RegulonDB

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:	[RE] [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]
Reference(s):	[2] Larson TJ., et al., 1992 [3] 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)
Type	Transcription factor	Function	Promoter	LeftPos	RightPos	Central Rel-Pos	Sequence	Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
proximal	CRP-cAMP	activator	glpTQp	2352482	2352503	-41.5	ttatttaataATGTGTGCGGCAATTCACATTTaatttatgaa	nd	[AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6], [9]
proximal	CRP-cAMP	activator	glpTQp	2352532	2352553	-91.5	ttcgaaagtgAAACGTGATTTCATGCGTCATTttgaacattt	nd	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6]
remote	CRP-cAMP	activator	glpTQp	2352572	2352593	-131.5	aaaacatgaaTTGTTTGATTTCGCGCATATTCgctcataatt	nd	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6]

[FNR,+] Phrase

Type	Transcription factor	Function	Promoter	Binding Sites				Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
Type	Transcription factor	Function	Promoter	LeftPos	RightPos	Central Rel-Pos	Sequence	Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
proximal	FNR	activator	glpTQp	2352536	2352549	-91.5	aaagtgaaacGTGATTTCATGCGTcattttgaac	nd	[AIBSCS], [CV(GEA)], [GEA]	[3], [7], [8]
remote	FNR	activator	glpTQp	2352576	2352589	-131.5	catgaattgtTTGATTTCGCGCATattcgctcat	nd	[APIORCISFBSCS], [CV(GEA)], [GEA]	[3], [7], [8]

[Fis,+] Phrase

Type	Transcription factor	Function	Promoter	Binding Sites				Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
Type	Transcription factor	Function	Promoter	LeftPos	RightPos	Central Rel-Pos	Sequence	Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
remote	Fis	activator	glpTQp	2352396	2352410	49.0	tcaggctgttAATCATAAATAAGACcacgggccac	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]
proximal	Fis	activator	glpTQp	2352460	2352474	-16.0	tttaatttatGAATGTTTTCTTAACatcgcggcaa	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]
proximal	Fis	activator	glpTQp	2352508	2352522	-64.0	tttgaacattTTGTAAATCTTATTTaataatgtgt	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]
proximal	Fis	activator	glpTQp	2352515	2352529	-71.0	gcgtcattttGAACATTTTGTAAATcttatttaat	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]
remote	Fis	activator	glpTQp	2352557	2352571	-113.0	gcgcatattcGCTCATAATTCGAAAgtgaaacgtg	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]
remote	Fis	activator	glpTQp	2352610	2352624	-166.0	gaagttcgttTTTTACCATTTAGCCatagtaaaaa	nd	[AIBSCS], [CV(GEA)], [GEA]	[5]

[GlpR,-] Phrase

Type	Transcription factor	Function	Promoter	Binding Sites				Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
Type	Transcription factor	Function	Promoter	LeftPos	RightPos	Central Rel-Pos	Sequence	Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
remote	GlpR	repressor	glpTQp	2352094	2352113	348.5	ttcggtatcgGATCGCTCGAATCCGCGCGTtttcctgccc	nd	[BPP], [CV(SM)], [GEA], [SM]	[3]
remote	GlpR	repressor	glpTQp	2352109	2352128	333.5	gaaattcatcATGGGTTCGGTATCGGATCGctcgaatccg	nd	[BPP], [CV(SM)], [GEA], [SM]	[3]
remote	GlpR	repressor	glpTQp	2352127	2352146	315.5	gattgcttatGGATTTTCGAAATTCATCATgggttcggta	nd	[BPP], [CV(SM)], [GEA], [SM]	[3]
proximal	GlpR	repressor	glpTQp	2352483	2352502	-41.5	tatttaataaTGTGTGCGGCAATTCACATTtaatttatga	nd	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [4]
proximal	GlpR	repressor	glpTQp	2352523	2352542	-81.5	aacgtgatttCATGCGTCATTTTGAACATTttgtaaatct	nd	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
remote	GlpR	repressor	glpTQp	2352555	2352574	-113.5	ttcgcgcataTTCGCTCATAATTCGAAAGTgaaacgtgat	nd	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
remote	GlpR	repressor	glpTQp	2352574	2352593	-132.5	aaaacatgaaTTGTTTGATTTCGCGCATATtcgctcataa	nd	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
remote	GlpR	repressor	glpTQp	2352614	2352633	-172.5	tatccctctgAAGTTCGTTTTTTACCATTTagccatagta	nd	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]

[IHF,-] Phrase

Type	Transcription factor	Function	Promoter	Binding Sites				Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
Type	Transcription factor	Function	Promoter	LeftPos	RightPos	Central Rel-Pos	Sequence	Growth Conditions	Evidence (Confirmed, Strong, Weak)	Reference(s)
remote	IHF	repressor	glpTQp	2352244	2352256	202.0	ggctatgcggCTTACTATTTGGTtcgtaagaac	nd	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[3]
remote	IHF	repressor	glpTQp	2352411	2352423	35.0	ttctctcactGAATCAGGCTGTTaatcataaat	nd	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[3]

