RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: narXL
Synonym(s): OP00213, narL
Gene(s): narL, narX   Genome Browser M3D Gene expression COLOMBOS
Reference(s): [1] Darwin AJ., et al., 1995
[2] Stewart V., et al., 1988
Promoter
Name: narXp
+1: 1277777
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 159
Sequence: gtgagtacagtgacttcataaaaattatgagatttttcacggtgctgtaaaatccctaccCttaccgatgtaaagcgacta
                                -35                  -10    +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
Reference(s): [3] Huerta AM., et al., 2003
[4] Nohno T., et al., 1989
TF binding sites (TFBSs)
[FNR,-] 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
remote FNR repressor narXp 1277664 1277677 107.5 ccattccagaATGTATCGTCACATtcattaaggt nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] nd [6]
proximal FNR repressor narXp 1277845 1277858 -75.0 tatctatcatTGATATTTATCATTacccatagtg nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [6]
remote FNR repressor narXp 1277877 1277890 -106.5 aatttgatgtAAATCAAACGATAAgataacttta nd [COMP-AINF-PATTERN-DISCOVERY], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-CHIP], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] nd [4], [6]
[ModE,+] 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
remote ModE-molybdate activator narXp 1277907 1277930 -141.5 cgtttcgatgTCTGCCACCTTAGTGTCTGTAGCTaaaggcaatt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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

 [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-CELLULAR-EXTRACTS] Binding of cellular extracts

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

 [COMP-AINF-PATTERN-DISCOVERY] Automated inference based on sequence pattern discovery

 [EXP-CHIP-CHIP] ChIP-chip evidence

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


Reference(s)    

 [1] Darwin AJ., Stewart V., 1995, Expression of the narX, narL, narP, and narQ genes of Escherichia coli K-12: regulation of the regulators., J Bacteriol 177(13):3865-9

 [2] Stewart V., Parales J., 1988, Identification and expression of genes narL and narX of the nar (nitrate reductase) locus in Escherichia coli K-12., J Bacteriol 170(4):1589-97

 [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] Nohno T., Noji S., Taniguchi S., Saito T., 1989, The narX and narL genes encoding the nitrate-sensing regulators of Escherichia coli are homologous to a family of prokaryotic two-component regulatory genes., Nucleic Acids Res 17(8):2947-57

 [5] Self WT., Grunden AM., Hasona A., Shanmugam KT., 1999, Transcriptional regulation of molybdoenzyme synthesis in Escherichia coli in response to molybdenum: ModE-molybdate, a repressor of the modABCD (molybdate transport) operon is a secondary transcriptional activator for the hyc and nar operons., Microbiology 145 ( Pt 1):41-55

 [6] Takahashi K., Hattori T., Nakanishi T., Nohno T., Fujita N., Ishihama A., Taniguchi S., 1994, Repression of in vitro transcription of the Escherichia coli fnr and nar X genes by FNR protein., FEBS Lett 340(1-2):59-64

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