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| Operon |  |
|---|---|
| Name: | wza-wzb-wzc-wcaAB |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | wzbc |
| Gene(s): | wzc, wzb, wza Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The expression of this operon is increased when colicin (at 30 ng/ml) is added to the medium 23421615. |
| Evidence: | [ITC] Inferred through co-regulation |
| Reference(s): | [1] Rhodius VA., et al., 2005 |
| Promoter | |
| Name: | wzap2 |
| +1: | 2137193 |
| Sigma Factor: | Sigma24 Sigmulon |
| Distance from start of the gene: | -50 |
| Sequence: |
taaataaacaatgatgaaatccaaaatgaaattgatgccattattggtgtcagtaaccttGataagcggttgcacagtact |
| Note(s): | The wza gene may have been misannotated, because the transcription start site of wzap2 is 50 bp downstream of the start site of the gene Rhodius VA,2005 |
| Evidence: |
[AIPP] [TIM] |
| Reference(s): | [1] Rhodius VA., et al., 2005 |
| Name: | wza-wzb-wzc-wcaAB |
| Synonym(s): | OP00290, cps, cpsB, cpsGB |
| Gene(s): | wcaB, wcaA, wzc, wzb, wza Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | There is no real evidence that proves the cotranscription of these five genes, but they are closely coded in a small chromosome region. |
| Reference(s): |
[2] Ebel W., et al., 1999 [3] Stout V. 1996 |
| Promoter | |
| Name: | wzap |
| +1: | 2137583 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 340 |
| Sequence: |
atagccaattaccgaattgttatcttgcctgctattccgttagctgtaacacttcctcctGcattattggaaagccaatat -35 -10 +1 |
| Note(s): | Although no obvious σ70 promoter region has been found, two good -10 region have been detected. This start site shows that the two best -10 regions are not used and the actual -35 and -10 regions of this operon may well be TTGCCT and AACACT. These sequences have four and three of six matches, respectively, to the consensus promoter sites. |
| Evidence: |
[HIPP] [TIM] |
| Reference(s): | [3] Stout V. 1996 |
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | RcsAB | activator | wzap | 2137659 | 2137673 | -83.0 | taaaaaccatATTGAATGACACTTAatataattct | nd | [AIBSCS], [CV(GEA)], [GEA] | [2] |
| remote | RcsAB2 | activator | wzap | 2137681 | 2137695 | -105.0 | attgtcaaccTAAAGAAACTCCTAAaaaccatatt | nd | [BPP], [CV(SM)], [SM] | [3], [4], [5] |
| Note(s): |
2RcsB is apparently essential for cps expression. As a matter of fact, both RcsA and RcsB are required for optimal cps expression, since cps expression in an rcsB strain is low and cps expression cannot be activated by RcsA in the absence of RcsB, suggesting an auxiliary role in cps expression. But RcsA is not absolutely dependent on RcsB. There are no in vitro data that demonstrate RcsA binding to the cps promoter region. Thus, direct interaction of RcsB and/or RcsA in the E. coli cps promoter region remains to be shown. RcsA and RcsB are proposed to form heterodimers in order to be functional in the activation of cps. Multicopy RcsB can overcome the absence of RcsA to activate cps expression. Osmotic shock has been shown to be dependent on RcsA, RcsB, RcsC, and MdoH. Several global regulators bind and repress cps, such as CRP and H-NS.1RcsB is apparently essential for cps expression. As a matter of fact, both RcsA and RcsB are required for optimal cps expression, since cps expression in an rcsB strain is low and cps expression cannot be activated by RcsA in the absence of RcsB, suggesting an auxiliary role in cps expression. But RcsA is not absolutely dependent on RcsB. There are no in vitro data that demonstrate RcsA binding to the cps promoter region. Thus, direct interaction of RcsB and/or RcsA in the E. coli cps promoter region remains to be shown. RcsA and RcsB are proposed to form heterodimers in order to be functional in the activation of cps. Multicopy RcsB can overcome the absence of RcsA to activate cps expression. Osmotic shock has been shown to be dependent on RcsA, RcsB, RcsC, and MdoH. Several global regulators bind and repress cps, such as CRP and H-NS. |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Translational |
| Strand: | reverse |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -10.3 | 2133408 | 2133437 | tcacgccgcaTCCGGCAAGCAAACCAGCTCATAAGCCGGgagaacaacc |
| 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" |
| REGULATION, RNA cis-regulatory element: | |
| Rfam type: | Cis-reg |
| Strand: | reverse |
| Description | Rfam score | Left Pos | Right Pos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| JUMPstart RNA | 57.3 | 2137422 | 2137460 | uaaacuaaauCAGUGUAUUGGUAGCUAAAAAGCCAGGGGCGGUAGCGUGucuggaugcc |
| Notes: "The provied "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appears as the reverse complement of the sequence delimited by LeftPos-RightPos" |
| Reference(s) |
|
|---|---|
[AIPP] Automated inference of promoter position