RegulonDB RegulonDB 10.6.3: Operon Form
   

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




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


Transcription unit          
Name: cspD
Gene(s): cspD   Genome Browser M3D Gene expression COLOMBOS
Note(s): cspD expression is induced during stationary phase and it is independent of σS |CITS:[24509317]|. In addition, cspD is associated with biofilms and persister cell formation |CITS:[24509317]|.
CRP is activated via a class I-type mechanism that involves cspD expression |CITS:[24509317]|. Based on mutant alleles, it was determined that the AR1 domain in CRP is critical for cspD activation, whereas the AR2 domain of CRP is not necessary |CITS:[24509317]|.
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yamanaka K., et al., 1997
Promoter
Name: cspDp
+1: 922676
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 86
Sequence: tgccccttgtcccctgtcaaatgcttgacggctcgccctaattctctaaattgtatttctAgagttggcgaggttttgaac
                         -10                   -35          +1                   
Evidence: [HIPP]
[TIM] ; Method: Primer Extension
[TIM]
Reference(s): [1] Yamanaka K., et al., 1997
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cAMP1 activator cspDp 922749 922770 -83.5 ttcctgtcaaTAGCGTTAACTGCTTCAAATTTttgattcata nd [AIBSCS], [BPP], [GEA], [SM] [3]
remote CRP-cAMP2 activator cspDp 922778 922799 -112.5 tatcgttggcATCAGCGACATCTGTCACATTCctgtcaatag nd [BPP], [GEA], [HIBSCS], [SM] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd H-NS activator cspDp nd nd nd nd nd [GEA] [1]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote MqsA repressor cspDp 922567 922585 101.5 gaagcatggaAAAGGGTACTGTTAAGTGGttcaacaatg nd [BPP], [GEA] [2]
remote MqsA repressor cspDp 922800 922818 -132.5 atgatagataACTATCATCTATCGTTGGCatcagcgaca nd [BPP], [GEA] [2]
Note(s): 1CRP site I is also called promoter-proximal, and it plays a major role in cspDp activation by CRP Uppal S,2014
2CRP site II site is also called distal-promoter, and it plays a minor role in cspDp activation by CRP Uppal S,20142CRP site II site is also called distal-promoter, and it plays a minor role in cspDp activation by CRP Uppal S,2014
3CRP site I is also called promoter-proximal, and it plays a major role in cspDp activation by CRP Uppal S,2014
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp activation cspDp   [GEA] [1]
Evidence: [GEA] Gene expression analysis
Reference(s): [1] Yamanaka K., et al., 1997





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