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. 1996 Aug;178(16):4965–4974. doi: 10.1128/jb.178.16.4965-4974.1996

Preponderance of Fis-binding sites in the R6K gamma origin and the curious effect of the penicillin resistance marker on replication of this origin in the absence of Fis.

F Wu 1, J Wu 1, J Ehley 1, M Filutowicz 1
PMCID: PMC178281  PMID: 8759862

Abstract

Fis protein is shown here to bind to 10 sites in the gamma origin of plasmid R6K. The Fis-binding sites overlap all the previously identified binding sites in the gamma origin for the plasmid-encoded pi initiator protein and three host-encoded proteins, DnaA, integration host factor, and RNA polymerase. However, the requirement of Fis for R6K replication depends on the use of copy-up pi-protein variants and, oddly, the antibiotic resistance marker on the plasmid. In Fis-deficient cells, copy-up pi variants cannot drive replication of R6K gamma-origin plasmids carrying the bla gene encoding resistance to penicillin (Penr) but can drive replication of plasmids with the same origin but carrying the chloramphenicol acetyltransferase gene encoding chloramphenicol resistance (Cmr). In contrast, R6K replication driven by wild-type pi is unaffected by the antibiotic resistance marker in the absence of Fis protein. Individually, none of these elements (copy-up pi, Fis deficiency, or drug markers) prevents R6K replication. The replication defect is not caused by penicillin in the medium or runaway replication and is unaffected by the orientation of the bla gene relative to the origin. Replication remains inhibited when part of the bla coding segment is deleted but the bla promoter is left intact. However, replication is restored by insertion of transcriptional terminators on either side of the gamma origin, suggesting that excess transcription from the bla gene may inactivate replication driven by pi copy-up mutants in the absence of Fis. This study suggests that vector sequences such as drug markers may not be inconsequential in replication studies, as is generally assumed.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Baker T. A., Kornberg A. Transcriptional activation of initiation of replication from the E. coli chromosomal origin: an RNA-DNA hybrid near oriC. Cell. 1988 Oct 7;55(1):113–123. doi: 10.1016/0092-8674(88)90014-1. [DOI] [PubMed] [Google Scholar]
  2. Ball C. A., Osuna R., Ferguson K. C., Johnson R. C. Dramatic changes in Fis levels upon nutrient upshift in Escherichia coli. J Bacteriol. 1992 Dec;174(24):8043–8056. doi: 10.1128/jb.174.24.8043-8056.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Biek D. P., Cohen S. N. Involvement of integration host factor (IHF) in maintenance of plasmid pSC101 in Escherichia coli: characterization of pSC101 mutants that replicate in the absence of IHF. J Bacteriol. 1989 Apr;171(4):2056–2065. doi: 10.1128/jb.171.4.2056-2065.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Biek D. P., Cohen S. N. Involvement of integration host factor (IHF) in maintenance of plasmid pSC101 in Escherichia coli: mutations in the topA gene allow pSC101 replication in the absence of IHF. J Bacteriol. 1989 Apr;171(4):2066–2074. doi: 10.1128/jb.171.4.2066-2074.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Biek D. P., Cohen S. N. Propagation of pSC101 plasmids defective in binding of integration host factor. J Bacteriol. 1992 Feb;174(3):785–792. doi: 10.1128/jb.174.3.785-792.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Bosch L., Nilsson L., Vijgenboom E., Verbeek H. FIS-dependent trans-activation of tRNA and rRNA operons of Escherichia coli. Biochim Biophys Acta. 1990 Aug 27;1050(1-3):293–301. doi: 10.1016/0167-4781(90)90184-4. [DOI] [PubMed] [Google Scholar]
