RegulonDB RegulonDB 11.2: Operon Form
   

gltI-sroC-gltJKL operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: gltI-sroC-gltJKL
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: gltIJKL-sroC
Synonym(s): gltIJKL
Gene(s): gltL, gltK, gltJ, sroC, gltI   Genome Browser M3D Gene expression COLOMBOS
Note(s): The transcription of the gltI gene is repressed during the first 24 h after the induction of nitrogen starvation Switzer A, Burchell L, McQuail J, Wigneshweraraj S,2020.
Promoter
Name: gltIp1
+1: 687896
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 149
Sequence: aataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaaTgactgagtcagccgagaaga
                                 -35                       -+1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[IC]
Reference(s): [1] Huerta AM., et al., 2003
[2] Stafford GP., et al., 2005
TF binding sites (TFBSs)
[FlhDC,+] 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 FlhDC activator gltIp1 687935 687953 -47.5 cggtctaaatAGGCTGATTCAAGGCATTTacgggagaaa nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2]
proximal FlhDC activator gltIp1 687950 687966 -62.0 aatggcgaagAAACGGTCTAAATAGGCtgattcaagg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2]


Transcription unit       
Name: gltI-sroC-gltJKL
Gene(s): gltL, gltK, gltJ, sroC, gltI   Genome Browser M3D Gene expression COLOMBOS
Reference(s): [3] Zimmer DP., et al., 2000
Promoter
Name: gltIp2
+1: Unknown
Sigma Factor: Sigma54 Sigmulon
Evidence: [COMP-AINF-POSITIONAL-IDENTIFICATION]
[COMP-AINF-SIMILAR-TO-CONSENSUS]
Reference(s): [4] Reitzer L., et al., 2001


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -21.3 686681 686716 aacaatcttcGAGGGTAGCAGTTAACGCTGCTACCCTCTTTTTTCtggagtagat
  anti-terminator -6.8 686704 686744 cgggcctgaaAACCGCAATACGCTGGGTAACAATCTTCGAGGGTAGCAGTtaacgctgct
  anti-anti-terminator -25.61 686724 686799 cctctcgattGTTACGTAGCACGGACAGACTATACGCCTGATGGTCGTTCCCCATCGGGCCTGAAAACCGCAATACGCTGGGTAAcaatcttcga
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

 [IC] Inferred by curator

 [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

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

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


Reference(s)    

 [1] 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

 [2] Stafford GP., Ogi T., Hughes C., 2005, Binding and transcriptional activation of non-flagellar genes by the Escherichia coli flagellar master regulator FlhD2C2., Microbiology 151(Pt 6):1779-88

 [3] Zimmer DP., Soupene E., Lee HL., Wendisch VF., Khodursky AB., Peter BJ., Bender RA., Kustu S., 2000, Nitrogen regulatory protein C-controlled genes of Escherichia coli: scavenging as a defense against nitrogen limitation., Proc Natl Acad Sci U S A 97(26):14674-9

 [4] 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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