repressors govern regulation by the lambda phage repressor. Proc Natl Acad Sci U S A 1979; 76:5061 - 5; http://dx.doi.org/10.1073/pnas.76.10.5061; PMID: 159452
   PubMed Web of Science ®Google Scholar
• Ptashne M. A Genetic Switch. Phage Lambda revisted. New York: Cold Spring Harbor Laboratory Press, 2004.
   Google Scholar
• Hensel Z, Weng X, Lagda AC, Xiao J. Transcription-Factor-Mediated DNA Looping Probed by High-Resolution, Single-Molecule Imaging in Live E. coli Cells. PLoS Biol 2013; 11:e1001591; http://dx.doi.org/10.1371/journal.pbio.1001591; PMID: 23853547
   PubMed Web of Science ®Google Scholar
• Giladi H, Gottesman M, Oppenheim AB. Integration host factor stimulates the phage lambda pL promoter. J Mol Biol 1990; 213:109 - 21; http://dx.doi.org/10.1016/S0022-2836(05)80124-X; PMID: 2140136
   PubMed Web of Science ®Google Scholar
• Lawson CL, Swigon D, Murakami KS, Darst SA, Berman HM, Ebright RH. Catabolite activator protein: DNA binding and transcription activation. Curr Opin Struct Biol 2004; 14:10 - 20; http://dx.doi.org/10.1016/j.sbi.2004.01.012; PMID: 15102444
   PubMed Web of Science ®Google Scholar