RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: fadBA
Synonym(s): OP00303
Gene(s): fadA, fadB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IC-ADJ-GENES-SAME-BIO-PROCESS] Products of adjacent genes in the same biological process
Reference(s): [1] Yang SY. 1991
[2] Yang XY., et al., 1991
Promoter
Name: fadBp
+1: 4031013
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 42
Sequence: atcggcatttctttaatcttttgtttgcatatttttaacacaaaatacacacttcgactcAtctggtacgaccagatcacc
                              -35                    -10    +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [3] Huerta AM., et al., 2003
[2] Yang XY., et al., 1991
TF binding sites (TFBSs)
[ArcA,-] 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 ArcA-phosphorylated repressor fadBp 4031035 4031049 -29.0 aatcttttgtTTGCATATTTTTAACacaaaataca nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [4], [5]
[FadR,-] 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 FadR repressor fadBp 4030997 4031013 9.0 acttcgactcATCTGGTACGACCAGATcaccttgcgg nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] nd nd
[Fis,+] 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 Fis activator fadBp 4031031 4031050 -27.0 taatcttttgTTTGCATATTTTTAACACAAaatacacact nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [6]
[Rob,-] 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 Rob repressor fadBp nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [7]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -7.6 4031048 4031089 gcgtgatttcTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTtgcatatttt
  anti-terminator -9.4 4031083 4031129 gaccttaagtCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAgcgtgatcag
  anti-anti-terminator -4.4 4031124 4031179 tttttatagaGCGAGGCCAGTGATTCCATTTTTTACCCTTCTGTTTTTTTGACCTTAAGTCTCCGcatcttagca
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

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

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

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

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

 [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


Reference(s)    

 [1] Yang SY., 1991, Location of the fadBA operon on the physical map of Escherichia coli., J Bacteriol 173(23):7405-6

 [2] Yang XY., Schulz H., Elzinga M., Yang SY., 1991, Nucleotide sequence of the promoter and fadB gene of the fadBA operon and primary structure of the multifunctional fatty acid oxidation protein from Escherichia coli., Biochemistry 30(27):6788-95

 [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] Cho BK., Knight EM., Palsson BO., 2006, Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA., Microbiology 152(Pt 8):2207-19

 [5] Liu X., De Wulf P., 2004, Probing the ArcA-P modulon of Escherichia coli by whole genome transcriptional analysis and sequence recognition profiling., J Biol Chem 279(13):12588-97

 [6] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40

 [7] Wang Z., Xue T., Hu D., Ma Y., 2020, A Novel Butanol Tolerance-Promoting Function of the Transcription Factor Rob in Escherichia coli., Front Bioeng Biotechnol 8:524198

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