RegulonDB RegulonDB 11.2: Gene Form
   

sgrS gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

sgrR setA sgrS sgrT SgrR Cra DksA DksA ppGpp ppGpp terminator anti-terminator anti-anti-terminator sgrSp2 sgrSp2 sgrSp sgrSp sgrRp sgrRp

Gene      
Name: sgrS    Texpresso search in the literature
Synonym(s): ECK0071, G0-9941, b4577, ryaA
Genome position(nucleotides): 77367 --> 77593
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 47.58
External database links:  
ASAP:
 ABE-0285090
ECHOBASE:
 EB4546
ECOLIHUB:
 sgrS
COLOMBOS: sgrS


Product      
Name: small regulatory RNA SgrS
Synonym(s): RyaA, SgrS
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.6 - antisense RNA
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:0003729 - mRNA binding
biological_process GO:0006950 - response to stress
GO:0040033 - RNA-mediated gene silencing by inhibition of translation
GO:0045975 - positive regulation of translation, ncRNA-mediated
GO:0070928 - regulation of mRNA stability, ncRNA-mediated
GO:1900192 - positive regulation of single-species biofilm formation
GO:1902201 - negative regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [EXP] Inferred from experiment
[EXP-IDA] Inferred from direct assay
[EXP-IMP] Inferred from mutant phenotype
Reference(s): [1] Azam MS., et al., 2020
[2] Bianchi DM., et al., 2020
[3] Kawamoto H., et al., 2005
[4] King AM., et al., 2019
[5] Lloyd CR., et al., 2017
[6] Malecka EM., et al., 2015
[7] Mihailovic MK., et al., 2018
[8] Negrete A., et al., 2017
[9] Sheng H., et al., 2017
[10] Sun Y., et al., 2013
[11] Vanderpool CK., et al., 2004
External database links:  
ECOCYC:
 RNA0-241
ECOLIWIKI:
 b4577


Operon      
Name: sgrST-setA         
Operon arrangement:
Transcription unit        Promoter
sgrST-setA
sgrST-setA


Transcriptional Regulation      
Display Regulation             
Activated by: SgrR
Repressed by: Cra


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


Reference(s)    

 [1] Azam MS., Vanderpool CK., 2020, Translation inhibition from a distance: The small RNA SgrS silences a ribosomal protein S1-dependent enhancer., Mol Microbiol 114(3):391-408

 [2] Bianchi DM., Brier TA., Poddar A., Azam MS., Vanderpool CK., Ha T., Luthey-Schulten Z., 2020, Stochastic Analysis Demonstrates the Dual Role of Hfq in Chaperoning E. coli Sugar Shock Response., Front Mol Biosci 7:593826

 [3] Kawamoto H., Morita T., Shimizu A., Inada T., Aiba H., 2005, Implication of membrane localization of target mRNA in the action of a small RNA: mechanism of post-transcriptional regulation of glucose transporter in Escherichia coli., Genes Dev 19(3):328-38

 [4] King AM., Vanderpool CK., Degnan PH., 2019, sRNA Target Prediction Organizing Tool (SPOT) Integrates Computational and Experimental Data To Facilitate Functional Characterization of Bacterial Small RNAs., mSphere 4(1)

 [5] Lloyd CR., Park S., Fei J., Vanderpool CK., 2017, The Small Protein SgrT Controls Transport Activity of the Glucose-Specific Phosphotransferase System., J Bacteriol 199(11)

 [6] Malecka EM., Strozecka J., Sobanska D., Olejniczak M., 2015, Structure of bacterial regulatory RNAs determines their performance in competition for the chaperone protein Hfq., Biochemistry 54(5):1157-70

 [7] 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

 [8] Negrete A., Shiloach J., 2017, Improving E. coli growth performance by manipulating small RNA expression., Microb Cell Fact 16(1):198

 [9] Sheng H., Stauffer WT., Hussein R., Lin C., Lim HN., 2017, Nucleoid and cytoplasmic localization of small RNAs in Escherichia coli., Nucleic Acids Res 45(5):2919-2934

 [10] Sun Y., Vanderpool CK., 2013, Physiological consequences of multiple-target regulation by the small RNA SgrS in Escherichia coli., J Bacteriol 195(21):4804-15

 [11] Vanderpool CK., Gottesman S., 2004, Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system., Mol Microbiol 54(4):1076-89

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