RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: ydiV
Gene(s): rflP   Genome Browser M3D Gene expression COLOMBOS
Note(s): The EAL domain protein encoded by ydiV is involved in the interaction between quorum-sensing system 1 (QS system 1) and QS system 2. QS system 1 consists of SdiA responding to signals generated by other microbial species, and QS system 2 is stimulated by the cyclic AMP (cAMP)-cAMP receptor protein (CRP protein) Zhou X,2008
Expression of sdiA and ydiV is inhibited by glucose. The effect of glucose on ydiV expression is not mediated by SdiA Zhou X,2008
ydiV is also induced under iron-deficient conditions in a Fur-independent way Zhang F,2020
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: ydiVp
+1: 1792087
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 67
Sequence: aaaggacccctgaaaaagtggttaacatggaacaaatgaaagttactccttctgtaattgTtatgtcttatggcctcatcc
                                   -35                   -10+1                   
Evidence: [COMP-AINF]
[COMP-AINF-POSITIONAL-IDENTIFICATION]
Reference(s): [1] Gama-Castro S., et al., 2008
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[SdiA,+] 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 SdiA activator ydiVp 1792132 1792149 -53.0 gataatctaaAAAAAGGACCCCTGAAAAagtggttaac nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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

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

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

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


Reference(s)    

 [1] Gama-Castro S., Jimenez-Jacinto V., Peralta-Gil M., Santos-Zavaleta A., Penaloza-Spinola MI., Contreras-Moreira B., Segura-Salazar J., Muniz-Rascado L., Martinez-Flores I., Salgado H., Bonavides-Martinez C., Abreu-Goodger C., Rodriguez-Penagos C., Miranda-Rios J., Morett E., Merino E., Huerta AM., Trevino-Quintanilla L., Collado-Vides J., 2008, RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation., Nucleic Acids Res 36(Database issue):D120-4

 [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] Zhou X., Meng X., Sun B., 2008, An EAL domain protein and cyclic AMP contribute to the interaction between the two quorum sensing systems in Escherichia coli., Cell Res 18(9):937-48

RegulonDB