RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: znuA
Gene(s): znuA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The znuA gene is upregulated when E. coli is exposed to some biocides Merchel Piovesan Pereira B, Wang X, Tagkopoulos I,2020.
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [1] Patzer SI., et al., 1998
Promoter
Name: znuAp
+1: 1942661
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 78
Sequence: gaggacgcggcgttggccaaaagaaaccgagacattttccagggaaaccagacttgtcatGttaattttagtcttgcagta
                                -35                   -10   +1                   
Evidence: [COMP-AINF]
[COMP-AINF-POSITIONAL-IDENTIFICATION]
Reference(s): [2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[OxyR,+] 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 OxyR activator znuAp 1942598 1942614 55.5 atatcacactTCTCATATTCATTACGAttattggtcg nd [COMP-HINF], [EXP-CHIP-EXO-MANUAL], [EXP-IEP-RNA-SEQ], [COMP-HINF], [EXP-CHIP-EXO-MANUAL] S [6]
[Zur,-] 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 Zur-Zn2+ repressor znuAp 1942613 1942636 38.0 gcagtagtcaTGAAATGTTATAATATCACACTTCtcatattcat nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] S [1], [3], [4], [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position

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

 [EXP-CHIP-EXO-MANUAL] ChIP-exo evidence used in manual assertion

 [EXP-IEP-RNA-SEQ] high throughput RNA-seq evidence

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

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

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


Reference(s)    

 [1] Patzer SI., Hantke K., 1998, The ZnuABC high-affinity zinc uptake system and its regulator Zur in Escherichia coli., Mol Microbiol 28(6):1199-210

 [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] Outten CE., O'Halloran TV., 2001, Femtomolar sensitivity of metalloregulatory proteins controlling zinc homeostasis., Science 292(5526):2488-92

 [4] Patzer SI., Hantke K., 2000, The zinc-responsive regulator Zur and its control of the znu gene cluster encoding the ZnuABC zinc uptake system in Escherichia coli., J Biol Chem 275(32):24321-32

 [5] Warner DM., Levy SB., 2012, SoxS increases the expression of the zinc uptake system ZnuACB in an Escherichia coli murine pyelonephritis model., J Bacteriol 194(5):1177-85

 [6] Seo SW., Kim D., Szubin R., Palsson BO., 2015, Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655., Cell Rep 12(8):1289-99

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