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| Operon |  |
|---|---|
| Name: | proVWX |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | proVWX |
| Synonym(s): | proU |
| Gene(s): | proV, proW, proX Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | By making use of microarray analysis it was concluded that FNR represses proVWX operon expression under anaerobiosis. A putative FNR-binding site, which was not reported in the paper, was identified upstream of this operon, but it is still not known which of the three promoters (proUp1, proUp2, or proUp3) is affected by FNR Salmon K,2003. A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for proW . This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
| Evidence: | [PM] Polar mutation |
| Reference(s): |
[1] Dattananda CS., et al., 1989 [2] Gowrishankar J. 1989 |
| Promoter | |
| Name: | proVp |
| +1: | 2804563 |
| Sigma Factor: | Sigma38 Sigmulon |
| Distance from start of the gene: | 252 |
| Sequence: |
taattcccgccaaatagctttttatcacgcaaataatttgtggtgatctacactgatactCtgttgcattattcgcctgaa -35 -10 +1 |
| Evidence: |
[ICWHO] [IDA] [TIM] |
| Reference(s): |
[2] Gowrishankar J. 1989 [3] Huerta AM., et al., 2003 [4] Rajkumari K., et al., 1996 |
| Name: | proVWX |
| Synonym(s): | proU |
| Gene(s): | proV, proW, proX Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | By making use of microarray analysis it was concluded that FNR represses proVWX operon expression under anaerobiosis. A putative FNR-binding site, which was not reported in the paper, was identified upstream of this operon, but it is still not known which of the three promoters (proUp1, proUp2, or proUp3) is affected by FNR Salmon K,2003. A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for proW . This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
| Evidence: | [PM] Polar mutation |
| Reference(s): |
[1] Dattananda CS., et al., 1989 [2] Gowrishankar J. 1989 |
| Promoter | |
| Name: | proVp1 |
| +1: | 2804563 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 252 |
| Sequence: |
taattcccgccaaatagctttttatcacgcaaataatttgtggtgatctacactgatactCtgttgcattattcgcctgaa -35 -10 +1 |
| Evidence: |
[ICWHO] [IDA] [TIM] |
| Reference(s): |
[2] Gowrishankar J. 1989 [3] Huerta AM., et al., 2003 [4] Rajkumari K., et al., 1996 |
| Name: | proVWX |
| Synonym(s): | proU |
| Gene(s): | proV, proW, proX Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | By making use of microarray analysis it was concluded that FNR represses proVWX operon expression under anaerobiosis. A putative FNR-binding site, which was not reported in the paper, was identified upstream of this operon, but it is still not known which of the three promoters (proUp1, proUp2, or proUp3) is affected by FNR Salmon K,2003. A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for proW . This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
| Reference(s): |
[1] Dattananda CS., et al., 1989 [2] Gowrishankar J. 1989 |
| Promoter | |
| Name: | proVp2 |
| +1: | 2804599 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 216 |
| Sequence: |
tttgtggtgatctacactgatactctgttgcattattcgcctgaaaccacaatattcaggCgttttttcgctatctttgac -35 -10 +1 |
| Evidence: |
[ICWHO] [IDA] [TIM] |
| Reference(s): |
[2] Gowrishankar J. 1989 [3] Huerta AM., et al., 2003 [4] Rajkumari K., et al., 1996 |
| Name: | proVWX | |||||||||
| Synonym(s): | proU | |||||||||
| Gene(s): | proV, proW, proX Genome Browser M3D Gene expression COLOMBOS | |||||||||
| Note(s): | By making use of microarray analysis it was concluded that FNR represses proVWX operon expression under anaerobiosis. A putative FNR-binding site, which was not reported in the paper, was identified upstream of this operon, but it is still not known which of the three promoters (proUp1, proUp2, or proUp3) is affected by FNR Salmon K,2003. IHF is a trans-acting factor implicated directly in the regulation of the proVWX operon Khodr A,2015 IHF helps to relieve H-NS repression of the proVWX operon in an off state rather than by acting as an activation factor Khodr A,2015 Regulation of both H-NS and IHF on proVp3 suggests a model where, instead of preventing or helping transcription by steric hindrance, there is modification of the local structure of the nucleic acid that offers a substrate for the polymerase that is optimized or not for initiation of transcription, depending on the environmental conditions Khodr A,2015 A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for proW . This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
