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| Synonyms: PrpR-(2S,3S)-2-methylcitrate, PrpR |
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Summary:
The "Propionate Regulator," PrpR, is a transcription factor that controls expression of genes involved in catabolism of propionate [1] It is negatively autoregulated, sensitive to catabolite control, and coordinately activates transcription of a divergent operon related to propionate catabolism [1] Synthesis of this operon is induced when E. coli is grown in the absence of glucose or glycerol. PrpR belongs to the NtrC family of activators, which interact directly with the RpoN RNA polymerase [2] PrpR is a σ54-dependent activator and belongs to the AAA+ superfamily of mechano-chemical ATPases. It consists of three domains, an amino-terminal domain involved in effector recognition, a catalytic domain, and a carboxy-terminal DNA-binding domain [3] This regulator binds to a palindromic sequence (5'-GTTTCAT-10n-ATGAAAC-3') that overlaps prpRp [1] Read more > |
| Transcription factor |  |
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| TF conformation(s): |
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| Evolutionary Family: | EBP | |||||||||||||||||||||
| TFBs length: | 24 | |||||||||||||||||||||
| Connectivity class: | Local Regulator | |||||||||||||||||||||
| Gene name: | prpR | |||||||||||||||||||||
| Genome position: | 346857-348443 | |||||||||||||||||||||
| Length: | 1587 bp / 528 aa | |||||||||||||||||||||
| Operon name: | prpR | |||||||||||||||||||||
| TU(s) encoding the TF: |
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| Regulon |
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| Regulated gene(s) | prpB, prpC, prpD, prpE, prpR | ||||||
| Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
fatty acids (5)
carbon compounds (3)
Transcription related (1)
activator (1)
repressor (1)
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| Regulated operon(s) | prpBCDE, prpR | ||||||
| First gene in the operon(s) | prpB, prpR | ||||||
| Simple and complex regulons | AscG,CRP,PhoB,PrpR CRP,Cra,PrpR | ||||||
| Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) | ||||||
| Transcription factor regulation |
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Transcription factor binding sites (TFBSs) arrangements
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| Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence | LeftPos | RightPos | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | References | |
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| PrpR-(2S,3S)-2-methylcitrate | activator | prpBp | Sigma54 | -147.5 | -183.5 | prpB, prpC, prpD, prpE |
gtttagtcttGTTTCATAATTGTTGCAATGAAACgcggtgaaac
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348487 | 348510 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1], [1] | |
| PrpR-(2S,3S)-2-methylcitrate | activator | prpBp | Sigma54 | -113.5 | -149.5 | prpB, prpC, prpD, prpE |
gcggtgaaacATTGCCTGAAACGTTAACTGAAACgcatatttgc
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348521 | 348544 | [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1] | |
| PrpR-(2S,3S)-2-methylcitrate | repressor | prpRp | Sigma70 | -61.5 | -89.5 | prpR |
gcaaatatgcGTTTCAGTTAACGTTTCAGGCAATgtttcaccgc
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348521 | 348544 | [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1] | |
| PrpR-(2S,3S)-2-methylcitrate | repressor | prpRp | Sigma70 | -27.5 | -55.5 | prpR |
gtttcaccgcGTTTCATTGCAACAATTATGAAACaagactaaac
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348487 | 348510 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [1], [1] |
| Evolutionary conservation of regulatory elements | |
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| Promoter-target gene evolutionary conservation |
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| Reference(s) |
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[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis