RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: cusCFBA
Synonym(s): ylcBCD-ybdE
Gene(s): cusC, cusF, cusB, cusA   Genome Browser M3D Gene expression COLOMBOS
Note(s): cusCFBA expression is induced under Zn excess in a CusR-dependent way Xu Z,2019.
This transcription unit may even include the pheP gene that is downstream of the cusA gene.
cusB expression is increased at least 5-fold by indole Hirakawa H,2005.
The mRNA that contains the cusA gene has been observed mainly in the cellular membrane Kannaiah S, Livny J, Amster-Choder O,2019.
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Franke S., et al., 2001
Promoter
Name: cusCp
+1: 595573
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 27
Sequence: tgacaattttgtcatttttctgtcaccggaaaatcagagcctggcgagtaaagttggcggCataaaatcaccagaaattat
                      -35                        -10        +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Franke S., et al., 2001
[2] Huerta AM., et al., 2003
[3] Yamamoto K., et al., 2005
TF binding sites (TFBSs)
[CusR,+] 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 CusR-phosphorylated activator cusCp 595512 595528 -53.5 tattggcaaaATGACAATTTTGTCATTtttctgtcac nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3], [5], [6], [7]
[HprR,+] 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 HprR-phosphorylated activator cusCp 595511 595529 -53.5 ttattggcaaAATGACAATTTTGTCATTTttctgtcacc nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [6], [8]
[PhoB,+] 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 PhoB-phosphorylated activator cusCp 595510 595528 -54.0 cttattggcaAAATGACAATTTTGTCATTtttctgtcac nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [4]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -7.3 595505 595533 atcgcttattGGCAAAATGACAATTTTGTCATTTTTCTgtcaccggaa
  anti-terminator -5.2 595472 595507 cgggcaattcTAGAGTAGCGGGATCAGATGGCAATCGCTTATTGGcaaaatgaca
  anti-anti-terminator -9.6 595450 595484 catatttcctCCGCATGTTGCCCGGGCAATTCTAGAGTAGCGGGatcagatggc
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

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

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

 [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-GSELEX] high throughput Genomic SELEX-chip evidence


Reference(s)    

 [1] Franke S., Grass G., Nies DH., 2001, The product of the ybdE gene of the Escherichia coli chromosome is involved in detoxification of silver ions., Microbiology 147(Pt 4):965-72

 [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] Yamamoto K., Ishihama A., 2005, Transcriptional response of Escherichia coli to external copper., Mol Microbiol 56(1):215-27

 [4] Yang C., Huang TW., Wen SY., Chang CY., Tsai SF., Wu WF., Chang CH., 2012, Genome-wide PhoB binding and gene expression profiles reveal the hierarchical gene regulatory network of phosphate starvation in Escherichia coli., PLoS One 7(10):e47314

 [5] Munson GP., Lam DL., Outten FW., O'Halloran TV., 2000, Identification of a copper-responsive two-component system on the chromosome of Escherichia coli K-12., J Bacteriol 182(20):5864-71

 [6] Urano H., Yoshida M., Ogawa A., Yamamoto K., Ishihama A., Ogasawara H., 2017, Cross-regulation between two common ancestral response regulators, HprR and CusR, in Escherichia coli., Microbiology 163(2):243-252

 [7] Xu Z., Wang P., Wang H., Yu ZH., Au-Yeung HY., Hirayama T., Sun H., Yan A., 2019, Zinc excess increases cellular demand for iron and decreases tolerance to copper in Escherichia coli., J Biol Chem 294(45):16978-16991

 [8] Urano H., Umezawa Y., Yamamoto K., Ishihama A., Ogasawara H., 2015, Cooperative regulation of the common target genes between H2O2-sensing YedVW and Cu2+-sensing CusSR in Escherichia coli., Microbiology 161(Pt 4):729-38

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