  7. Braun R. E., O'Day K., Wright A. Autoregulation of the DNA replication gene dnaA in E. coli K-12. Cell. 1985 Jan;40(1):159–169. doi: 10.1016/0092-8674(85)90319-8. [DOI] [PubMed] [Google Scholar]
  8. Brewer B. J. When polymerases collide: replication and the transcriptional organization of the E. coli chromosome. Cell. 1988 Jun 3;53(5):679–686. doi: 10.1016/0092-8674(88)90086-4. [DOI] [PubMed] [Google Scholar]
  9. Bruist M. F., Glasgow A. C., Johnson R. C., Simon M. I. Fis binding to the recombinational enhancer of the Hin DNA inversion system. Genes Dev. 1987 Oct;1(8):762–772. doi: 10.1101/gad.1.8.762. [DOI] [PubMed] [Google Scholar]
  10. Bétermier M., Lefrère V., Koch C., Alazard R., Chandler M. The Escherichia coli protein, Fis: specific binding to the ends of phage Mu DNA and modulation of phage growth. Mol Microbiol. 1989 Apr;3(4):459–468. doi: 10.1111/j.1365-2958.1989.tb00192.x. [DOI] [PubMed] [Google Scholar]
  11. Chang A. C., Cohen S. N. Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J Bacteriol. 1978 Jun;134(3):1141–1156. doi: 10.1128/jb.134.3.1141-1156.1978. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Dellis S., Feng J., Filutowicz M. Replication of plasmid R6K gamma origin in vivo and in vitro: dependence on IHF binding to the ihf1 site. J Mol Biol. 1996 Apr 5;257(3):550–560. doi: 10.1006/jmbi.1996.0184. [DOI] [PubMed] [Google Scholar]
  13. Dellis S., Filutowicz M. Integration host factor of Escherichia coli reverses the inhibition of R6K plasmid replication by pi initiator protein. J Bacteriol. 1991 Feb;173(3):1279–1286. doi: 10.1128/jb.173.3.1279-1286.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Dellis S., Schatz T., Rutlin K., Inman R. B., Filutowicz M. Two alternative structures can be formed by IHF protein binding to the plasmid R6K gamma origin. J Biol Chem. 1992 Dec 5;267(34):24426–24432. [PubMed] [Google Scholar]
  15. Drlica K., Rouviere-Yaniv J. Histonelike proteins of bacteria. Microbiol Rev. 1987 Sep;51(3):301–319. doi: 10.1128/mr.51.3.301-319.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Filutowicz M., Appelt K. The integration host factor of Escherichia coli binds to multiple sites at plasmid R6K gamma origin and is essential for replication. Nucleic Acids Res. 1988 May 11;16(9):3829–3843. doi: 10.1093/nar/16.9.3829. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Filutowicz M., Dellis S., Levchenko I., Urh M., Wu F., York D. Regulation of replication of an iteron-containing DNA molecule. Prog Nucleic Acid Res Mol Biol. 1994;48:239–273. doi: 10.1016/s0079-6603(08)60857-0. [DOI] [PubMed] [Google Scholar]
  18. Filutowicz M., Inman R. A compact nucleoprotein structure is produced by binding of Escherichia coli integration host factor (IHF) to the replication origin of plasmid R6K. J Biol Chem. 1991 Dec 15;266(35):24077–24083. [PubMed] [Google Scholar]
  19. Filutowicz M., McEachern M. J., Helinski D. R. Positive and negative roles of an initiator protein at an origin of replication. Proc Natl Acad Sci U S A. 1986 Dec;83(24):9645–9649. doi: 10.1073/pnas.83.24.9645. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Filutowicz M., McEachern M., Greener A., Mukhopadhyay P., Uhlenhopp E., Durland R., Helinski D. Role of the pi initiation protein and direct nucleotide sequence repeats in the regulation of plasmid R6K replication. Basic Life Sci. 1985;30:125–140. doi: 10.1007/978-1-4613-2447-8_13. [DOI] [PubMed] [Google Scholar]
  21. Filutowicz M., Roll J. The requirement of IHF protein for extrachromosomal replication of the Escherichia coli oriC in a mutant deficient in DNA polymerase I activity. New Biol. 1990 Sep;2(9):818–827. [PubMed] [Google Scholar]
