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Escherichia coli K-12 substr. MG1655 Transcription Unit: araBAD

Synonyms: OP00302, ara

Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram

Notes: ?

Citations: [Ebright85, Reeder91]


Promoter:

Synonyms: araBAD

Citations: [Lisser93, Lee77, Smith78]

Binds: RNA polymerase, sigma 70 (sigma D) factor

Absolute Position of Transcription Start Site: 70075 base pairs

Position relative to start of first gene (araB): -27

Sequence:

Promoter sequence diagram


Site 1 : Bound AraC-Arabinose DNA-binding transcriptional activator activates transcription. [Reeder93, Lobell91, Niland96, Seabold98, Bustos93]

Position of Site Center Relative to Transcription Start Site (bp): -43

Sequence:

Binding-site sequence diagram

Site Citations: [Lee87, Huo88, Niland96]

This site also regulates the following transcription units: araC (araCp)


Site 2 : Bound unmodified AraC (AraC DNA-binding transcriptional dual regulator) represses transcription. [Seabold98, Niland96, Lobell91, Reeder93, Bustos93] Bound AraC-Arabinose DNA-binding transcriptional activator activates transcription. [Seabold98, Niland96, Lobell91, Reeder93, Bustos93]

Position of Site Center Relative to Transcription Start Site (bp): -64

Sequence:

Binding-site sequence diagram

Site Citations: [Lee89, Lee81, Gallegos97, Niland96]

This site also regulates the following transcription units: araC (araCp)


Site 3 : Bound CRP-cAMP DNA-binding transcriptional dual regulator activates transcription. [Lobell91, Stoltzfus89, Zhang98]

Position of Site Center Relative to Transcription Start Site (bp): -93.5

Sequence:

Binding-site sequence diagram

Site Citations: [Hamilton88, Lee87, Huo88, Stoltzfus89]

This site also regulates the following transcription units: araC (araCp)


Site 4 : Bound AraC-Arabinose DNA-binding transcriptional activator represses transcription. [Lee92]

Position of Site Center Relative to Transcription Start Site (bp): -117

Sequence:

Binding-site sequence diagram

Site Citations: [Lee92, Lee81, Gallegos97]

This site also regulates the following transcription units: araC (araCp)


Site 5 : Bound AraC-Arabinose DNA-binding transcriptional activator represses transcription. [Lee92]

Position of Site Center Relative to Transcription Start Site (bp): -138

Sequence:

Binding-site sequence diagram

Site Citations: [Lee92, Lee81, Gallegos97]

This site also regulates the following transcription units: araC (araCp)


Site 6 : Bound unmodified AraC (AraC DNA-binding transcriptional dual regulator) represses transcription. [Niland96, Seabold98, Lobell91]
Note also: AraC + α-L-arabinopyranose = AraC-arabinose

Position of Site Center Relative to Transcription Start Site (bp): -275

Sequence:

Binding-site sequence diagram

Site Citations: [Gallegos97, Niland96, Lee81, Huo88, Lee89]

This site also regulates the following transcription units: araC (araCp)


Terminators:

Type Position Relative to Transcription Start Absolute Position Sequence Citations
Rho-Independent 4255-4276 65800-65821 CCAGGCUAUA CUCAAGCCUG GU [Lee86]


References

Bustos93: Bustos SA, Schleif RF (1993). "Functional domains of the AraC protein." Proc Natl Acad Sci U S A 90(12);5638-42. PMID: 8516313

Ebright85: Ebright RH, Beckwith J (1985). "The catabolite gene activator protein (CAP) is not required for indole-3-acetic acid to activate transcription of the araBAD operon of Escherichia coli K-12." Mol Gen Genet 1985;201(1);51-5. PMID: 2997582

Gallegos97: Gallegos MT, Schleif R, Bairoch A, Hofmann K, Ramos JL (1997). "Arac/XylS family of transcriptional regulators." Microbiol Mol Biol Rev 61(4);393-410. PMID: 9409145