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| Evidence: | [PM] Polar mutation | |||||||||
| Reference(s): |
[1] Dattananda CS., et al., 1989 [2] Gowrishankar J. 1989 |
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| Promoter | ||||||||||
| Name: | proVp3 | |||||||||
| +1: | 2804755 | |||||||||
| Sigma Factor: | Sigma70 Sigmulon | |||||||||
| Distance from start of the gene: | 60 | |||||||||
| Sequence: |
ttcatgccacatttgccatcaggggttgcctcagattctcagtatgttagggtagaaaaaAgtgactatttccattgggta -35 -10 +1 |
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| Note(s): | Expression of the proVWX operon is osmo-regulated and repressed by H-NS at low-osmolarity but not at high-osmolarity conditions Bouffartigues E, Buckle M, Badaut C, Travers A, Rimsky S,2007 Transcription directed across H-NS binding regions relieves H-NS-mediated (and H-NS/StpA-mediated) repression of promoters such as proVp3, pdeLp3, and appYp2, and there is a correlation between transcription across the H-NS-bound region and derepression where RNA polymerase is able to remodel the H-NS complex and/or dislodge H-NS from the DNA and thus relieve repression Rangarajan AA,2018 |
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| Evidence: |
[ICWHO] [IHBCE] [TIM] |
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| Reference(s): |
[2] Gowrishankar J. 1989 [3] Huerta AM., et al., 2003 [7] Rangarajan AA., et al., 2018 |
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| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | H-NS | repressor | proVp3 | 2804715 | 2804729 | -33.0 | atttgccatcAGGGGTTGCCTCAGAttctcagtat | nd | [GEA], [AIBSCS], [BPP] | [4], [5], [6] |
| proximal | H-NS | repressor | proVp3 | 2804754 | 2804768 | 7.0 | gggtagaaaaAAGTGACTATTTCCAttgggtaata | nd | [BPP] | [4], [5], [6] |
| proximal | H-NS | repressor | proVp3 | 2804773 | 2804787 | 26.0 | tttccattggGTAATATATCGACATagacaaataa | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804792 | 2804806 | 45.0 | cgacatagacAAATAAAGGAATCTTtctattgcat | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804819 | 2804833 | 72.0 | tattgcatggCAATTAAATTAGAAAttaaaaatct | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804831 | 2804845 | 84.0 | attaaattagAAATTAAAAATCTTTataaaatatt | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804847 | 2804861 | 100.0 | aaaatctttaTAAAATATTTGGCGAgcatccacag | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804877 | 2804891 | 130.0 | cacagcgagcGTTCAAATATATCGAacaaggactt | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804903 | 2804917 | 156.0 | caaggactttCAAAAGAACAAATTCtggaaaaaac | nd | [BPP] | [4], [5], [6] |
| remote | H-NS | repressor | proVp3 | 2804917 | 2804931 | 170.0 | agaacaaattCTGGAAAAAACTGGGctatcgcttg | nd | [BPP] | [4], [5], [6] |
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| proximal | IHF | activator | proVp3 | 2804730 | 2804744 | -18.5 | ttgcctcagaTTCTCAGTATGTTAGggtagaaaaa | nd | [GEA], [BPP] | [8] |
| remote | IHF | activator | proVp3 | 2804887 | 2804902 | 140.0 | gttcaaatatATCGAACAAGGACTTTcaaaagaaca | nd | [GEA], [BPP] | [8] |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Transcriptional |
| Strand: | forward |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -10.5 | 2804576 | 2804607 | tgcattattcGCCTGAAACCACAATATTCAGGCGTTTTTTCgctatctttg | |
| anti-terminator | -3.17 | 2804544 | 2804579 | ataatttgtgGTGATCTACACTGATACTCTGTTGCATTATTCGCCtgaaaccaca |
| 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) |
|
|---|---|
[ICWHO] Inferred computationally without human oversight