RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: higBA
Gene(s): higA, higB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IBAA] Inferred from Biological aspect from Ancestor
[ICWHO] Inferred computationally without human oversight
[LTED] Length of transcript experimentally determined
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Christensen-Dalsgaard M., et al., 2010
[2] Yang J., et al., 2016
Promoter
Name: higBp
+1: 3234480
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 25
Sequence: ttccgtcacacagataaattcatccgttgccaatctggcaacggatgttatcatattgccAatttgtcaacggacgtgatg
                           -35                   -10        +1                   
Evidence: [IHBCE]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Christensen-Dalsgaard M., et al., 2010
[3] Salgado H, et al., 2012
TF binding sites (TFBSs)
[HigA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal HigA repressor higBp 3234494 3234521 -27.0 acagataaatTCATCCGTTGCCAATCTGGCAACGGATGttatcatatt nd [BPP], [IHBCE] [2], [4]
[HigB-HigA toxin/antitoxin complex and DNA-binding transcriptional repressor,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal HigB-HigA repressor higBp 3234467 3234486 5.0 atgttatcatATTGCCAATTTGTCAACGGAcgtgatgaag nd [BPP], [IHBCE] [2]
proximal HigB-HigA repressor higBp 3234494 3234521 -27.0 acagataaatTCATCCGTTGCCAATCTGGCAACGGATGttatcatatt nd [BPP], [IHBCE] [2]


Evidence    

 [IHBCE] Inferred by a human based on computational evidence

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [TIM] Transcription initiation mapping

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Christensen-Dalsgaard M., Jorgensen MG., Gerdes K., 2010, Three new RelE-homologous mRNA interferases of Escherichia coli differentially induced by environmental stresses., Mol Microbiol 75(2):333-48

 [2] Yang J., Zhou K., Liu P., Dong Y., Gao Z., Zhang J., Liu Q., 2016, Structural insight into the E. coli HigBA complex., Biochem Biophys Res Commun 478(4):1521-7

 [3] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [4] Jadhav PV., Sinha VK., Chugh S., Kotyada C., Bachhav D., Singh R., Rothweiler U., Singh M., 2020, 2.09 Å Resolution structure of E. coli HigBA toxin-antitoxin complex reveals an ordered DNA-binding domain and intrinsic dynamics in antitoxin., Biochem J 477(20):4001-4019

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