RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit       
Name: cysK
Gene(s): cysK   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[IC] Inferred by curator
Reference(s): [1] Byrne CR., et al., 1988
[2] Mendoza-Vargas A., et al., 2009
Promoter
Name: cysKp2
+1: 2532344
Distance from start of the gene: 65
Sequence: ttattccatcttgcatgtcattatttcccttctgtatatagatatgctaaatccttacttCcgcatattctctgagcgggt
Evidence: [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
Reference(s): [2] Mendoza-Vargas A., et al., 2009
Terminator(s)
Type: rho-independent
Sequence: gcgtaaaaaaGCACCTTTTTAGGTGCttttttgtgg
Reference(s): [1] Byrne CR., et al., 1988


Transcription unit          
Name: cysK
Synonym(s): OP00107
Gene(s): cysK   Genome Browser M3D Gene expression COLOMBOS
Note(s): cysK expression is regulated negatively by the OmpR transcriptional regulator and is induced by CysE, an enzyme involved in the synthesis of O-acetyl-L-serine from L-serine and by addition of lithium ions Yamamoto K, Oshima T, Nonaka G, Ito H, Ishihama A,2011.
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [1] Byrne CR., et al., 1988
Promoter
Name: cysKp1
+1: 2532377
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 32
Sequence: gtatatagatatgctaaatccttacttccgcatattctctgagcgggtatgctacctgttGtatcccaatttcatacagtt
                      -35                       -10         +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Byrne CR., et al., 1988
[3] Huerta AM., et al., 2003
[2] Mendoza-Vargas A., et al., 2009
[4] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: gcgtaaaaaaGCACCTTTTTAGGTGCttttttgtgg
Reference(s): [1] Byrne CR., et al., 1988
TF binding sites (TFBSs)
[CysB,+] 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 CysB activator cysKp1 2532304 2532344 -53.0 ttgcatgtcaTTATTTCCCTTCTGTATATAGATATGCTAAATCCTTACTTCcgcatattct nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IMP-SITE-MUTATION] W [5], [6]


Evidence    

 [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] High-throughput transcription initiation mapping

 [COMP-AINF] Inferred computationally without human oversight

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

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

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

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [EXP-IMP-SITE-MUTATION] Site mutation


Reference(s)    

 [1] Byrne CR., Monroe RS., Ward KA., Kredich NM., 1988, DNA sequences of the cysK regions of Salmonella typhimurium and Escherichia coli and linkage of the cysK regions to ptsH., J Bacteriol 170(7):3150-7

 [2] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [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] 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.

 [5] Liu H., Hou Y., Wang Y., Li Z., 2020, Enhancement of Sulfur Conversion Rate in the Production of l-Cysteine by Engineered Escherichia coli., J Agric Food Chem 68(1):250-257

 [6] Monroe RS., Ostrowski J., Hryniewicz MM., Kredich NM., 1990, In vitro interactions of CysB protein with the cysK and cysJIH promoter regions of Salmonella typhimurium., J Bacteriol 172(12):6919-29

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