RegulonDB RegulonDB 11.1: Operon Form
   

metT-leuW-glnUW-metU-glnVX operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: metT-leuW-glnUW-metU-glnVX
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: metT-leuW-glnUW-metU-glnVX
Synonym(s): metT
Gene(s): glnX, glnV, metU, glnW, glnU, leuW, metT   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Mohanty BK., et al., 2008
[2] Nakajima N., et al., 1981
[3] Nakajima N., et al., 1982
Promoter
Name: metTp
+1: 697163
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 30
Sequence: caattttccttgaaaaagaggttgacgctgcaaggctctatacgcataatgcgccccgcaAcgccgataaggtatcgcgaa
                           -35                    -10       +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
Reference(s): [4] Huerta AM., et al., 2003
Terminator(s)
Type: rho-independent
Sequence: aatgaacgcaGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGtggctggggt
Reference(s): [5] Fournier MJ., et al., 1985
[6] Peters JM., et al., 2009
[7] Zuker M. 2003
TF binding sites (TFBSs)
[Fis,+] 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 Fis activator metTp 697223 697237 -67.0 cctaaccaaaCAGTCACTTTCGAGCaattttcctt nd [COMP-HINF] nd nd
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp inhibition metTp nd   [EXP-IEP] [8]
Evidence: [EXP-IEP] Inferred from expression pattern
Reference(s): [8] Rowley KB., et al., 1993


Transcription unit       
Name: glnW-metU-glnVX
Gene(s): glnX, glnV, metU, glnW   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: glnWp
+1: Unknown
Note(s): Zaslaver et al. demonstrated in 2006, by means of a library of fluorescent transcription fusions, that this promoter can be transcribed in vitro Zaslaver A,2006. Based on this, a putative promoter was suggested, but the +1 site of the transcription initiation has not been determined, although there exists promoter activity.
Evidence: [EXP-IEP]
Reference(s): [9] Zaslaver A., et al., 2006
Terminator(s)
Type: rho-independent
Sequence: aatgaacgcaGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGtggctggggt
Reference(s): [5] Fournier MJ., et al., 1985
[6] Peters JM., et al., 2009
[7] Zuker M. 2003


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [COMP-HINF] Inferred by a human based on computational evidence

 [EXP-IEP] Inferred from expression pattern


Reference(s)    

 [1] Mohanty BK., Kushner SR., 2008, Rho-independent transcription terminators inhibit RNase P processing of the secG leuU and metT tRNA polycistronic transcripts in Escherichia coli., Nucleic Acids Res 36(2):364-75

 [2] Nakajima N., Ozeki H., Shimura Y., 1981, Organization and structure of an E. coli tRNA operon containing seven tRNA genes., Cell 23(1):239-49

 [3] Nakajima N., Ozeki H., Shimura Y., 1982, In vitro transcription of the supB-E tRNA operon of Escherichia coli. Characterization of transcription products., J Biol Chem 257(18):11113-20

 [4] 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

 [5] Fournier MJ., Ozeki H., 1985, Structure and organization of the transfer ribonucleic acid genes of Escherichia coli K-12., Microbiol Rev 49(4):379-97

 [6] Peters JM., Mooney RA., Kuan PF., Rowland JL., Keles S., Landick R., 2009, Rho directs widespread termination of intragenic and stable RNA transcription., Proc Natl Acad Sci U S A 106(36):15406-11

 [7] Zuker M., 2003, Mfold web server for nucleic acid folding and hybridization prediction., Nucleic Acids Res 31(13):3406-15

 [8] Rowley KB., Elford RM., Roberts I., Holmes WM., 1993, In vivo regulatory responses of four Escherichia coli operons which encode leucyl-tRNAs., J Bacteriol 175(5):1309-15

 [9] Zaslaver A., Bren A., Ronen M., Itzkovitz S., Kikoin I., Shavit S., Liebermeister W., Surette MG., Alon U., 2006, A comprehensive library of fluorescent transcriptional reporters for Escherichia coli., Nat Methods 3(8):623-8

RegulonDB