RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit       
Name: livKHMGF
Gene(s): livF, livG, livM, livH, livK   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Adams MD., et al., 1990
Promoter
Name: livKp2
+1: 3597730
Distance from start of the gene: 170
Sequence: ttattttatgctgacaaaggcacttttttctgtttatctatcaataaattcagaatattaTctgttcttaatcgactgaaa
Evidence: [COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Adams MD., et al., 1990


Transcription unit          
Name: livKHMGF
Synonym(s): OP00256, hrbB
Gene(s): livF, livG, livM, livH, livK   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Adams MD., et al., 1990
[2] Haney SA., et al., 1992
Promoter
Name: livKp1
+1: 3597755
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 195
Sequence: gtgaattattccgccctttgtgccgttattttatgctgacaaaggcacttttttctgtttAtctatcaataaattcagaat
                         -35                       -10      +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Adams MD., et al., 1990
[3] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[Lrp,-] 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 Lrp repressor livKp1 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IEP-RNA-SEQ], [EXP-CHIP-SEQ] W [2], [4]


Evidence    

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [COMP-AINF] Inferred computationally without human oversight

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

 [EXP-IEP-RNA-SEQ] high throughput RNA-seq evidence

 [EXP-CHIP-SEQ] high throughput ChIP-seq evidence


Reference(s)    

 [1] Adams MD., Wagner LM., Graddis TJ., Landick R., Antonucci TK., Gibson AL., Oxender DL., 1990, Nucleotide sequence and genetic characterization reveal six essential genes for the LIV-I and LS transport systems of Escherichia coli., J Biol Chem 265(20):11436-43

 [2] Haney SA., Platko JV., Oxender DL., Calvo JM., 1992, Lrp, a leucine-responsive protein, regulates branched-chain amino acid transport genes in Escherichia coli., J Bacteriol 174(1):108-15

 [3] 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

 [4] Kroner GM., Wolfe MB., Freddolino PL., 2019, Escherichia coli Lrp Regulates One-Third of the Genome via Direct, Cooperative, and Indirect Routes., J Bacteriol 201(3)

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