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| Operon |  |
|---|---|
| Name: | pcnB-folK |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | pcnB-folK |
| Gene(s): | folK, pcnB Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): | [1] Talarico TL., et al., 1992 |
| Promoter | |
| Name: | pcnBp1 |
| +1: | 159151 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 25 |
| Sequence: |
caacattctcaaatgcgtcatgctgagctatgattagccgctatttttttgtcctgaatgAtgtttgacactaccgaggtg -35 -10 +1 |
| Note(s): | pcnBp1 and pcnBp2 may have minor roles in the pcnB-folK operon Nadratowska-Wesolowska B,2010 |
| Evidence: | [TIM] |
| Reference(s): |
[2] Jasiecki J., et al., 2006 [3] Nadratowska-Wesolowska B., et al., 2010 |
| Name: | pcnB-folK |
| Gene(s): | folK, pcnB Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): |
[4] Cao GJ., et al., 1996 [5] Liu JD., et al., 1989 [6] Podkovyrov SM., et al., 1995 [1] Talarico TL., et al., 1992 |
| Promoter | |
| Name: | pcnBp3 |
| +1: | 159171 |
| Sigma Factor: | Sigma70, Sigma38 |
| Distance from start of the gene: | 45 |
| Sequence: |
cgagtcggcaattgtaaattcaacattctcaaatgcgtcatgctgagctatgattagccgCtatttttttgtcctgaatga -35 -10 +1 |
| Note(s): | pcnBp3 (pB) activity is drastically impaired at the stationary phase of growth, and it is the major promoter of the pcnB-folK operon under various growth conditions Nadratowska-Wesolowska B,2010 pcnBp3 (pB) can also be weakly recognized by EσS Nadratowska-Wesolowska B,2010 |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): |
[7] Binns N., et al., 2002 [2] Jasiecki J., et al., 2006 [3] Nadratowska-Wesolowska B., et al., 2010 |
| Allosteric regulation of RNA-polymerase |
| Regulator | Function | Promoter target of RNApol | Growth Conditions | Note | Evidence | Reference | |
|---|---|---|---|---|---|---|---|
| DksA-ppGpp | inhibition | pcnBp3 | DksA weakly inhibited pcnBp3 (pB) transcription Nadratowska-Wesolowska B,2010 Pronounced impairment of pcnBp3 (pB) activity was caused by ppGpp Nadratowska-Wesolowska B,2010 A dramatic decrease in the level of pcnBp3 (pB)-derived transcripts was observed when both DksA and ppGpp were present in the reaction mixture Nadratowska-Wesolowska B,2010 |
[APPH] [GEA] |
[3] | ||
| ppGpp | inhibition | pcnBp3 | [GEA] | [3] |
| Evidence: |
[APPH] Assay of protein purified to homogeneity [GEA] Gene expression analysis |
| Reference(s): | [3] Nadratowska-Wesolowska B., et al., 2010 |
| Name: | pcnB-folK |
| Gene(s): | folK, pcnB Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | pcnBp1 and pcnBp2 may have minor roles in the pcnB-folK operon Nadratowska-Wesolowska B,2010 |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): | [1] Talarico TL., et al., 1992 |
| Promoter | |
| Name: | pcnBp2 |
| +1: | 159195 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 69 |
| Sequence: |
aaactggcggcttaccgccgtgcccgagtcggcaattgtaaattcaacattctcaaatgcGtcatgctgagctatgattag -35 -10 +1 |
| Evidence: | [TIM] |
| Reference(s): |
[2] Jasiecki J., et al., 2006 [3] Nadratowska-Wesolowska B., et al., 2010 |
| Name: | pcnB-folk |
| Gene(s): | folK, pcnB Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | A promoter designated as pS1 was identified using primer extension by Nadratowska-Wesolowska et al. (2010); this promoter was also identified by Liu and Parkinson (1989) Nadratowska-Wesolowska B,2010. Liu JD,1989 This promoter is recognized more effectively by EσS than Eσ70; however, its transcriptional start site is 10 bp downstream of the translational start site of the pcnB gene Nadratowska-Wesolowska B,2010 The pS1 sequence bears the C residue in the -10 box, which is crucial for selective recognition of the promoter dependent on EσS Nadratowska-Wesolowska B,2010. Lacour S,2003 The pS1 promoter is active in vivo (under specific conditions) and in vitro, since there is a translation start codon, AUU, downstream of its transcriptional start site Nadratowska-Wesolowska B,2010. It is possible that there are two functional variants of PAP I, but this remains to be verified Liu JD,1989 |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): | [1] Talarico TL., et al., 1992 |
| Promoter | |
| Name: | pcnBp4 |
| +1: | 159391 |
| Sigma Factor: | Sigma38 Sigmulon |
| Distance from start of the gene: | 265 |
| Sequence: |
aagtgccagattacattcatctgccgctggcgcttaatccacaaggcgctaaactttccaAgcagaatcatgcgcctgcgt -35 -10 +1 |
| Note(s): | pcnBp4 (pS2) has at least two alternatives start sites, located in the region between positions -263 and -265 relative to the translation start codon, ATT Nadratowska-Wesolowska B,2010 The pS2 sequence bears the C residue in the -10 box, which is crucial for selective recognition of the promoter dependent on EσS Nadratowska-Wesolowska B,2010. Lacour S,2003 For the first time, activities have been reported for a σS-dependent promoter (pcnBp4) that is inhibited by the stringent response factors ppGpp and DksA; these findings are based on both passive and active models Nadratowska-Wesolowska B,2010 |
| Evidence: | [TIM] |
| Reference(s): | [3] Nadratowska-Wesolowska B., et al., 2010 |
| Allosteric regulation of RNA-polymerase |
| Regulator | Function | Promoter target of RNApol | Growth Conditions | Note | Evidence | Reference | |
|---|---|---|---|---|---|---|---|
| DksA-ppGpp | inhibition | pcnBp4 | ppGpp is the main negative regulator of pcnBp4 (pS2) in vivo. DksA had little effect in inhibiting the activity of pcnBp4(pS2). However, DksA enhanced the inhibitory effect of ppGpp Nadratowska-Wesolowska B,2010 | [GEA] | [3] | ||
| ppGpp | inhibition | pcnBp4 | [GEA] | [3] |
| Evidence: | [GEA] Gene expression analysis |
| Reference(s): | [3] Nadratowska-Wesolowska B., et al., 2010 |
| Reference(s) |
|
|---|---|
[TIM] Transcription initiation mapping