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| Synonyms: NfeR-Fe2+, NfeR, NfeR-Ni2+ |
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Summary:
YqjI is a local transcription regulator that represses expression of the divergent operon, yqjH-yqjI, related to its autorepression and the synthesis of an NADPH-dependent ferric reductase [1] This regulator forms a complex with DNA in the absence of nickel, binding to a 20-bp-long sequence with an imperfect palindromic sequence. YqjI is inactivated under conditions of elevated nickel levels, and the presence of this divalent metal prevents its binding to the target gene. Thus, this regulator maintains the iron homeostasis during high levels of nickel [1] However, in vitro studies have shown that YqjI can be affected by other divalent metals. The YqjI regulator is structurally related to the PadR family, which is characterized by a winged helix-turn-helix (WHTH) motif. The amino-terminal region of this protein is similar to the C-terminal SlyD protein and to the N-terminal RcnA protein [1] Comparison with the crystal structure of the AphA protein from Vibrio cholerae suggests that the amino terminal of YqjI contains the WHTH motif and that in the C-terminal domain is located the ligand-binding domain for oligomerization [1] YqjI has been observed to be a possible hexamer [1] The characterization of the nickel binding site(s) within YqjI were determined by X-ray absorption spectroscopy. Read more > |
| Transcription factor |  |
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| TF conformation(s): |
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| Evolutionary Family: | PadR | ||||||||||||||||||||||||||||
| TFBs length: | 20 | ||||||||||||||||||||||||||||
| TFBs symmetry: | inverted-repeat | ||||||||||||||||||||||||||||
| Connectivity class: | Local Regulator | ||||||||||||||||||||||||||||
| Gene name: | nfeR | ||||||||||||||||||||||||||||
| Genome position: | 3216779-3217402 | ||||||||||||||||||||||||||||
| Length: | 624 bp / 207 aa | ||||||||||||||||||||||||||||
| Operon name: | nfeR | ||||||||||||||||||||||||||||
| TU(s) encoding the TF: |
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| Regulon |
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| Regulated gene(s) | nfeF, nfeR | ||||||
| Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
Fe aquisition (1)
Transcription related (1)
transcriptional level (1)
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| Regulated operon(s) | nfeF, nfeR | ||||||
| First gene in the operon(s) | nfeF, nfeR | ||||||
| Simple and complex regulons | FNR,NfeR Fur,NfeR | ||||||
| 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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| NfeR | repressor | nfeRp | nd | -7.0 | -33.0 | nfeR |
aagaacgctcATATCAGATATAAATTAGATATATCTAATTAAgcaaaaggag
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3216731 | 3216762 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [1], [1], [2], [2] | |
| NfeR | repressor | yqjHp | Sigma70 | 18.0 | -30.0 | nfeF |
ttgcgagtttTATTTAGATATATCTGATTAccatcacgaa
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3216512 | 3216531 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [1], [1], [2], [2] |
| 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-IDA] Inferred from direct assay