  22. Filutowicz M., Ross W., Wild J., Gourse R. L. Involvement of Fis protein in replication of the Escherichia coli chromosome. J Bacteriol. 1992 Jan;174(2):398–407. doi: 10.1128/jb.174.2.398-407.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Filutowicz M., Uhlenhopp E., Helinski D. R. Binding of purified wild-type and mutant pi initiation proteins to a replication origin region of plasmid R6K. J Mol Biol. 1986 Jan 20;187(2):225–239. doi: 10.1016/0022-2836(86)90230-5. [DOI] [PubMed] [Google Scholar]
  24. Finkel S. E., Johnson R. C. The Fis protein: it's not just for DNA inversion anymore. Mol Microbiol. 1992 Nov;6(22):3257–3265. doi: 10.1111/j.1365-2958.1992.tb02193.x. [DOI] [PubMed] [Google Scholar]
  25. Friedman D. I. Integration host factor: a protein for all reasons. Cell. 1988 Nov 18;55(4):545–554. doi: 10.1016/0092-8674(88)90213-9. [DOI] [PubMed] [Google Scholar]
  26. Fuller R. S., Funnell B. E., Kornberg A. The dnaA protein complex with the E. coli chromosomal replication origin (oriC) and other DNA sites. Cell. 1984 Oct;38(3):889–900. doi: 10.1016/0092-8674(84)90284-8. [DOI] [PubMed] [Google Scholar]
  27. Gamas P., Burger A. C., Churchward G., Caro L., Galas D., Chandler M. Replication of pSC101: effects of mutations in the E. coli DNA binding protein IHF. Mol Gen Genet. 1986 Jul;204(1):85–89. doi: 10.1007/BF00330192. [DOI] [PubMed] [Google Scholar]
  28. Germino J., Bastia D. Interaction of the plasmid R6K-encoded replication initiator protein with its binding sites on DNA. Cell. 1983 Aug;34(1):125–134. doi: 10.1016/0092-8674(83)90142-3. [DOI] [PubMed] [Google Scholar]
  29. Gille H., Egan J. B., Roth A., Messer W. The FIS protein binds and bends the origin of chromosomal DNA replication, oriC, of Escherichia coli. Nucleic Acids Res. 1991 Aug 11;19(15):4167–4172. doi: 10.1093/nar/19.15.4167. [DOI] [PMC free article] [PubMed] [Google Scholar]
  30. Gille H., Messer W. Localized DNA melting and structural pertubations in the origin of replication, oriC, of Escherichia coli in vitro and in vivo. EMBO J. 1991 Jun;10(6):1579–1584. doi: 10.1002/j.1460-2075.1991.tb07678.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Greener A., Lehman S. M., Helinski D. R. Promoters of the broad host range plasmid RK2: analysis of transcription (initiation) in five species of gram-negative bacteria. Genetics. 1992 Jan;130(1):27–36. doi: 10.1093/genetics/130.1.27. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Greenstein D., Horiuchi K. Replication enhancer-independent mutation increases the co-operativity with which an initiator protein binds its origin. J Mol Biol. 1990 Jan 5;211(1):91–101. doi: 10.1016/0022-2836(90)90013-C. [DOI] [PubMed] [Google Scholar]
  33. Greenstein D., Zinder N. D., Horiuchi K. Integration host factor interacts with the DNA replication enhancer of filamentous phage f1. Proc Natl Acad Sci U S A. 1988 Sep;85(17):6262–6266. doi: 10.1073/pnas.85.17.6262. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Hershfield V., Boyer H. W., Yanofsky C., Lovett M. A., Helinski D. R. Plasmid ColEl as a molecular vehicle for cloning and amplification of DNA. Proc Natl Acad Sci U S A. 1974 Sep;71(9):3455–3459. doi: 10.1073/pnas.71.9.3455. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Hwang D. S., Kornberg A. Opening of the replication origin of Escherichia coli by DnaA protein with protein HU or IHF. J Biol Chem. 1992 Nov 15;267(32):23083–23086. [PubMed] [Google Scholar]
  36. Hübner P., Arber W. Mutational analysis of a prokaryotic recombinational enhancer element with two functions. EMBO J. 1989 Feb;8(2):577–585. doi: 10.1002/j.1460-2075.1989.tb03412.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Inuzuka M., Helinski D. R. Replication of antibiotic resistance plasmid R6K DNA in vitro. Biochemistry. 1978 Jun 27;17(13):2567–2573. doi: 10.1021/bi00606a017. [DOI] [PubMed] [Google Scholar]