Hamilton88: Hamilton EP, Lee N (1988). "Three binding sites for AraC protein are required for autoregulation of araC in Escherichia coli." Proc Natl Acad Sci U S A 1988;85(6);1749-53. PMID: 3279415

Huerta03: Huerta AM, Collado-Vides J (2003). "Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals." J Mol Biol 333(2);261-78. PMID: 14529615

Huo88: Huo L, Martin KJ, Schleif R (1988). "Alternative DNA loops regulate the arabinose operon in Escherichia coli." Proc Natl Acad Sci U S A 1988;85(15);5444-8. PMID: 3041410

Lee77: Lee N, Carbon J (1977). "Nucleotide sequence of the 5' end of araBAD operon messenger RNA in Escherichia coli B/r." Proc Natl Acad Sci U S A 74(1);49-53. PMID: 189315

Lee81: Lee NL, Gielow WO, Wallace RG (1981). "Mechanism of araC autoregulation and the domains of two overlapping promoters, Pc and PBAD, in the L-arabinose regulatory region of Escherichia coli." Proc Natl Acad Sci U S A 1981;78(2);752-6. PMID: 6262769

Lee86: Lee N, Gielow W, Martin R, Hamilton E, Fowler A (1986). "The organization of the araBAD operon of Escherichia coli." Gene 1986;47(2-3);231-44. PMID: 3549454

Lee87: Lee N, Francklyn C, Hamilton EP (1987). "Arabinose-induced binding of AraC protein to araI2 activates the araBAD operon promoter." Proc Natl Acad Sci U S A 1987;84(24);8814-8. PMID: 2962192

Lee89: Lee DH, Schleif RF (1989). "In vivo DNA loops in araCBAD: size limits and helical repeat." Proc Natl Acad Sci U S A 1989;86(2);476-80. PMID: 2643114

Lee92: Lee DH, Huo L, Schleif R (1992). "Repression of the araBAD promoter from araO1." J Mol Biol 224(2);335-41. PMID: 1560456

Lisser93: Lisser S, Margalit H (1993). "Compilation of E. coli mRNA promoter sequences." Nucleic Acids Res 21(7);1507-16. PMID: 8479900

Lobell91: Lobell RB, Schleif RF (1991). "AraC-DNA looping: orientation and distance-dependent loop breaking by the cyclic AMP receptor protein." J Mol Biol 218(1);45-54. PMID: 1848302

Niland96: Niland P, Huhne R, Muller-Hill B (1996). "How AraC interacts specifically with its target DNAs." J Mol Biol 264(4);667-74. PMID: 8980677

Reeder91: Reeder T, Schleif R (1991). "Mapping, sequence, and apparent lack of function of araJ, a gene of the Escherichia coli arabinose regulon." J Bacteriol 1991;173(24);7765-71. PMID: 1744033

Reeder93: Reeder T, Schleif R (1993). "AraC protein can activate transcription from only one position and when pointed in only one direction." J Mol Biol 231(2);205-18. PMID: 8510144

Seabold98: Seabold RR, Schleif RF (1998). "Apo-AraC actively seeks to loop." J Mol Biol 278(3);529-38. PMID: 9600836

Smith78: Smith BR, Schleif R (1978). "Nucleotide sequence of the L-arabinose regulatory region of Escherichia coli K12." J Biol Chem 253(19);6931-3. PMID: 357433

Stoltzfus89: Stoltzfus L, Wilcox G (1989). "Effect of mutations in the cyclic AMP receptor protein-binding site on araBAD and araC expression." J Bacteriol 171(2);1178-84. PMID: 2521619

Zhang98: Zhang X, Schleif R (1998). "Catabolite gene activator protein mutations affecting activity of the araBAD promoter." J Bacteriol 180(2);195-200. PMID: 9440505


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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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