Name: |
sodB |
Gene(s): |
sodB
Genome Browser
M3D Gene expression
COLOMBOS
|
Note(s): |
The proteins Fur and HNS regulate the transcription of the sodB gene; although a Fur-binding site has been identified in the regulatory region of sodB, the regulation of the two regulators appears to be indirect Dubrac S, Touati D,2002 Transcriptional fusion experiments demonstrated a positive effect of Fur and a negative effect of HNS on sodB transcription Dubrac S, Touati D,2002. Niederhoffer EC,1990. Zhang Z,2005 and gel shift assays have shown a weak interaction between Fur and the regulatory region of sodB Dubrac S, Touati D,2002. Niederhoffer EC,1990 However, an in vitro transcription analysis demonstrated that Fur has no direct effect on the transcription of sodB Dubrac S, Touati D,2002 It should be noted that Fur regulates in a negative way RhyB, a small RNA that negatively regulates the expression of sodB Masse E,2002 On the other hand, the effect of HNS on the sodB promoter depends on the presence of Fur; in addition, no curved DNA region was identified to bind HNS around the promoter region of sodB Dubrac S, Touati D,2002 |
Promoter |
|
Name: |
sodBp |
+1: |
1735323 |
Sigma Factor: |
Sigma70 Sigmulon |
Distance from start of the gene: |
55
|
Sequence: |
ttgttacggcaacagggtaagttcatcttttgtctcaccttttaatttgctaccctatccAtacgcacaataaggctattg -35 -10 +1
|
Note(s): |
This promoter is member of the extended -10 class of promoters. The TSS in sodBp identified by Liu et al. (2018) using Capping-RACE differs by 2 bp from that identified by Carlioz et al. (1988) and Dubrac et al. (2000) Liu F,2018 |
Evidence: |
[HTTIM] [ICWHO] [IMP] [TIM]
|
Reference(s): |
[1] Carlioz A., et al., 1988 [2] Dubrac S., et al., 2000 [3] Huerta AM., et al., 2003 [4] Liu F., et al., 2018
|
Terminator(s) |
|
Type: |
rho-independent |
Sequence: |
ttgtcagcaaCTGTAACGCAGAAGGTTATCCTTCTGCGTTTTTgtttaattag |
Reference(s): |
[1] Carlioz A., et al., 1988
|
Type |
Transcription factor |
Function |
Promoter |
Binding Sites |
Growth Conditions |
Evidence (Confirmed, Strong, Weak) |
Reference(s) |
LeftPos |
RightPos |
Central Rel-Pos |
Sequence |
proximal |
IHF
|
repressor |
sodBp |
1735256
|
1735268
|
-61.0
|
gctaaaacttTACCCTGTTGTTAcggcaacagg |
nd
|
[GEA], [AIBSCS]
|
[2]
|
Type |
Transcription factor |
Function |
Promoter |
Binding Sites |
Growth Conditions |
Evidence (Confirmed, Strong, Weak) |
Reference(s) |
LeftPos |
RightPos |
Central Rel-Pos |
Sequence |
proximal |
NsrR
|
repressor |
sodBp |
1735281
|
1735292
|
-37.0
|
gcaacagggtAAGTTCATCTTTtgtctcacct |
nd
|
[GEA], [AIBSCS]
|
[11]
|
Transcription factor |
Function |
Promoter |
Binding Sites |
Evidence (Confirmed, Strong, Weak) |
Reference(s) |
LeftPos |
RightPos |
Central Rel-Pos |
Sequence |
IHF |
repressor |
sodBp |
1735256
|
1735268
|
-61.0
|
gctaaaacttTACCCTGTTGTTAcggcaacagg
|
[GEA]
|
[2]
|
NsrR |
repressor |
sodBp |
1735281
|
1735292
|
-37.0
|
gcaacagggtAAGTTCATCTTTtgtctcacct
|
[GEA]
|
[11]
|
CRP-cyclic-AMP |
repressor |
sodBp |
1735376
|
1735398
|
64.5
|
aggagagtagCAATGTCATTCGAATTACCTGCActaccatatg
|
[GEA]
|
[12]
|
sRNA |
TU Regulated |
Function |
Binding Sites |
Regulatory Mechanism |
Evidence (Confirmed, Strong, Weak) |
Reference(s) |
PosLeft |
PosRight |
Target sequence (mRNA) |
small regulatory RNA RyhB
|
sodB
|
repressor
|
1735365
|
1735382
|
AAGGAGAGUAGCAAUGUC
|
TRANSLATION-BLOCKING, MRNA-DEGRADATION
|
[IEP], [IPI], [SM]
|
[5], [6], [7], [8]
|
small regulatory RNA FnrS
|
sodB
|
repressor
|
1735340
|
1735397
|
AUUGUACGUAUGCAAAUUAAUAAUAAAGGAGAGUAGCAAUGUCAUUCGAAUUACCUGC
|
nd
|
[IDA], [IEP], [SM]
|
[9], [10]
|