  38. Inuzuka M., Helinski D. R. Requirement of a plasmid-encoded protein for replication in vitro of plasmid R6K. Proc Natl Acad Sci U S A. 1978 Nov;75(11):5381–5385. doi: 10.1073/pnas.75.11.5381. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Inuzuka M., Wada Y. A single amino acid alteration in the initiation protein is responsible for the DNA overproduction phenotype of copy number mutants of plasmid R6K. EMBO J. 1985 Sep;4(9):2301–2307. doi: 10.1002/j.1460-2075.1985.tb03930.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  40. Inuzuka N., Inuzuka M., Helinski D. R. Activity in vitro of three replication origins of the antibiotic resistance plasmid RSF1040. J Biol Chem. 1980 Dec 10;255(23):11071–11074. [PubMed] [Google Scholar]
  41. Johnson R. C., Ball C. A., Pfeffer D., Simon M. I. Isolation of the gene encoding the Hin recombinational enhancer binding protein. Proc Natl Acad Sci U S A. 1988 May;85(10):3484–3488. doi: 10.1073/pnas.85.10.3484. [DOI] [PMC free article] [PubMed] [Google Scholar]
  42. Kano Y., Ogawa T., Ogura T., Hiraga S., Okazaki T., Imamoto F. Participation of the histone-like protein HU and of IHF in minichromosomal maintenance in Escherichia coli. Gene. 1991 Jul 15;103(1):25–30. doi: 10.1016/0378-1119(91)90386-p. [DOI] [PubMed] [Google Scholar]
  43. Keasling J. D., Palsson B. O., Cooper S. Cell-cycle-specific F plasmid replication: regulation by cell size control of initiation. J Bacteriol. 1991 Apr;173(8):2673–2680. doi: 10.1128/jb.173.8.2673-2680.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Keasling J. D., Palsson B. O., Cooper S. Replication of the R6K plasmid during the Escherichia coli cell cycle. J Bacteriol. 1992 Feb;174(3):1060–1062. doi: 10.1128/jb.174.3.1060-1062.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  45. Kelley W. L., Bastia D. Conformational changes induced by integration host factor at origin gamma of R6K and copy number control. J Biol Chem. 1991 Aug 25;266(24):15924–15937. [PubMed] [Google Scholar]
  46. Koch C., Vandekerckhove J., Kahmann R. Escherichia coli host factor for site-specific DNA inversion: cloning and characterization of the fis gene. Proc Natl Acad Sci U S A. 1988 Jun;85(12):4237–4241. doi: 10.1073/pnas.85.12.4237. [DOI] [PMC free article] [PubMed] [Google Scholar]
  47. Kolter R., Helinski D. R. Plasmid R6K DNA replication. II. Direct nucleotide sequence repeats are required for an active gamma-origin. J Mol Biol. 1982 Oct 15;161(1):45–56. doi: 10.1016/0022-2836(82)90277-7. [DOI] [PubMed] [Google Scholar]
  48. Kolter R., Inuzuka M., Helinski D. R. Trans-complementation-dependent replication of a low molecular weight origin fragment from plasmid R6K. Cell. 1978 Dec;15(4):1199–1208. doi: 10.1016/0092-8674(78)90046-6. [DOI] [PubMed] [Google Scholar]
  49. Kontomichalou P., Mitani M., Clowes R. C. Circular R-factor molecules controlling penicillinase synthesis, replicating in Escherichia coli under either relaxed or stringent control. J Bacteriol. 1970 Oct;104(1):34–44. doi: 10.1128/jb.104.1.34-44.1970. [DOI] [PMC free article] [PubMed] [Google Scholar]
  50. Kostrewa D., Granzin J., Koch C., Choe H. W., Raghunathan S., Wolf W., Labahn J., Kahmann R., Saenger W. Three-dimensional structure of the E. coli DNA-binding protein FIS. Nature. 1991 Jan 10;349(6305):178–180. doi: 10.1038/349178a0. [DOI] [PubMed] [Google Scholar]
  51. Lazarus L. R., Travers A. A. The Escherichia coli FIS protein is not required for the activation of tyrT transcription on entry into exponential growth. EMBO J. 1993 Jun;12(6):2483–2494. doi: 10.1002/j.1460-2075.1993.tb05903.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  52. Levchenko I., Filutowicz M. Initiator protein pi can bind independently to two domains of the gamma origin core of plasmid R6K: the direct repeats and the A+T-rich segment. Nucleic Acids Res. 1996 May 15;24(10):1936–1942. doi: 10.1093/nar/24.10.1936. [DOI] [PMC free article] [PubMed] [Google Scholar]
