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| Operon |  |
|---|---|
| Name: | tff-rpsB-tsf |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | rpsB-tsf |
| Gene(s): | tff, rpsB, tsf Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | There is a typical rho-independent termination or attenuation site in the intergenic region of rpsB and tsf which is preceded by a very stable stem-loop structure that, in its RNA form, is reminiscent of an RNA polymerase III site An G,1981. However, neither an attenuator effect nor promoter activity was observed An G,1981. |
| Reference(s): | [1] An G., et al., 1981 |
| Promoter | |
| Name: | rpsBp |
| +1: | 189712 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 0 |
| Sequence: |
tgctgtacacagcgccaacaattattggtgtccacgacgtatttgtggtataaagcgcgcCggacttccgatccatttcgt -35 -10 +1 |
| Note(s): | The rpsB promoter belongs to the extended -10 promoter class Aseev LV,2008 It comprises a TGTG extension upstream of the -10 hexamer TATAAA, a suboptimal -35 box, TTGGTG, and a GC-rich discriminator, GCGCGC, that separates the -10 element from the transcription start site and is reminiscent of a GC-rich discriminator typical for promoters under growth rate and stringent control Aseev LV,2014. Aseev LV,2008and references therein|. The design of the rpsB promoter region is highly conserved in γ-proteobacteria Aseev LV,2008 Site-directed mutation on both the TGTG extension and the TTG element in the -35 region had effects on transcription, since they dramatically decreased the activity of the promoter Aseev LV,2014 |
| Evidence: |
[CV(RS-EPT-CBR/TA)] [CV(TA/TIM)] [HTIM] [RS-EPT-CBR] [TIM] |
| Reference(s): |
[2] Aseev LV., et al., 2008 [3] Mendoza-Vargas A., et al., 2009 [4] Salgado H, et al., 2012 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | atcaaaaaggAGCCGCCTGAGGGCGGCTtctttttgtg |
| Reference(s): | [1] An G., et al., 1981 |
| Allosteric regulation of RNA-polymerase |
| Regulator | Function | Promoter target of RNApol | Growth Conditions | Note | Evidence | Reference | |
|---|---|---|---|---|---|---|---|
| ppGpp | inhibition | rpsBp | Upon amino acid starvation, rpsBp is negatively regulated by ppGpp due to the presence of the GC-rich discriminator, whose substitution for the AT-rich element abolished stringent control Aseev LV,2014 | [GEA] | [5] |
| Evidence: | [GEA] Gene expression analysis |
| Reference(s): | [5] Aseev LV., et al., 2014 |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Transcriptional |
| Strand: | forward |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -18.9 | 190768 | 190808 | gtacacgtttGGTTAGGGGGCCTGCATATGGCCCCCTTTTTCACTTTTATatctgtgcgg | |
| terminator | -10.8 | 189676 | 189714 | caacaattatTGGTGTCCACGACGTATTTGTGGTATAAAGCGCGCCGGacttccgatc | |
| anti-terminator | -13.6 | 190738 | 190781 | tgaagggggaGAGCCCTTATAGACCAGGTAGTACACGTTTGGTTAGGGGGCCTgcatatggcc | |
| anti-anti-terminator | -7.62 | 190710 | 190760 | gaagataacgCATCTGCGGCGCGAAATATGAAGGGGGAGAGCCCTTATAGACCAGGTAGTacacgtttgg |
| Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos" |
| Reference(s) |
|
|---|---|
[CV(RS-EPT-CBR/TA)] cross validation(RS-EPT-CBR/TA)