RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit       
Name: metA
Gene(s): metA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Biran D., et al., 1995
Promoter
Name: metAp2
+1: 4214159
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 121
Sequence: gtgagcggcgaatactaataaccattttctctccttttagtcattcttatattctaacgtAgtcttttccttgaaactttc
                           -35                  -10         +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Gery S., et al., 1997
[3] Huerta AM., et al., 2003
[4] Michaeli S., et al., 1984


Transcription unit          
Name: metA
Synonym(s): OP00051
Gene(s): metA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Biran D., et al., 1995
[5] Old IG., et al., 1993
Promoter
Name: metAp1
+1: 4214233
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 47
Sequence: aactttctcaccttcaacatgcaggctcgacattggcaaattttctggttatcttcagctAtctggatgtctaaacgtata
                                  -35                -10    +1                   
Evidence: [ICWHO]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Biran D., et al., 1995
[3] Huerta AM., et al., 2003
[4] Michaeli S., et al., 1984
[6] Salgado H, et al., 2012
TF binding sites (TFBSs)
[MetJ,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal MetJ-S-adenosyl-L-methionine repressor metAp1 4214229 4214244 4.5 ggttatcttcAGCTATCTGGATGTCTaaacgtataa nd [GEA], [AIBSCS], [BCE], [BPP] [7], [8]
proximal MetJ-S-adenosyl-L-methionine repressor metAp1 4214245 4214260 20.5 ctggatgtctAAACGTATAAGCGTATgtagtgaggt nd [GEA], [AIBSCS], [BCE], [BPP] [7], [8]


Evidence    

 [ICWHO] Inferred computationally without human oversight

 [TIM] Transcription initiation mapping

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

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BCE] Binding of cellular extracts

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Biran D., Brot N., Weissbach H., Ron EZ., 1995, Heat shock-dependent transcriptional activation of the metA gene of Escherichia coli., J Bacteriol 177(5):1374-9

 [2] Gery S., Ron EZ., 1997, An Escherichia coli gene divergently transcribed from a promoter overlapping the metA promoter., FEMS Microbiol Lett 154(2):219-22

 [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] Michaeli S., Mevarech M., Ron EZ., 1984, Regulatory region of the metA gene of Escherichia coli K-12., J Bacteriol 160(3):1158-62

 [5] Old IG., Saint Girons I., Richaud C., 1993, Physical mapping of the scattered methionine genes on the Escherichia coli chromosome., J Bacteriol 175(11):3689-91

 [6] 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.

 [7] Liu R., Blackwell TW., States DJ., 2001, Conformational model for binding site recognition by the E.coli MetJ transcription factor., Bioinformatics 17(7):622-33

 [8] Marincs F., Manfield IW., Stead JA., McDowall KJ., Stockley PG., 2006, Transcript analysis reveals an extended regulon and the importance of protein-protein co-operativity for the Escherichia coli methionine repressor., Biochem J 396(2):227-34

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