  53. Liu L. F., Wang J. C. Supercoiling of the DNA template during transcription. Proc Natl Acad Sci U S A. 1987 Oct;84(20):7024–7027. doi: 10.1073/pnas.84.20.7024. [DOI] [PMC free article] [PubMed] [Google Scholar]
  54. Lodge J. K., Kazic T., Berg D. E. Formation of supercoiling domains in plasmid pBR322. J Bacteriol. 1989 Apr;171(4):2181–2187. doi: 10.1128/jb.171.4.2181-2187.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  55. Lynch A. S., Wang J. C. Anchoring of DNA to the bacterial cytoplasmic membrane through cotranscriptional synthesis of polypeptides encoding membrane proteins or proteins for export: a mechanism of plasmid hypernegative supercoiling in mutants deficient in DNA topoisomerase I. J Bacteriol. 1993 Mar;175(6):1645–1655. doi: 10.1128/jb.175.6.1645-1655.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  56. MacAllister T. W., Kelley W. L., Miron A., Stenzel T. T., Bastia D. Replication of plasmid R6K origin gamma in vitro. Dependence on dual initiator proteins and inhibition by transcription. J Biol Chem. 1991 Aug 25;266(24):16056–16062. [PubMed] [Google Scholar]
  57. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  58. McEachern M. J., Bott M. A., Tooker P. A., Helinski D. R. Negative control of plasmid R6K replication: possible role of intermolecular coupling of replication origins. Proc Natl Acad Sci U S A. 1989 Oct;86(20):7942–7946. doi: 10.1073/pnas.86.20.7942. [DOI] [PMC free article] [PubMed] [Google Scholar]
  59. McEachern M. J., Filutowicz M., Helinski D. R. Mutations in direct repeat sequences and in a conserved sequence adjacent to the repeats result in a defective replication origin in plasmid R6K. Proc Natl Acad Sci U S A. 1985 Mar;82(5):1480–1484. doi: 10.1073/pnas.82.5.1480. [DOI] [PMC free article] [PubMed] [Google Scholar]
  60. Mukerji P., Greener A., Filutowicz M. Identification of a novel promoter in the replication control region of plasmid R6K. J Bacteriol. 1992 Jul;174(14):4777–4782. doi: 10.1128/jb.174.14.4777-4782.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  61. Nilsson L., Vanet A., Vijgenboom E., Bosch L. The role of FIS in trans activation of stable RNA operons of E. coli. EMBO J. 1990 Mar;9(3):727–734. doi: 10.1002/j.1460-2075.1990.tb08166.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  62. Polaczek P. Bending of the origin of replication of E. coli by binding of IHF at a specific site. New Biol. 1990 Mar;2(3):265–271. [PubMed] [Google Scholar]
  63. Pruss G. J. DNA topoisomerase I mutants. Increased heterogeneity in linking number and other replicon-dependent changes in DNA supercoiling. J Mol Biol. 1985 Sep 5;185(1):51–63. doi: 10.1016/0022-2836(85)90182-2. [DOI] [PubMed] [Google Scholar]
  64. Pruss G. J., Drlica K. Topoisomerase I mutants: the gene on pBR322 that encodes resistance to tetracycline affects plasmid DNA supercoiling. Proc Natl Acad Sci U S A. 1986 Dec;83(23):8952–8956. doi: 10.1073/pnas.83.23.8952. [DOI] [PMC free article] [PubMed] [Google Scholar]
  65. Raibaud O., Schwartz M. Restriction map of the Escherichia coli malA region and identification of the malT product. J Bacteriol. 1980 Aug;143(2):761–771. doi: 10.1128/jb.143.2.761-771.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  66. Remaut E., Stanssens P., Fiers W. Plasmid vectors for high-efficiency expression controlled by the PL promoter of coliphage lambda. Gene. 1981 Oct;15(1):81–93. doi: 10.1016/0378-1119(81)90106-2. [DOI] [PubMed] [Google Scholar]
  67. Ross W., Thompson J. F., Newlands J. T., Gourse R. L. E.coli Fis protein activates ribosomal RNA transcription in vitro and in vivo. EMBO J. 1990 Nov;9(11):3733–3742. doi: 10.1002/j.1460-2075.1990.tb07586.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  68. Schmid M. B. More than just "histone-like" proteins. Cell. 1990 Nov 2;63(3):451–453. doi: 10.1016/0092-8674(90)90438-k. [DOI] [PubMed] [Google Scholar]
