RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: glmUS
Gene(s): glmS, glmU   Genome Browser M3D Gene expression COLOMBOS
Note(s): A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for glmU . This structure could regulate the expression of the gene, as observed for hemL gene expression 31964733.
Evidence: [LTED] Length of transcript experimentally determined
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Plumbridge J. 1995
Promoter
Name: glmUp1
+1: 3915223
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 23
Sequence: ctgtccatttcacgatgaaaaaaatgtagttttttcaaggtgaagcggtttaaattcgttCtcaaattacagtcaggacgc
                              -35                  -10      +1                   
Evidence: [HIPP]
[TIM]
Reference(s): [1] Plumbridge J. 1995
Terminator(s)
Type: rho-independent
Sequence: aggaagaaaaATGCCCCGCTTACGCAGGGCAtccatttatt
Reference(s): [2] Walker JE., et al., 1984
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NagC activator glmUp1 3915258 3915280 -46.0 ttatcctctgTCCATTTCACGATGAAAAAAATGtagttttttc nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/SM)], [SM] [1], [3]
remote NagC activator glmUp1 3915411 3915433 -199.0 ctgttttcctGTTTATTCATTGATCGAAATAAGagcaaaaaca nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/SM)], [SM] [1], [3]


Transcription unit          
Name: glmUS
Gene(s): glmS, glmU   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Plumbridge J. 1995
Promoter
Name: glmUp2
+1: 3915326
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 126
Sequence: aaattaaggtactgccttaattttctgcagacaaaaggcgtgacgatggtcgaaaatggcGctttcgtcagcggggataat
                         -35                        -10     +1                   
Evidence: [CV(RS-EPT-CBR/TA)]
[CV(TA/TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Plumbridge J. 1995
[4] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: aggaagaaaaATGCCCCGCTTACGCAGGGCAtccatttatt
Reference(s): [2] Walker JE., et al., 1984
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote NagC repressor glmUp2 3915258 3915280 58.0 ttatcctctgTCCATTTCACGATGAAAAAAATGtagttttttc nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/SM)], [SM] [1], [3]
remote NagC repressor glmUp2 3915411 3915433 -96.0 ctgttttcctGTTTATTCATTGATCGAAATAAGagcaaaaaca nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/SM)], [SM] [1], [3]


Regulation by sRNA    
  Small RNA name (Regulator) Regulation type Mechanism Function Binding Sites Evidence Reference
LeftPos RightPos Sequence (RNA-strand)
  glmZ base-pairing post-transcriptional regulation activator 3913690 3913708 ACAGGTTGACCGACAACG [IMP] [5]
[6]
  glmY unknown post-transcriptional regulation activator       [IMP] [6]
Notes: "The provided sequence is that of the RNA strand,i.e. 'U's are showed instead the 'T'"




Reference(s)    

 [1] Plumbridge J., 1995, Co-ordinated regulation of amino sugar biosynthesis and degradation: the NagC repressor acts as both an activator and a repressor for the transcription of the glmUS operon and requires two separated NagC binding sites., EMBO J 14(16):3958-65

 [2] Walker JE., Saraste M., Gay NJ., 1984, The unc operon. Nucleotide sequence, regulation and structure of ATP-synthase., Biochim Biophys Acta 768(2):164-200

 [3] Plumbridge J., 2001, DNA binding sites for the Mlc and NagC proteins: regulation of nagE, encoding the N-acetylglucosamine-specific transporter in Escherichia coli., Nucleic Acids Res 29(2):506-14

 [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] Kalamorz F., Reichenbach B., Marz W., Rak B., Gorke B., 2007, Feedback control of glucosamine-6-phosphate synthase GlmS expression depends on the small RNA GlmZ and involves the novel protein YhbJ in Escherichia coli., Mol Microbiol 65(6):1518-33

 [6] Urban JH., Papenfort K., Thomsen J., Schmitz RA., Vogel J., 2007, A Conserved Small RNA Promotes Discoordinate Expression of the glmUS Operon mRNA to Activate GlmS Synthesis., J Mol Biol 373(3):521-8


RegulonDB