RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: malI
Synonym(s): OP00259
Gene(s): malI   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [1] Reidl J., et al., 1989
Promoter
Name: malIp
+1: 1699228
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 48
Sequence: aaattttagtgaggcataaatcacattacgcaacgataatagcgggtataagataaataaAaggtaaaacgttttatctgt
                              -35                     -10   +1                   
Note(s): Based on mutations of the -10 and -35 boxes of the malI promoter, Lloyd et al. (2009) Lloyd GS,2008showed that the promoter activity is decreased by mutations in both boxes. On the other hand, these investigators used site-directed mutagenesis at the -10 element identified by Reidl et al. (1989) and found this mutation had very little effect on malI promoter activity. All this suggests that the transcription start identified by Lloyd et al. (2009) must be 5 bp upstream from that determined experimentally by Reidl et al. (1989) Reidl J,1989
Evidence: [COMP-AINF]
[EXP]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[3] Lloyd GS., et al., 2008
[1] Reidl J., et al., 1989
Terminator(s)
Type: rho-independent
Sequence: accaggtataGCAGATAAAGAGAGGATTATTTCGCTGCaatgagccgg
Reference(s): [1] Reidl J., et al., 1989
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator malIp 1699261 1699282 -43.5 tatcaaatttTAGTGAGGCATAAATCACATTAcgcaacgata nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3], [4]
[CRP,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP repressor malIp 1699201 1699222 17.5 ataaaaggtaAAACGTTTTATCTGTCACATAAtcagggagta nd [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IMP-SITE-MUTATION], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [3], [5]
[MalI,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal MalI repressor malIp 1699210 1699227 10.5 gataaataaaAGGTAAAACGTTTTATCTgtcacataat nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IMP-SITE-MUTATION] W [4]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [EXP] Inferred from experiment

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

 [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] Binding of cellular extracts

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-IMP-SITE-MUTATION] Site mutation


Reference(s)    

 [1] Reidl J., Romisch K., Ehrmann M., Boos W., 1989, MalI, a novel protein involved in regulation of the maltose system of Escherichia coli, is highly homologous to the repressor proteins GalR, CytR, and LacI., J Bacteriol 171(9):4888-99

 [2] 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

 [3] Lloyd GS., Hollands K., Godfrey RE., Busby SJ., 2008, Transcription initiation in the Escherichia coli K-12 malI-malX intergenic region and the role of the cyclic AMP receptor protein., FEMS Microbiol Lett 288(2):250-7

 [4] Lloyd GS., Godfrey RE., Busby SJ., 2010, Targets for the MalI repressor at the divergent Escherichia coli K-12 malX-malI promoters., FEMS Microbiol Lett 305(1):28-34

 [5] 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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