RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: uvrB
Gene(s): uvrB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The full activity of the uvrB promoter region requires three promoters (uvrBp1, uvrBp2, and uvrBp3) and is repressed by both the DnaA and LexA proteins Wurihan,2018 In the absence of the SOS response, both DnaA and LexA repress transcription of the uvrB gene and function independently of each other, but in an additive manner Wurihan,2018
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Sancar GB., et al., 1982
Promoter
Name: uvrBp3
+1: 813152
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 374
Sequence: aggggctggagacagttatccactattcctgtggataaccatgtgtattagagttagaaaAcacgaggcaagcgagagaat
                          -35                    -10        +1                   
Note(s): Transcription of uvrBp3 is indirectly inhibited by LexA. This transcript terminates within or near the LexA-binding site, which regulates uvrBp2, and it is possible that termination does not occur in vivo Sancar GB,1982
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Sancar GB., et al., 1982
TF binding sites (TFBSs)
[DnaA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal DnaA-ATP repressor uvrBp3 813107 813115 -41.0 ctggagacagTTATCCACTattcctgtgg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-DAP-SEQ], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [3]
proximal DnaA-ATP repressor uvrBp3 813121 813129 -27.0 ccactattccTGTGGATAAccatgtgtat nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-DAP-SEQ], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3]
proximal DnaA-ATP repressor uvrBp3 813133 813141 -15.0 tggataaccaTGTGTATTAgagttagaaa nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-DAP-SEQ], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [3]
[LexA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal LexA repressor uvrBp3 813120 813136 -24.5 tccactattcCTGTGGATAACCATGTGtattagagtt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3]


Transcription unit          
Name: uvrB
Synonym(s): OP00098
Gene(s): uvrB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The full activity of the uvrB promoter region requires three promoters (uvrBp1, uvrBp2, and uvrBp3) and is repressed by both the DnaA and LexA proteins Wurihan,2018 In the absence of the SOS response, both DnaA and LexA repress transcription of the uvrB gene and function independently of each other, but in an additive manner Wurihan,2018
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Sancar GB., et al., 1982
[4] Schendel PF., et al., 1982
Promoter
Name: uvrBp2
+1: 813462
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 64
Sequence: ttacgctgtatcagaaatattatggtgatgaactgtttttttatccagtataatttgttgGcataattaagtacgacgagt
                            -35                  -10        +1                   
Note(s): Transcription of uvrBp3 is indirectly inhibited by LexA. This transcript terminates within or near the LexA-binding site, which regulates uvrBp2, and it is possible that termination does not occur in vivo Sancar GB,1982
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Sancar GB., et al., 1982
TF binding sites (TFBSs)
[DnaA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote DnaA-ATP repressor uvrBp2 813310 813318 -148.0 tcttgacaaaTGTTAAAAAagccgttgct nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
remote DnaA-ATP repressor uvrBp2 813330 813338 -128.0 gccgttgcttTGGGGATAAcccggtaagg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
proximal DnaA-ATP repressor uvrBp2 813377 813385 -81.0 acagagtaaaTTTTGCTCAtgattgacag nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
proximal DnaA-ATP repressor uvrBp2 813442 813450 -16.0 aactgtttttTTATCCAGTataatttgtt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
[LexA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote LexA repressor uvrBp2 813234 813250 -220.5 tattttttaaCTGGTTAGATAAATGCAatggcagtca nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
remote LexA repressor uvrBp2 813287 813303 -167.5 tgccataaaaCTGTCATCACTCATCTTgacaaatgtt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
proximal LexA repressor uvrBp2 813434 813450 -20.5 tggtgatgaaCTGTTTTTTTATCCAGTataatttgtt nd [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IMP-SITE-MUTATION], [COMP], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3], [5]


Transcription unit          
Name: uvrB
Gene(s): uvrB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The full activity of the uvrB promoter region requires three promoters (uvrBp1, uvrBp2, and uvrBp3) and is repressed by both the DnaA and LexA proteins Wurihan,2018 In the absence of the SOS response, both DnaA and LexA repress transcription of the uvrB gene and function independently of each other, but in an additive manner Wurihan,2018
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Sancar GB., et al., 1982
Promoter
Name: uvrBp1
+1: 813493
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 33
Sequence: actgtttttttatccagtataatttgttggcataattaagtacgacgagtaaaattacatAcctgcccgcccaactccttc
                           -35                    -10       +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Sancar GB., et al., 1982
TF binding sites (TFBSs)
[LexA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal LexA repressor uvrBp1 813434 813450 -51.5 tggtgatgaaCTGTTTTTTTATCCAGTataatttgtt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3], [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF] Inferred by a human based on computational evidence

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP] Inferred by computational analysis

 [EXP-DAP-SEQ] high throughput DNA Affinity Purification (DAP) Sequencing

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-IMP-SITE-MUTATION] Site mutation

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.


Reference(s)    

 [1] Sancar GB., Sancar A., Little JW., Rupp WD., 1982, The uvrB gene of Escherichia coli has both lexA-repressed and lexA-independent promoters., Cell 28(3):523-30

 [2] 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

 [3] Wurihan., Gezi., Brambilla E., Wang S., Sun H., Fan L., Shi Y., Sclavi B., Morigen., 2018, DnaA and LexA Proteins Regulate Transcription of the uvrB Gene in Escherichia coli: The Role of DnaA in the Control of the SOS Regulon., Front Microbiol 9:1212

 [4] Schendel PF., Fogliano M., Strausbaugh LD., 1982, Regulation of the Escherichia coli K-12 uvrB operon., J Bacteriol 150(2):676-85

 [5] Nissenson RA., Strewler GJ., Williams RD., Leung SC., 1985, Activation of the parathyroid hormone receptor-adenylate cyclase system in osteosarcoma cells by a human renal carcinoma factor., Cancer Res 45(11 Pt 1):5358-63

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