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| Operon |  |
|---|---|
| Name: | fdhF |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | fdhF |
| Synonym(s): | OP00207 |
| Gene(s): | fdhF Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | This transcription unit is repressed and induced anaerobically. It is repressed in the presence of nitrate and induced in the presence of formate Wang H,2003 Based on qRT-PCR, it was found that three selenopolypeptide genes, fdnG, fdoG, and fdhF, were induced more than 2-fold by both 0.01 and 5 mM Na2SeO3 (sodium selenite) 24531660 |
| Reference(s): |
[1] Rosentel JK., et al., 1995 [2] Wang H., et al., 2003 |
| Promoter | |
| Name: | fdhFp |
| +1: | 4299407 |
| Sigma Factor: | Sigma54 Sigmulon |
| Distance from start of the gene: | 41 |
| Sequence: |
cccgtaatatcagggaatgaccccacataaaatgtggcataaaagatgcatactgtagtcGagagcgcgtatgcgtgattt -24 -12 +1 |
| Evidence: | [TIM] |
| Reference(s): |
[3] Birkmann A., et al., 1987 [4] Schlensog V., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | tcgaatggatAAAAAAACAGCCTCCGAAAGGAGGCTGTAGAAAGgacggtatta |
| Reference(s): | [5] Bognar AL., et al., 1987 |
| Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
|---|---|---|---|---|---|---|---|---|---|---|
| LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
| remote | FhlA-formate | activator | fdhFp | 4299505 | 4299518 | -104.5 | cgtttcgtcaCGTCAAAACTGACGacagcctgtt | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [4] |
| remote | FhlA-formate | activator | fdhFp | 4299530 | 4299543 | -129.5 | gcgtgatggcTGTCACGCGGTATTtcgtttcgtc | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3], [4], [6], [7] |
| Note(s): |
1Under anaerobiosis, FNR activates fdhF gene expression, but it is not known if this regulation is direct or indirect Salmon K,2003. This regulatory interaction was determined only by microarray analysis.1NarL appears to bind two regions upstream of the fdhF promoter: one of them is between position -130 and position ?175 and the other one is between position -190 and position -27 relative to the transcription start site. NarP appears to antagonize the ability of NarL to repress fdhF gene expression.1NarP appears to be a mild antagonist of NarL's ability to repress fdhF gene expresion Wang H,2003 .3Under anaerobiosis, FNR activates fdhF gene expression, but it is not known if this regulation is direct or indirect Salmon K,2003. This regulatory interaction was determined only by microarray analysis. 4NarP appears to be a mild antagonist of NarL's ability to repress fdhF gene expresion Wang H,2003 . 5NarL appears to bind two regions upstream of the fdhF promoter: one of them is between position -130 and position ?175 and the other one is between position -190 and position -27 relative to the transcription start site. NarP appears to antagonize the ability of NarL to repress fdhF gene expression. |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Translational |
| Strand: | reverse |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -9.8 | 4299382 | 4299412 | atgcatactgTAGTCGAGAGCGCGTATGCGTGATTTGATTaactggagcg |
| 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" |
| REGULATION, RNA cis-regulatory element: | |
| Rfam type: | Cis-reg |
| Strand: | reverse |
| Description | Rfam score | Left Pos | Right Pos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| Selenocysteine insertion sequence 2 | 87.1 | 4298900 | 4298954 | ugcugcgcucGUGUCUGACACGGCCCAUCGGUUGCAGGUCUGCACCAAUCGGUCGGUAAUGGCGCaaugagcaau |
| Notes: "The provied "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appears as the reverse complement of the sequence delimited by LeftPos-RightPos" |
| Reference(s) |
|
|---|---|
[TIM] Transcription initiation mapping