Transcription factor	Function	Promoter	Binding Sites	Evidence (Confirmed, Strong, Weak)	Reference(s)
GlpR	repressor	glpTQp	2352614	2352633	-172.5	tatccctctgAAGTTCGTTTTTTACCATTTagccatagta	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
Fis	activator	glpTQp	2352610	2352624	-166.0	gaagttcgttTTTTACCATTTAGCCatagtaaaaa	[AIBSCS], [CV(GEA)], [GEA]	[5]
GlpR	repressor	glpTQp	2352574	2352593	-132.5	aaaacatgaaTTGTTTGATTTCGCGCATATtcgctcataa	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
CRP-cAMP	activator	glpTQp	2352572	2352593	-131.5	aaaacatgaaTTGTTTGATTTCGCGCATATTCgctcataatt	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6]
FNR	activator	glpTQp	2352576	2352589	-131.5	catgaattgtTTGATTTCGCGCATattcgctcat	[APIORCISFBSCS], [CV(GEA)], [GEA]	[3], [7], [8]
GlpR	repressor	glpTQp	2352555	2352574	-113.5	ttcgcgcataTTCGCTCATAATTCGAAAGTgaaacgtgat	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
Fis	activator	glpTQp	2352557	2352571	-113.0	gcgcatattcGCTCATAATTCGAAAgtgaaacgtg	[AIBSCS], [CV(GEA)], [GEA]	[5]
CRP-cAMP	activator	glpTQp	2352532	2352553	-91.5	ttcgaaagtgAAACGTGATTTCATGCGTCATTttgaacattt	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6]
FNR	activator	glpTQp	2352536	2352549	-91.5	aaagtgaaacGTGATTTCATGCGTcattttgaac	[AIBSCS], [CV(GEA)], [GEA]	[3], [7], [8]
GlpR	repressor	glpTQp	2352523	2352542	-81.5	aacgtgatttCATGCGTCATTTTGAACATTttgtaaatct	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [3], [4]
Fis	activator	glpTQp	2352515	2352529	-71.0	gcgtcattttGAACATTTTGTAAATcttatttaat	[AIBSCS], [CV(GEA)], [GEA]	[5]
Fis	activator	glpTQp	2352508	2352522	-64.0	tttgaacattTTGTAAATCTTATTTaataatgtgt	[AIBSCS], [CV(GEA)], [GEA]	[5]
CRP-cAMP	activator	glpTQp	2352482	2352503	-41.5	ttatttaataATGTGTGCGGCAATTCACATTTaatttatgaa	[AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[2], [3], [6], [9]
GlpR	repressor	glpTQp	2352483	2352502	-41.5	tatttaataaTGTGTGCGGCAATTCACATTtaatttatga	[APIORCISFBSCS], [BPP], [CV(SM)], [SM]	[2], [4]
Fis	activator	glpTQp	2352460	2352474	-16.0	tttaatttatGAATGTTTTCTTAACatcgcggcaa	[AIBSCS], [CV(GEA)], [GEA]	[5]
IHF	repressor	glpTQp	2352411	2352423	35.0	ttctctcactGAATCAGGCTGTTaatcataaat	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[3]
Fis	activator	glpTQp	2352396	2352410	49.0	tcaggctgttAATCATAAATAAGACcacgggccac	[AIBSCS], [CV(GEA)], [GEA]	[5]
IHF	repressor	glpTQp	2352244	2352256	202.0	ggctatgcggCTTACTATTTGGTtcgtaagaac	[APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA]	[3]
GlpR	repressor	glpTQp	2352127	2352146	315.5	gattgcttatGGATTTTCGAAATTCATCATgggttcggta	[BPP], [CV(SM)], [GEA], [SM]	[3]
GlpR	repressor	glpTQp	2352109	2352128	333.5	gaaattcatcATGGGTTCGGTATCGGATCGctcgaatccg	[BPP], [CV(SM)], [GEA], [SM]	[3]
GlpR	repressor	glpTQp	2352094	2352113	348.5	ttcggtatcgGATCGCTCGAATCCGCGCGTtttcctgccc	[BPP], [CV(SM)], [GEA], [SM]	[3]

Evidence
[RE] RNA-seq evidence
[TIM] Transcription initiation mapping
[HIPP] Human inference of promoter position
[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
[CV(GEA)] cross validation(GEA)
[GEA] Gene expression analysis
[CV(SM)] cross validation(SM)
[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] 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
[4] Zhao N., Oh W., Trybul D., Thrasher KS., Kingsbury TJ., Larson TJ., 1994, Characterization of the interaction of the glp repressor of Escherichia coli K-12 with single and tandem glp operator variants., J Bacteriol 176(8):2393-7
[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

RegulonDB