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Name: | napFDAGHBC-ccmABCDEFGH |
Synonym(s): | aeg-46.5 |
Gene(s): | ccmH, ccmG, ccmF, ccmE, ccmD, ccmC, ccmB, ccmA, napC, napB, napH, napG, napA, napD, napF Genome Browser M3D Gene expression COLOMBOS |
Note(s): | Based on ChIP-chip and consensus sequences (Virtual Footprint), a site of NsrR upstream of the napF gene was identified Partridge JD,2009 However, this gene exerts its control from three promoters, and it is not known which of them is negatively controlled by NsrR. |
Reference(s): |
[1] Darwin AJ., et al., 1995 [2] Grove J., et al., 1996 |
Promoter | |
Name: | napFp1 |
+1: | 2303574 |
Sigma Factor: | Sigma70 Sigmulon |
Distance from start of the gene: | 77 |
Sequence: |
acaggttttaccccgatcggggtatgcatctttgacacatcctttaatatcttagcggctAtaaaaatggcttattaatta -35 -10 +1 |
Note(s): | This promoter is essential for nitrate and nitrite induction of the napF operon. |
Evidence: |
[HIPP] [TIM] |
Reference(s): |
[3] Choe M., et al., 1993 [1] Darwin AJ., et al., 1995 [4] Darwin AJ., et al., 1998 [5] Stewart V., et al., 2003 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | FNR | activator | napFp1 | 2303632 | 2303645 | -64.5 | cgccactcttTTGATCCTGCTACAggttttaccc | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [4], [5] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | ModE-MoO42- | activator | napFp1 | 2303696 | 2303719 | -133.5 | gtgaatcaatCGCTATATAAATATATTTATAACCatttgaaatg | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [5], [6] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | NarL-Phosphorylated | repressor | napFp1 | 2303606 | 2303621 | -40.0 | ggttttacccCGATCGGGGTATGCATctttgacaca | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [1], [4], [5] |
proximal | NarL-Phosphorylated | repressor | napFp1 | 2303615 | 2303630 | -49.0 | cctgctacagGTTTTACCCCGATCGGggtatgcatc | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [1], [4], [5] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | NarP-Phosphorylated | activator | napFp1 | 2303606 | 2303621 | -40.0 | ggttttacccCGATCGGGGTATGCATctttgacaca | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [4], [5] |
proximal | NarP-Phosphorylated | activator | napFp1 | 2303615 | 2303630 | -49.0 | cctgctacagGTTTTACCCCGATCGGggtatgcatc | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [4], [5] |
Note(s): | 1The regulatory effect of FlhDC in napF operon transcription has been proved by microarray analysis by Pruss BM,20017The regulatory effect of FlhDC in napF operon transcription has been proved by microarray analysis by Pruss BM,2001 |
Name: | napFDAGHBC-ccmABCDEFGH |
Gene(s): | ccmH, ccmG, ccmF, ccmE, ccmD, ccmC, ccmB, ccmA, napC, napB, napH, napG, napA, napD, napF Genome Browser M3D Gene expression COLOMBOS |
Note(s): | Based on ChIP-chip and consensus sequences (Virtual Footprint), a site of NsrR upstream of the napF gene was identified Partridge JD,2009 However, this gene exerts its control from three promoters, and it is not known which of them is negatively controlled by NsrR. |
Reference(s): |
[1] Darwin AJ., et al., 1995 [2] Grove J., et al., 1996 |
Promoter | |
Name: | napFp2 |
+1: | 2303577 |
Sigma Factor: | Sigma70 Sigmulon |
Distance from start of the gene: | 80 |
Sequence: |
gctacaggttttaccccgatcggggtatgcatctttgacacatcctttaatatcttagcgGctataaaaatggcttattaa -35 -10 +1 |
Note(s): | Nitrate causes repression of the napFp2 promoter in a NarL- or a NarP-protein-dependent way, whereas repression of the same promoter by nitrite is only dependent on the NarP protein Stewart V,2003 |
Evidence: |
[HIPP] [TIM] |
Reference(s): |
[4] Darwin AJ., et al., 1998 [5] Stewart V., et al., 2003 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | ModE-MoO42- | activator | napFp2 | 2303696 | 2303719 | -130.5 | gtgaatcaatCGCTATATAAATATATTTATAACCatttgaaatg | nd | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [5], [6] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | NarL-Phosphorylated | repressor | napFp2 | 2303606 | 2303621 | -37.0 | ggttttacccCGATCGGGGTATGCATctttgacaca | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [1], [4], [5] |
proximal | NarL-Phosphorylated2 | repressor | napFp2 | 2303615 | 2303630 | -46.0 | cctgctacagGTTTTACCCCGATCGGggtatgcatc | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [1], [4], [5] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | NarP-Phosphorylated | repressor | napFp2 | 2303606 | 2303621 | -37.0 | ggttttacccCGATCGGGGTATGCATctttgacaca | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [5] |
proximal | NarP-Phosphorylated2 | repressor | napFp2 | 2303615 | 2303630 | -46.0 | cctgctacagGTTTTACCCCGATCGGggtatgcatc | nd | [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [5] |
Note(s): |
1The regulatory effect of FlhDC in napF operon transcription has been proven only by microarray analysis by Pruss BM,2001.2The napFp2 promoter is inhibited by NarL in response to nitrate.2The napFp2 promoter is inhibited by NarP in response to nitrate.2The napFp2 promoter is inhibited by NarP in response to nitrate. 3The napFp2 promoter is inhibited by NarL in response to nitrate. 6The regulatory effect of FlhDC in napF operon transcription has been proven only by microarray analysis by Pruss BM,2001. |
Name: | napFDAGHBC |
Gene(s): | napC, napB, napH, napG, napA, napD, napF Genome Browser M3D Gene expression COLOMBOS |
Note(s): | Based on ChIP-chip and consensus sequences (Virtual Footprint), a site of NsrR upstream of the napF gene was identified Partridge JD,2009 However, this gene exerts its control from three promoters, and it is not known which of them is negatively controlled by NsrR. |
Promoter | |
Name: | napFp3 |
+1: | 2303695 |
Distance from start of the gene: | 198 |
Sequence: |
agagcaaaccagcagaaatatctctggtgaatcaatcgctatataaatatatttataaccAtttgaaatgtgagcaaaagc |
Evidence: | [TIM] |
Reference(s): | [8] Giel JL., et al., 2006 |
Name: | ccmABCDEFGH |
Gene(s): | ccmH, ccmG, ccmF, ccmE, ccmD, ccmC, ccmB, ccmA Genome Browser M3D Gene expression COLOMBOS |
Promoter | |
Name: | ccmAp |
+1: | Unknown |
Sigma Factor: | Sigma70 Sigmulon |
Evidence: | [TIM] |
Reference(s): | [9] Tanapongpipat S., et al., 1998 |
Reference(s) |
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