RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: astCADBE
Gene(s): astE, astB, astD, astA, astC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[IEP] Inferred from expression pattern
[ITC] Inferred through co-regulation
Reference(s): [1] Schneider BL., et al., 1998
Promoter
Name: astCp1
+1: 1832013
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 31
Sequence: ggctggcacgaaccctgcaatctacatttacagcgcaaacattacttattattaacatatAaataacgaattatttactgt
                      -35                      -10          +1                   
Evidence: [HIPP]
Reference(s): [2] Fraley CD., et al., 1998


Transcription unit       
Name: astCADBE
Gene(s): astE, astB, astD, astA, astC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[IEP] Inferred from expression pattern
[ITC] Inferred through co-regulation
Reference(s): [1] Schneider BL., et al., 1998
Promoter
Name: astCp3
+1: 1832039
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 57
Sequence: tccgccgtttatgcacttttatcactggctggcacgaaccctgcaatctacatttacagcGcaaacattacttattattaa
                         -35                -10             +1                   
Note(s): The expression of this promoter is induced in cells in stationary phase in nitrogen-limited medium lacking glucose.
Evidence: [CV(RPF)]
[CV(RPF/TIM)]
[CV(TIM)]
[HIPP]
[RPF]
[TIM]
Reference(s): [2] Fraley CD., et al., 1998
[3] Kiupakis AK., et al., 2002


Transcription unit          
Name: astCADBE
Gene(s): astE, astB, astD, astA, astC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[IEP] Inferred from expression pattern
[ITC] Inferred through co-regulation
Reference(s): [1] Schneider BL., et al., 1998
Promoter
Name: astCp2
+1: 1832044
Sigma Factor: Sigma54 Sigmulon
Distance from start of the gene: 62
Sequence: tagcctccgccgtttatgcacttttatcactggctggcacgaaccctgcaatctacatttAcagcgcaaacattacttatt
                                   -24         -12          +1                   
Note(s): The expression of this promoter is induced in cells growing exponentially in nitrogen-limited minimal medium Fraley CD,1998
Evidence: [CV(RPF)]
[CV(RPF/TIM)]
[CV(TIM)]
[HIPP]
[RPF]
[TIM]
Reference(s): [2] Fraley CD., et al., 1998
[3] Kiupakis AK., et al., 2002
TF binding sites (TFBSs)
[ArgR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal ArgR-L-arginine1 activator astCp2 1832083 1832100 -47.5 tccagttagcCTCCGCCGTTTATGCACTtttatcactg nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
proximal ArgR-L-arginine2 activator astCp2 1832114 1832131 -78.5 atgcatatggTTTGGTTATAACTCCTTGatttccagtt nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
remote ArgR-L-arginine3 activator astCp2 1832135 1832152 -99.5 ttcactttatATGCACTTTAAATGCATAtggtttggtt nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
remote ArgR-L-arginine4 activator astCp2 1832157 1832174 -121.5 attcacccacATCGCAAACGTATTCACTttatatgcac nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
[NtrC,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote NtrC-Pasp activator astCp2 1832269 1832285 -233.0 tggtgcgcgcTGCGTCAGAATGGCGCAgtaatttcca nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
remote NtrC-Pasp activator astCp2 1832289 1832305 -253.0 gcgcaaaaaaTGCCCGCTTTTGGTGCGcgctgcgtca nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
remote NtrC-Pasp activator astCp2 1832311 1832327 -275.0 gttgttaatgATGTCAACGATGGCGCAaaaaatgccc nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [3]
Note(s): 1ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
2ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
3ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
4ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.4ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
5ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
6ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.
7ArgR enhances expression from the astCp2 promoter but is not essential for its expression Kiupakis AK,2002.


Evidence    

 [HIPP] Human inference of promoter position

 [CV(RPF)] cross validation(RPF)

 [CV(RPF/TIM)] cross validation(RPF/TIM)

 [CV(TIM)] cross validation(TIM)

 [RPF] RNA polymerase footprinting

 [TIM] Transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins

 [CV(GEA)] cross validation(GEA)

 [GEA] Gene expression analysis


Reference(s)    

 [1] Schneider BL., Kiupakis AK., Reitzer LJ., 1998, Arginine catabolism and the arginine succinyltransferase pathway in Escherichia coli., J Bacteriol 180(16):4278-86

 [2] Fraley CD., Kim JH., McCann MP., Matin A., 1998, The Escherichia coli starvation gene cstC is involved in amino acid catabolism., J Bacteriol 180(16):4287-90

 [3] Kiupakis AK., Reitzer L., 2002, ArgR-independent induction and ArgR-dependent superinduction of the astCADBE operon in Escherichia coli., J Bacteriol 184(11):2940-50

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