RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: zraP
Gene(s): zraP   Genome Browser M3D Gene expression COLOMBOS
Note(s): The transcription of zraP is induced by high concentrations of zinc Ravikumar S, Yoo IK, Lee SY, Hong SH,2011
Reference(s): [1] Leonhartsberger S., et al., 2001
Promoter
Name: zraPp
+1: 4201712
Sigma Factor: Sigma54 Sigmulon
Distance from start of the gene: 24
Sequence: gccagattacccgtcatatcagcgtttcatcgttggcacggaagatgcaatacccgaagtAagacaaccactggaggatta
                                  -24         -12           +1                   
Note(s): We assigned a putative transcription start site to this promoter based on the observation that the majority of the σ54-dependent promoters, whose transcription start sites were determined experimentally, present a distance of 11 nucleotides between the transcription start site and the -12 box Barrios H,1999.
Evidence: [AIBSCS]
[AIPP]
[HIPP]
[ICWHO]
Reference(s): [2] Huerta AM., et al., 2003
[1] Leonhartsberger S., et al., 2001
[3] Reitzer L., et al., 2001
TF binding sites (TFBSs)
[ZraR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal ZraR-phosphorylated activator zraPp 4201782 4201798 -78.0 cccgcagcagGCGAGTCATTTTTACTCgtttatcatg nd [GEA], [APIORCISFBSCS], [BPP] [1]
remote ZraR-phosphorylated activator zraPp 4201811 4201827 -107.0 aagtttcaatGAGTAAAAATGACTCGCtacccgcagc nd [GEA], [BPP] [1]


Evidence    

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [AIPP] Automated inference of promoter position

 [HIPP] Human inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [GEA] Gene expression analysis

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Leonhartsberger S., Huber A., Lottspeich F., Bock A., 2001, The hydH/G Genes from Escherichia coli code for a zinc and lead responsive two-component regulatory system., J Mol Biol 307(1):93-105

 [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] Reitzer L., Schneider BL., 2001, Metabolic context and possible physiological themes of sigma(54)-dependent genes in Escherichia coli., Microbiol Mol Biol Rev 65(3):422-44, table of contents

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