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| Synonyms: YiaJ |
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Summary:
YiaJ is a transcriptional repressor that negatively controls the expression of genes involved in the catabolism of the rare pentose l-lyxose [1, 3] YiaJ was confirmed as a TF through an integrated workflow comprised of computational prediction, knowledge-based classification, and experimental validation of candidate TFs at the genome scale [2]. YiaJ regulates genes that are responsible for utilization of L-ascorbate [2]. YiaJ is negatively autoregulated, and coordinately represses transcription of the divergent yiaK-S operon, related to degradation of l-lyxose [3] Additionally, its operon is activated by insertion of IS1 into the yiaJ gene [1] Although little is known about the mechanism of regulation of the YiaJ regulator, recently it has been demonstrated to act as a repressor by binding to cis-acting elements that overlap yiaKp [3] YiaJ shows high homology to the IclR family of regulators; it is composed of two domains, an amino-terminal domain that contains a potential helix-turn-helix DNA-binding motif and a carboxy-terminal region featuring a second motif of unknown function [1] Compared to known global TFs, YiaJ exhibits some interesting regulatory features. Read more > |
| Transcription factor |  |
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| TF conformation(s): |
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| Evolutionary Family: | IclR | ||||||||||||
| Connectivity class: | Local Regulator | ||||||||||||
| Gene name: | plaR | ||||||||||||
| Genome position: | 3741684-3742532 | ||||||||||||
| Length: | 849 bp / 282 aa | ||||||||||||
| Operon name: | plaR | ||||||||||||
| TU(s) encoding the TF: |
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| Regulon |
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| Regulated gene(s) | lyxK, plaR, sgbE, sgbH, sgbU, yiaK, yiaL, yiaM, yiaN, yiaO | ||||||
| Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
carbon compounds (4)
Porters (Uni-, Sym- and Antiporters) (3)
membrane (2)
Transcription related (1)
repressor (1)
Read more >
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| Regulated operon(s) | plaR, yiaKLMNO-lyxK-sgbHUE | ||||||
| First gene in the operon(s) | plaR, yiaK | ||||||
| Simple and complex regulons | CRP,IHF,YiaJ | ||||||
| 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 (Confirmed, Strong, Weak) | References | |
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| YiaJ | repressor | yiaJp | Sigma70 | -55.0 | -141.0 | plaR |
aaatttcaatATGCGAAACTTGATTTCAAATatatcgatca
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3742663 | 3742683 | [BCE], [CV(GEA/ROMA)], [GEA] | [3] | |
| YiaJ | repressor | yiaKp | Sigma70 | -1.0 | -60.0 | yiaK, yiaL, yiaM, yiaN, yiaO, lyxK, sgbH, sgbU, sgbE |
tgatcgatatATTTGAAATCAAGTTTCGCATattgaaattt
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3742663 | 3742683 | [BCE], [CV(GEA/ROMA)], [GEA] | [3] |
| Evolutionary conservation of regulatory elements | |
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| Promoter-target gene evolutionary conservation |
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| Reference(s) |
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[APPH] Assay of protein purified to homogeneity