RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit       
Name: glpQ
Gene(s): glpQ   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IEP] Inferred from expression pattern
Reference(s): [1] Li Z., et al., 2019
Promoter
Name: glpQp
+1: 2351124
Sigma Factor: Sigma54 Sigmulon
Distance from start of the gene: 113
Sequence: ggtggcggcgagcgcgattgttggctacaccgtggacttcttcggctgggatggcggcttTatggtaatgattggcggcag
                                 -24         -12            +1                   
Evidence: [ICWHO]
[RSE]
[TIM]
Reference(s): [1] Li Z., et al., 2019


Transcription unit          
Name: glpTQ
Synonym(s): OP00304
Gene(s): glpQ, glpT   Genome Browser M3D Gene expression COLOMBOS
Note(s): GlpR bound to this region represses the glpTQ operon, and this repression depends on the GlpR-binding sites which are close to the glpABC operon, a divergent operon of glpTQ. All these GlpR sites possibly form a looped nucleoprotein complex Yang B,1997
Larson TJ,1992identified five GlpR-binding sites upstream of the glpTQ operon. However , Yang B,1997, using footprinting analysis, concluded that one of them (at -41.5) is not an operator.
It was suggested that IHF represses the glpTQ operon by facilitating formation of a repression loop, in which GlpR is also a member of the complex.
Reference(s): [2] Larson TJ., et al., 1992
Promoter
Name: glpTQp
+1: 2352451
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 77
Sequence: atttaataatgtgtgcggcaattcacatttaatttatgaatgttttcttaacatcgcggcAactcaagaaacggcaggttc
                      -35                        -10        +1                   
Note(s): The activity of this promoter appears to be decreased in the presence of σE. It is repressed during the first 5 minutes following σE induction and decreased from 5 to 10 minutes and from 10 to 20 minutes after induction of the σ factor Lacoux C,2020.
Evidence: [HIPP]
[ICWHO]
Reference(s): [3] Huerta AM., et al., 2003
[2] Larson TJ., et al., 1992
[4] Yang B., et al., 1997
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator glpTQp 2352482 2352503 -41.5 ttatttaataATGTGTGCGGCAATTCACATTTaatttatgaa nd [GEA], [AIBSCS], [APIORCISFBSCS], [BPP] [2], [6], [9]
proximal CRP-cyclic-AMP activator glpTQp 2352532 2352553 -91.5 ttcgaaagtgAAACGTGATTTCATGCGTCATTttgaacattt nd [GEA], [APIORCISFBSCS], [BPP] [2], [6]
remote CRP-cyclic-AMP activator glpTQp 2352572 2352593 -131.5 aaaacatgaaTTGTTTGATTTCGCGCATATTCgctcataatt nd [GEA], [APIORCISFBSCS], [BPP] [2], [6]
[FNR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR activator glpTQp 2352536 2352549 -91.5 aaagtgaaacGTGATTTCATGCGTcattttgaac nd [GEA], [AIBSCS] [7], [8]
remote FNR activator glpTQp 2352576 2352589 -131.5 catgaattgtTTGATTTCGCGCATattcgctcat nd [GEA], [APIORCISFBSCS] [7], [8]
[Fis,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote Fis activator glpTQp 2352396 2352410 49.0 tcaggctgttAATCATAAATAAGACcacgggccac nd [AIBSCS], [GEA], [AIBSCS] [5]
proximal Fis activator glpTQp 2352460 2352474 -16.0 tttaatttatGAATGTTTTCTTAACatcgcggcaa nd [AIBSCS], [GEA], [AIBSCS] [5]
proximal Fis activator glpTQp 2352508 2352522 -64.0 tttgaacattTTGTAAATCTTATTTaataatgtgt nd [AIBSCS], [GEA], [AIBSCS] [5]
proximal Fis activator glpTQp 2352515 2352529 -71.0 gcgtcattttGAACATTTTGTAAATcttatttaat nd [AIBSCS], [GEA], [AIBSCS] [5]
remote Fis activator glpTQp 2352557 2352571 -113.0 gcgcatattcGCTCATAATTCGAAAgtgaaacgtg nd [AIBSCS], [GEA], [AIBSCS] [5]
remote Fis activator glpTQp 2352610 2352624 -166.0 gaagttcgttTTTTACCATTTAGCCatagtaaaaa nd [AIBSCS], [GEA], [AIBSCS] [5]
[GlpR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote GlpR repressor glpTQp 2352094 2352113 348.5 ttcggtatcgGATCGCTCGAATCCGCGCGTtttcctgccc nd [GEA], [BPP], [SM] [4]
remote GlpR repressor glpTQp 2352109 2352128 333.5 gaaattcatcATGGGTTCGGTATCGGATCGctcgaatccg nd [GEA], [BPP], [SM] [4]
remote GlpR repressor glpTQp 2352127 2352146 315.5 gattgcttatGGATTTTCGAAATTCATCATgggttcggta nd [GEA], [BPP], [SM] [4]
proximal GlpR repressor glpTQp 2352483 2352502 -41.5 tatttaataaTGTGTGCGGCAATTCACATTtaatttatga nd [APIORCISFBSCS], [BPP], [SM] [2]
proximal GlpR repressor glpTQp 2352523 2352542 -81.5 aacgtgatttCATGCGTCATTTTGAACATTttgtaaatct nd [APIORCISFBSCS], [BPP], [SM] [2], [4]
remote GlpR repressor glpTQp 2352555 2352574 -113.5 ttcgcgcataTTCGCTCATAATTCGAAAGTgaaacgtgat nd [APIORCISFBSCS], [BPP], [SM] [2], [4]
remote GlpR repressor glpTQp 2352574 2352593 -132.5 aaaacatgaaTTGTTTGATTTCGCGCATATtcgctcataa nd [APIORCISFBSCS], [BPP], [SM] [2], [4]
remote GlpR repressor glpTQp 2352614 2352633 -172.5 tatccctctgAAGTTCGTTTTTTACCATTTagccatagta nd [APIORCISFBSCS], [BPP], [SM] [2], [4]
[IHF,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote IHF repressor glpTQp 2352244 2352256 202.0 ggctatgcggCTTACTATTTGGTtcgtaagaac nd [GEA], [APIORCISFBSCS], [BPP] [4]
remote IHF repressor glpTQp 2352411 2352423 35.0 ttctctcactGAATCAGGCTGTTaatcataaat nd [GEA], [APIORCISFBSCS], [BPP] [4]


