RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: rcsDB
Gene(s): rcsD, rcsB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-HINF] Inferred by a human based on computational evidence
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
[IC-ADJ-GENES-SAME-BIO-PROCESS] Products of adjacent genes in the same biological process
Reference(s): [1] Krin E., et al., 2010
Promoter
Name: rcsDp
+1: 2313452
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 36
Sequence: tagagaatcatcaatcaggtaagagtctggaatttcacactgtaccctttatactgccctAtcacttcgcgaagttttaac
                           -35                    -10       +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Krin E., et al., 2010
TF binding sites (TFBSs)
[H-NS,-] 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
nd H-NS repressor rcsDp nd nd nd nd nd [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [3]


Transcription unit       
Name: rcsB
Gene(s): rcsB   Genome Browser M3D Gene expression COLOMBOS
Note(s): An integrated transcriptomic study of the extracytoplasmic stress response, which detects and responds to alterations of the bacterial envelope, was performed by Bury-Moré et al. (2009). They investigated the interconnections and dynamics between Bae, Cpx, Psp, Rcs, and σE pathways and showed that these pathways can be activated simultaneously in response to exogenous or endogenous stimulation, while natural environmental stimuli provoke bacterial modifications that lead to multiple pathway responses Bury-Moné S, Nomane Y, Reymond N, Barbet R, Jacquet E, Imbeaud S, Jacq A, Bouloc P,2009
Each of these responses might be specialized to ensure a specific aspect of envelope biogenesis and maintenance; on the other hand, CpxR could have a role as a modulator of the response by integrating other endogenous signals. Bury-Moré et al. concluded that all five pathways are needed to mount a full response to extracytoplasmic stress Bury-Moné S, Nomane Y, Reymond N, Barbet R, Jacquet E, Imbeaud S, Jacq A, Bouloc P,2009
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [4] Jayaratne P., et al., 1993
[1] Krin E., et al., 2010
Promoter
Name: rcsBp1
+1: 2315695
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 482
Sequence: gggtgcaacctgtatcacacccgatgaaagattaattagtcaagattatgatatctttttAacggataatccgtctaatct
                        -35                    -10          +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Krin E., et al., 2010


Transcription unit       
Name: rcsB
Gene(s): rcsB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Krin E., et al., 2010
Promoter
Name: rcsBp2
+1: 2315975
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 202
Sequence: tattatgcgctctttgtagacacagtaccggatgatgttaagaggctgtatactgaagcaGcaaccagtgactttgctgcg
                         -35                     -10        +1                   
Evidence: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Krin E., et al., 2010


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


Reference(s)    

 [1] Krin E., Danchin A., Soutourina O., 2010, RcsB plays a central role in H-NS-dependent regulation of motility and acid stress resistance in Escherichia coli., Res Microbiol 161(5):363-371

 [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] Krin E., Danchin A., Soutourina O., 2010, Decrypting the H-NS-dependent regulatory cascade of acid stress resistance in Escherichia coli., BMC Microbiol 10:273

 [4] Jayaratne P., Keenleyside WJ., MacLachlan PR., Dodgson C., Whitfield C., 1993, Characterization of rcsB and rcsC from Escherichia coli O9:K30:H12 and examination of the role of the rcs regulatory system in expression of group I capsular polysaccharides., J Bacteriol 175(17):5384-94

RegulonDB