Part:BBa_K851000

A3 Promoter phage ϕ(phi)29

A3 is a promoter that comes from the Bacillus subtilis phage ϕ(phi)29 [1]. Bacteriophage ϕ29 protein p4 functions as transcriptional activator for A3 promoter.

== BIOLOGY ==

A3 plays a major role in the transcriptional switch that divides bacteriophage ϕ29 infection in early and late phases [2, 3, 4, 5, 6]. A3 is the only late promoter of the ϕ29 viral particle and its transcript terminates at terminator TD1.

In vitro, protein p4 activates transcription from the late promoter A3 by stabilizing σ^A-RNAP at the promoter [7, 8]. In vivo, the synthesis of p4 is required for the activation of late promoter A3 and for the repression of early promoters A2b and A2c [9,10].

For iGEM UNAM Genomics México 2012 project [11], A3 was used in the design of an OR logic gate[12] using a recently described new type of communication system between Bacillus Subtilis cells called Nanotubes[13]. A3 was obtained from pFRC54 plasmid reported in [14] as described in [15].

REFERENCES

[1] http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?lvl=0&id=10756
[2] Camacho A & Salas M (2010) DNA bending and looping in the transcriptional control of bacteriophage ϕ29. FEMS Microbiol Rev. 34(5):828-841.
[3] Sogo JM, Inciarte MR, Corral J, Viñuela E & Salas M(1979) RNA polymerase binding sites and transcription map of the DNA of Bacillus subtilis phage ϕ29. J Mol Biol 127: 411–436.
[4] Barthelemy I, Salas M & Mellado RP (1986) In vivo transcription of bacteriophage ϕ29 DNA: transcription initiation sites. J Virol 60: 874–879.
[5] Mellado RP, Barthelemy I & Salas M (1986a) In vitro transcription of bacteriophage ϕ29 DNA. Correlation between in vitro and in vivo promoters. Nucleic Acids Res 14:4731–4741.
[6] Mellado RP, Barthelemy I & SalasM(1986b) In vivo transcription of bacteriophage ϕ29 DNA early and late promoter sequences. J Mol Biol 191: 191–197.
[7] Barthelemy I & Salas M (1989) Characterization of a new prokaryotic transcriptional activator and its DNA recognition site. J Mol Biol 208: 225–232.
[8] Nuez B, Rojo F & SalasM(1992) Phage ϕ29 regulatory protein p4 stabilizes the binding of the RNA polymerase to the late promoter in a process involving direct protein–protein contact. P Natl Acad Sci USA 89: 11401–11405.
[9] Monsalve M, Mencía M, Rojo F & Salas M (1995) Transcription regulation in Bacillus subtilis phage ϕ29: expression of the viral promoters throughout the infection cycle. Virology 207: 23–31.
[10] Nuez B, Rojo F & SalasM(1992) Phage ϕ29 regulatory protein p4 stabilizes the binding of the RNA polymerase to the late promoter in a process involving direct protein–protein contact. P Natl Acad Sci USA 89: 11401–11405.
[11] http://2012.igem.org/Team:UNAM_Genomics_Mexico
[12] http://2012.igem.org/Team:UNAM_Genomics_Mexico/Project/Description
[13] Dubey GP, Ben-Yehuda S. (2011) Intercellular nanotubes mediate bacterial communication. Cell.;144(4) :590-600
[14] Rojo F, Zaballos A & Salas M (1990) Bend induced by the phage ϕ29 transcriptional activator in the viral late promoter is required for activation. J Mol Biol 211: 713–725.
[15] http://2012.igem.org/Team:UNAM_Genomics_Mexico/Notebook/ANDMetal

Sequence and Features

Assembly Compatibility:

• 10
  COMPATIBLE WITH RFC[10]
• 12
  COMPATIBLE WITH RFC[12]
• 21
  COMPATIBLE WITH RFC[21]
• 23
  COMPATIBLE WITH RFC[23]
• 25
  COMPATIBLE WITH RFC[25]
• 1000
  COMPATIBLE WITH RFC[1000]