Evidence    

 [ICWHO] Inferred computationally without human oversight

 [RSE] RNA-seq evidence

 [TIM] Transcription initiation mapping

 [HIPP] Human inference of promoter position

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [SM] Site mutation


Reference(s)    

 [1] Li Z., Pan Q., Xiao Y., Fang X., Shi R., Fu C., Danchin A., You C., 2019, Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation., Microb Biotechnol 12(2):360-376

 [2] Larson TJ., Cantwell JS., van Loo-Bhattacharya AT., 1992, Interaction at a distance between multiple operators controls the adjacent, divergently transcribed glpTQ-glpACB operons of Escherichia coli K-12., J Biol Chem 267(9):6114-21

 [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] Yang B., Gerhardt SG., Larson TJ., 1997, Action at a distance for glp repressor control of glpTQ transcription in Escherichia coli K-12., Mol Microbiol 24(3):511-21

 [5] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40

 [6] Weissenborn DL., Wittekindt N., Larson TJ., 1992, Structure and regulation of the glpFK operon encoding glycerol diffusion facilitator and glycerol kinase of Escherichia coli K-12., J Biol Chem 267(9):6122-31

 [7] Kuritzkes DR., Zhang XY., Lin EC., 1984, Use of phi(glp-lac) in studies of respiratory regulation of the Escherichia coli anaerobic sn-glycerol-3-phosphate dehydrogenase genes (glpAB)., J Bacteriol 157(2):591-8

 [8] Wong KK., Kwan HS., 1992, Transcription of glpT of Escherichia coli K12 is regulated by anaerobiosis and fnr., FEMS Microbiol Lett 73(1-2):15-8

 [9] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93

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