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Synonyms: PlaR |
Summary:
YiaJ is a transcriptional repressor that negatively controls the expression of genes involved in the catabolism of the rare pentose L-lyxose [1, 5, 6] 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 [3]. YiaJ regulates genes that are responsible for utilization of L-ascorbate [3, 7].Accordingly, YiaJ is involved in utilization control of other plant-derived nutrients, such as galacturonate from plant pectin, sorbitol (sugar alcohol) in many edible fruits, and fructose and its Maillard reaction product (fructose-lysine) in many vegetables. YiaJ also controls the expression of a number of genes for survival of E. coli K-12 under stressful conditions in nature. Based on these roles, it was proposed to rename YiaJ as PlaR (regulator of plant utilization) [7]. When wild-type E. Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | IclR | ||||||||||||||
TFBs length: | 21 | ||||||||||||||
TFBs symmetry: | inverted-repeat | ||||||||||||||
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,PlaR | ||||||
Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) |
Transcription factor regulation |
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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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PlaR | repressor | plaRp | Sigma70 | -55.0 | -141.0 | plaR |
aaatttcaatATGCGAAACTTGATTTCAAATatatcgatca
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3742663 | 3742683 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF], [EXP-CHIP-EXO], [EXP-DAP-SEQ], [EXP-GSELEX], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | C | [1], [1], [2], [3], [4] | |
PlaR | repressor | yiaKp1 | Sigma70 | -1.0 | -60.0 | yiaK, yiaL, yiaM, yiaN, yiaO, lyxK, sgbH, sgbU, sgbE |
tgatcgatatATTTGAAATCAAGTTTCGCATattgaaattt
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3742663 | 3742683 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IEP-MICROARRAY], [COMP-AINF], [EXP-CHIP-EXO], [EXP-DAP-SEQ], [EXP-GSELEX], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | C | [1], [1], [2], [3], [4], [4] |
Functional conformation | Function | Object name | Object type | Distance to first Gene | Sequence | LeftPos | RightPos | Center Position | Growth Condition | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | References | |
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PlaR | repressor | eda | Gene | nd |
actaacgcaaTTTTGAAACACCGGTCCAATAatacaccaag
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1933095 | 1933115 | 1933105.0 | nd | [EXP-IEP-MICROARRAY], [COMP-AINF], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | C | [4] | |
PlaR | repressor | ygjV | Gene | nd |
caggtatggaAAAGCAAACGGCGCTTCACATtatgaaacgc
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3241768 | 3241788 | 3241778.0 | nd | [EXP-IEP-MICROARRAY], [COMP-AINF], [EXP-CHIP-EXO], [EXP-DAP-SEQ], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | C | [4] | |
PlaR | repressor | glpA | Gene | nd |
tcaaaatgacGCATGAAATCACGTTTCACTTtcgaattatg
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2352538 | 2352558 | 2352548.0 | nd | [EXP-IEP-MICROARRAY], [COMP-AINF], [EXP-DAP-SEQ], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | C | [4] | |
PlaR | repressor | glpT | Gene | nd |
tcaaaatgacGCATGAAATCACGTTTCACTTtcgaattatg
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2352538 | 2352558 | 2352548.0 | nd | [COMP-AINF], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [COMP-AINF], [EXP-DAP-SEQ], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [4] |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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