  69. Shafferman A., Flashner Y., Hertman I., Lion M. Identification and characterization of the functional alpha origin of DNA replication of the R6K plasmid and its relatedness to the R6K beta and gamma origins. Mol Gen Genet. 1987 Jun;208(1-2):263–270. doi: 10.1007/BF00330452. [DOI] [PubMed] [Google Scholar]
  70. Shafferman A., Helinski D. R. Structural properties of the beta origin of replication of plasmid R6K. J Biol Chem. 1983 Apr 10;258(7):4083–4090. [PubMed] [Google Scholar]
  71. Shon M., Germino J., Bastia D. The nucleotide sequence of the replication origin beta of the plasmid R6K. J Biol Chem. 1982 Nov 25;257(22):13823–13827. [PubMed] [Google Scholar]
  72. Stalker D. M., Filutowicz M., Helinski D. R. Release of initiation control by a mutational alteration in the R6K pi protein required for plasmid DNA replication. Proc Natl Acad Sci U S A. 1983 Sep;80(18):5500–5504. doi: 10.1073/pnas.80.18.5500. [DOI] [PMC free article] [PubMed] [Google Scholar]
  73. Stassi D. L., Lacks S. A. Effect of strong promoters on the cloning in Escherichia coli of DNA fragments from Streptococcus pneumoniae. Gene. 1982 Jun;18(3):319–328. doi: 10.1016/0378-1119(82)90170-6. [DOI] [PubMed] [Google Scholar]
  74. Stenzel T. T., MacAllister T., Bastia D. Cooperativity at a distance promoted by the combined action of two replication initiator proteins and a DNA bending protein at the replication origin of pSC101. Genes Dev. 1991 Aug;5(8):1453–1463. doi: 10.1101/gad.5.8.1453. [DOI] [PubMed] [Google Scholar]
  75. Stenzel T. T., Patel P., Bastia D. The integration host factor of Escherichia coli binds to bent DNA at the origin of replication of the plasmid pSC101. Cell. 1987 Jun 5;49(5):709–717. doi: 10.1016/0092-8674(87)90547-2. [DOI] [PubMed] [Google Scholar]
  76. Thompson J. F., Landy A. Empirical estimation of protein-induced DNA bending angles: applications to lambda site-specific recombination complexes. Nucleic Acids Res. 1988 Oct 25;16(20):9687–9705. doi: 10.1093/nar/16.20.9687. [DOI] [PMC free article] [PubMed] [Google Scholar]
  77. Urh M., Flashner Y., Shafferman A., Filutowicz M. Altered (copy-up) forms of initiator protein pi suppress the point mutations inactivating the gamma origin of plasmid R6K. J Bacteriol. 1995 Dec;177(23):6732–6739. doi: 10.1128/jb.177.23.6732-6739.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  78. Vieira J., Messing J. New pUC-derived cloning vectors with different selectable markers and DNA replication origins. Gene. 1991 Apr;100:189–194. doi: 10.1016/0378-1119(91)90365-i. [DOI] [PubMed] [Google Scholar]
  79. Wu F., Goldberg I., Filutowicz M. Roles of a 106-bp origin enhancer and Escherichia coli DnaA protein in replication of plasmid R6K. Nucleic Acids Res. 1992 Feb 25;20(4):811–817. doi: 10.1093/nar/20.4.811. [DOI] [PMC free article] [PubMed] [Google Scholar]
  80. Wu F., Levchenko I., Filutowicz M. A DNA segment conferring stable maintenance on R6K gamma-origin core replicons. J Bacteriol. 1995 Nov;177(22):6338–6345. doi: 10.1128/jb.177.22.6338-6345.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  81. Wu F., Levchenko I., Filutowicz M. Binding of DnaA protein to a replication enhancer counteracts the inhibition of plasmid R6K gamma origin replication mediated by elevated levels of R6K pi protein. J Bacteriol. 1994 Nov;176(22):6795–6801. doi: 10.1128/jb.176.22.6795-6801.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  82. Yuan H. S., Finkel S. E., Feng J. A., Kaczor-Grzeskowiak M., Johnson R. C., Dickerson R. E. The molecular structure of wild-type and a mutant Fis protein: relationship between mutational changes and recombinational enhancer function or DNA binding. Proc Natl Acad Sci U S A. 1991 Nov 1;88(21):9558–9562. doi: 10.1073/pnas.88.21.9558. [DOI] [PMC free article] [PubMed] [Google Scholar]

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