RegulonDB RegulonDB 10.9: Gene Form
   

arcZ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

arcB elbB arcZ yhcC5\' mtgA ArcA TSS_3531 TSS_3531 TSS_3530 TSS_3530 arcZp arcZp TSS_3529 TSS_3529 mtgAp4 mtgAp4

Gene      
Name: arcZ    Texpresso search in the literature
Synonym(s): ECK3199, G0-8871, b4450, psrA16, ryhA, sraH
Genome position(nucleotides): 3350577 --> 3350697 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
52.07
External database links:  
ASAP:
ABE-0047270
ECHOBASE:
EB4537
ECOLIHUB:
arcZ
COLOMBOS: arcZ


Product      
Name: small regulatory RNA ArcZ
Synonym(s): ArcZ, PsrA16, RyhA, SraH
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related
Gene Ontology Terms (GO)  
molecular_function GO:0061980 - regulatory RNA binding
GO:0005515 - protein binding
GO:0048027 - mRNA 5'-UTR binding
GO:0001072 - transcription antitermination factor activity, RNA binding
biological_process GO:0045948 - positive regulation of translational initiation
GO:0034661 - ncRNA catabolic process
GO:0071468 - cellular response to acidic pH
GO:2000146 - negative regulation of cell motility
GO:1900191 - negative regulation of single-species biofilm formation
Note(s): Note(s): ...[more].
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [1] Bak G., et al., 2015
[2] Chen J., et al., 2017
[3] Mihailovic MK., et al., 2018
[4] Moon K., et al., 2013
[5] Soper T., et al., 2010
External database links:  
ECOCYC:
SRAH-RNA
ECOLIWIKI:
b4450


Operon      
Name: arcZ         
Operon arrangement:
Transcription unit        Promoter
arcZ


Transcriptional Regulation      
Display Regulation             
Repressed by: ArcA


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter mtgAp4 3349831 reverse Similarity to the consensus
Read more >
[ICWHO] [6]
  promoter TSS_3529 3350497 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_3530 3351027 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_3531 3351916 reverse nd [RS-EPT-CBR] [7]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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



Reference(s)    

 [1] Bak G., Lee J., Suk S., Kim D., Young Lee J., Kim KS., Choi BS., Lee Y., 2015, Identification of novel sRNAs involved in biofilm formation, motility, and fimbriae formation in Escherichia coli., Sci Rep 5:15287

 [2] Chen J., Gottesman S., 2017, Hfq links translation repression to stress-induced mutagenesis in E. coli., Genes Dev 31(13):1382-1395

 [3] Mihailovic MK., Vazquez-Anderson J., Li Y., Fry V., Vimalathas P., Herrera D., Lease RA., Powell WB., Contreras LM., 2018, High-throughput in vivo mapping of RNA accessible interfaces to identify functional sRNA binding sites., Nat Commun 9(1):4084

 [4] Moon K., Six DA., Lee HJ., Raetz CR., Gottesman S., 2013, Complex transcriptional and post-transcriptional regulation of an enzyme for lipopolysaccharide modification., Mol Microbiol 89(1):52-64

 [5] Soper T., Mandin P., Majdalani N., Gottesman S., Woodson SA., 2010, Positive regulation by small RNAs and the role of Hfq., Proc Natl Acad Sci U S A 107(21):9602-7

 [6] 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

 [7] 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.


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