RegulonDB RegulonDB 10.7: Operon Form
   

tyrP operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: tyrP
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit       
Name: tyrP
Gene(s): tyrP   Genome Browser M3D Gene expression COLOMBOS
Evidence: [AISDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Kasian PA., et al., 1986
Promoter
Name: tyrPp2
+1: 1989502
Distance from start of the gene: 179
Sequence: ctgattcaatcatcatatttaacacttcatgaccgtgaatagagtccatcgtccctcctcAaaaaaagcctagcgtagcga
Evidence: [TIM]
Reference(s): [1] Kasian PA., et al., 1986


Transcription unit          
Name: tyrP
Synonym(s): OP00124
Gene(s): tyrP   Genome Browser M3D Gene expression COLOMBOS
Note(s): When phenylalanine interacts with the TyrR protein, a dimer of this protein binds to a strong TyrR box located 64.5 bp upstream of the tyrPp1 promoter and activates the transcription of the tyrP gene |CITS:[15049824]|. It has been shown that the C-terminal domain of the RNA polymerase is involved in the activation of the tyrPp1 promoter by theTyrR protein |CITS:[7798138]|.
On the other hand, when tyrosine and ATP interact with the TyrR protein, the transcription of the gene is repressed through the binding of a TyrR hexamer to a weak TyrR box located 41.5 bp upstream of the tyrPp1 promoter and to the strong TyrR box mentioned earlier. In the repression process, the binding of RNA polymerase to the tyrPp promoter is blocked by TyrR hexamer |CITS:[15049824]|.
Evidence: [AISDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Reference(s): [2] Lawley B., et al., 1995
Promoter
Name: tyrPp1
+1: 1989645
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 36
Sequence: ttacaccatatgtaacgtcggtttgacgaagcagccgttatgccttaacctgcgccgcagAtatcactcataaagatcgtc
                       -35                    -10           +1                   
Evidence: [HIPP]
[TIM] ; Method: Primer Extension
[TIM]
Reference(s): [2] Lawley B., et al., 1995
TF binding sites (TFBSs)
[HU,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd HU repressor tyrPp1 nd nd nd nd nd [GEA] [5]
[IHF,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd IHF repressor tyrPp1 nd nd nd nd nd [GEA] [5]
[TyrR,+-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal TyrR1 repressor tyrPp1 1989572 1989589 -64.5 tgctttttatTGTACATTTATATTTACAccatatgtaa nd [BCE], [BPP], [GEA], [SM] [1], [2], [3], [4]
proximal TyrR-phenylalanine2 activator tyrPp1 1989572 1989589 -64.5 tgctttttatTGTACATTTATATTTACAccatatgtaa nd [BCE], [BPP], [GEA], [SM] [1], [2], [3], [4]
[TyrR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal TyrR-tyrosine1 repressor tyrPp1 1989595 1989612 -41.5 ttacaccataTGTAACGTCGGTTTGACGaagcagccgt nd [BCE], [BPP], [GEA], [SM] [1], [2], [3], [4]
Note(s): 1The TyrR-binding site at position -64.5 from the promoter is a strong TyrR box that is involved in the activation and repression of tyrP gene transcription. The TyrR protein with phenylalanine only binds to this site to activate transcription, whereas the protein with tyrosine binds to this and another weak site (-41.5 from the promoter) to repress the transcription Yang J,2004
2The TyrR-binding site at position -64.5 from the promoter is a strong TyrR box that is involved in the activation and repression of tyrP gene transcription. The TyrR protein with phenylalanine only binds to this site to activate transcription, whereas the protein with tyrosine binds to this and another weak site (-41.5 from the promoter) to repress the transcription Yang J,20041The TyrR-binding site at position -41.5 from the promoter is a weak TyrR box that is involved in the repression of tyrP gene transcription. This, along with another site (-64.5 from the promoter), is required for the repression of tyrP gene expression by the TyrR protein in the presence of ATP and tyrosine Yang J,20041The TyrR-binding site at position -64.5 from the promoter is a strong TyrR box that is involved in the activation and repression of tyrP gene transcription. The TyrR protein with phenylalanine only binds to this site to activate transcription, whereas the protein with tyrosine binds to this and another weak site (-41.5 from the promoter) to repress the transcription Yang J,2004
2The TyrR-binding site at position -64.5 from the promoter is a strong TyrR box that is involved in the activation and repression of tyrP gene transcription. The TyrR protein with phenylalanine only binds to this site to activate transcription, whereas the protein with tyrosine binds to this and another weak site (-41.5 from the promoter) to repress the transcription Yang J,2004
3The TyrR-binding site at position -41.5 from the promoter is a weak TyrR box that is involved in the repression of tyrP gene transcription. This, along with another site (-64.5 from the promoter), is required for the repression of tyrP gene expression by the TyrR protein in the presence of ATP and tyrosine Yang J,2004


Evidence    

 [TIM] Transcription initiation mapping

 [HIPP] Human inference of promoter position

 [GEA] Gene expression analysis

 [BCE] Binding of cellular extracts

 [BPP] Binding of purified proteins

 [SM] Site mutation


Reference(s)    

 [1] Kasian PA., Davidson BE., Pittard J., 1986, Molecular analysis of the promoter operator region of the Escherichia coli K-12 tyrP gene., J Bacteriol 167(2):556-61

 [2] Lawley B., Fujita N., Ishihama A., Pittard AJ., 1995, The TyrR protein of Escherichia coli is a class I transcription activator., J Bacteriol 177(1):238-41

 [3] Hwang JS., Yang J., Pittard AJ., 1999, Specific contacts between residues in the DNA-binding domain of the TyrR protein and bases in the operator of the tyrP gene of Escherichia coli., J Bacteriol 181(8):2338-45

 [4] Yang J., Hwang JS., Camakaris H., Irawaty W., Ishihama A., Pittard J., 2004, Mode of action of the TyrR protein: repression and activation of the tyrP promoter of Escherichia coli., Mol Microbiol 52(1):243-56

 [5] Yang J., Camakaris H., Pittard AJ., 1996, In vitro transcriptional analysis of TyrR-mediated activation of the mtr and tyrP+3 promoters of Escherichia coli., J Bacteriol 178(21):6389-93

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