RegulonDB RegulonDB 10.6.3: Gene Form
   

allS gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

selU allS allA AllR allAp allAp allSp allSp selUp5 selUp5 selUp4 selUp4 TSS_666 TSS_666

Gene      
Name: allS    Texpresso search in the literature
Synonym(s): ECK0497, G6274, b0504, glxA1, ybbS
Genome position(nucleotides): 531295 <-- 532221 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
52.43
External database links:  
ASAP:
ABE-0001742
ECHOBASE:
EB3053
ECOCYC:
G6274
ECOLIHUB:
allS
OU-MICROARRAY:
b0504
REGULONDB:
b0504
STRING:
511145.b0504
M3D: allS
COLOMBOS: allS
PortEco: b0504


Product      
Name: DNA-binding transcriptional activator AllS
Synonym(s): AllS, GlxA1, YbbS
Sequence: Get amino acid sequence Fasta Format
Regulator Family: LysR
Molecular weight: 34.512
Isoelectric point: 6.956
Motif(s):
 
Type Positions Sequence
91 -> 290 ERQVNIVINNLLYNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAIGVTGTEALANTFSLDPLGSVQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSARTLTKRVAWRLPGQKEIIVPDMETKIAAHLAGVGIGFLPKSLCQSMIDNQQLVSRVIPTMRPPSPLSLAWRKFGSGKAVEDIVTLFT
19 -> 38 FSKAAERLCKTTATISYRIK
2 -> 59 FDPETLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLT
6 -> 63 TLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGE

 

Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator
Gene Ontology Terms (GO)  
molecular_function GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity
GO:0043565 - sequence-specific DNA binding
biological_process GO:0006355 - regulation of transcription, DNA-templated
GO:0045893 - positive regulation of transcription, DNA-templated
External database links:  
ECOCYC:
G6274-MONOMER
ECOLIWIKI:
b0504
INTERPRO:
IPR036388
INTERPRO:
IPR036390
INTERPRO:
IPR005119
INTERPRO:
IPR000847
MODBASE:
P0ACR0
PFAM:
PF00126
PFAM:
PF03466
PRIDE:
P0ACR0
PRODB:
PRO_000022084
PROSITE:
PS50931
PROTEINMODELPORTAL:
P0ACR0
REFSEQ:
NP_415037
SMR:
P0ACR0
UNIPROT:
P0ACR0


Operon      
Name: allS         
Operon arrangement:
Transcription unit        Promoter
allS


Transcriptional Regulation      
Display Regulation             
Repressed by: AllR
Growth Conditions:

[1] 

C: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM; glyoxylate| mid exponential phase

[2] 

C: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; L-glutamine 0.2%; glyoxylate| mid exponential phase

[3] 

C: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM| mid exponential phase
E: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM; glyoxylate| mid exponential phase

[4] 

C: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM| mid exponential phase
E: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM| mid exponential phase

[5] 

C: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; L-glutamine zwitterion| mid exponential phase
E: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; L-glutamine zwitterion; glyoxylate| mid exponential phase

[6] 

C: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM| mid exponential phase
E: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase

[7] 

C: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM| mid exponential phase
E: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; allantoin 60 mM| mid exponential phase

[8] 

C: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM| mid exponential phase
E: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; L-glutamine 0.2%| mid exponential phase

[9] 

C: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; L-glutamine 0.2%; glyoxylate| mid exponential phase

[10] 

C: Escherichia coli| minimal medium| D-xylose 120 然; L-glutamine 0.2%| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; L-glutamine 0.2%; glyoxylate| mid exponential phase

[11] 

C: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM; glyoxylate| mid exponential phase

[12] 

C: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| allR knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM; glyoxylate| mid exponential phase

[13] 

C: Escherichia coli| minimal medium| D-xylose 120 然; L-glutamine 0.2%| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; allantoin 60 mM| mid exponential phase

[14] 

C: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; L-glutamine 0.2%; glyoxylate| mid exponential phase

[15] 

C: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM| mid exponential phase
E: Escherichia coli| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase

[16] 

C: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 20 mM; glyoxylate| mid exponential phase
E: Escherichia coli| allS knockout mutant| minimal medium| D-xylose 120 然; ammonium sulfate 0.5 mM; glyoxylate| mid exponential phase



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 TSS_666 531253 reverse nd [RS-EPT-CBR] [1]
  promoter selUp4 531358 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter selUp5 531362 reverse Similarity to the consensus
Read more >
[ICWHO] [2]


Evidence    

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

 [ICWHO] Inferred computationally without human oversight



Reference(s)    

 [1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Mu蕞iz-Rascado L, Garc蕞a-Sotelo JS, Weiss V, Solano-Lira H, Mart蕞nez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hern蕞ndez S, Alquicira-Hern蕞ndez K, L蕞pez-Fuentes A, Porr蕞n-Sotelo L, Huerta AM, Bonavides-Mart蕞nez C, Balderas-Mart蕞nez YI, Pannier L, Olvera M, Labastida A, Jim蕞nez-Jacinto V, Vega-Alvarado L, Del Moral-Ch蕞vez V, Hern蕞ndez-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.

 [2] 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


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