SoxR - SoxS System with Blh and RALDH II system and Lac promoter
Same as BBa_K223049 with the addition of an inducible lacl promoter.
RBS (Elowitz 1999) -- defines RBS efficiency
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix. No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS. Contact info for this part: Brian Chow
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
Derived from the TE terminator of T7 bacteriophage between Genes 1.3 and 1.4 <genbank>V01146</genbank>.
Transcription terminator for the E.coli RNA polymerase.
Suggested by Sri Kosuri and Drew Endy as a high efficiency terminator. The 5' end cutoff was placed immediately after the TAA stop codon and the 3' end cutoff was placed just prior to the RBS of Gene 1.4 (before AAGGAG). Use anywhere transcription should be stopped when the gene of interest is upstream of this terminator.
The Plac insert was PCR'd from the MG1655 strain of E.coli K12.
Inverting regulatory region controlled by LacI (<bb_part>BBa_C0010</bb_part>, <bb_part>BBa_C0011</bb_part>, etc.) The pLac regulatory region is a 243 base-pair sequence with standard BioBrick prefix and suffix sections on its ends. It contains two protein binding sites: CAP, which is generally present in E.coli and is assocciated with cell health and availability of glucose., and LacI, the Lac inhibitor <bb_part>BBa_C0010</bb_part> which binds in an dimerized cooperative manner to inhibit the transcription of the protein that follows. In the presence of lactose or IPTG, an analog of lactose, LacI is unable to correctly bind and inhibit transcription. This allows <bb_part>BBa_R0010</bb_part> to be used as a inverter or as a detector of lactose or IPTG.
LacI binds to this regulator. This part is incompatible with species containing active LacI coding regions. Lactose and IPTG disable the operation of LacI and this regulator. This part is incompatible with environments containing lactose or lactose analogs.
Transcriptional terminator consisting of a 64 bp stem-loop.
GenBank Escherichia coli E24377A http://www.ncbi.nlm.nih.gov/nuccore/NC_009801.1/from=4616553&to=4617017&report=fasta
This part produces the SoxR protein, which in the presence of oxidative stresses, such as paraquat and nitric oxide, binds with high affinity to the SoxS promoter. The SoxR generator, when coupled with the SoxS promoter, can be utilized as an inducible sensor for oxidative stress.
Can be put on both a high, pSB1A3 with AmpR, and low copy plasmid.
Pseudomonas aeruginosa SoxR Does Not Conform to the Archetypal Paradigm for SoxR- Dependent Regulation of the Bacterial Oxidative Stress Adaptive Response ~Palma et al. http://iai.asm.org/cgi/reprint/73/5/2958?maxtoshow=&HITS=10&hits=10& RESULTFORMAT =&fulltext=coli&searchid=1&FIRSTINDEX=520&resourcetype=HWFIG
The SoxS promoter is activated by the SoxR protein in the presence of oxidative stress, such as Paraquat or Nitric Oxide. It has a high affinity binding with the SoxR protein. It can be used in conjunction with the SoxR gene as an inducible sensor for oxidative stress.
Blh Gene: Cleaves beta-carotene into retinal
Blh gene ??? altered for restriction sites http://www.jbc.org/cgi/reprint/M109.002618v1 In vitro characterization of a recombinant Blh protein from an uncultured marine bacterium as a β-carotene 15,15′-dioxygenase ~Kim et al. **Found in Supplemental Data and used codon optimized sequence
The Blh gene cleaves beta-carotene into retinal. It can be used in the pathway for the production of retinoic acid from beta-carotene in conjunction with the RALDH II genes.
The optimized coding sequence was used and it was altered for restriction sites.
RALDH II gene: Converts retinal into retinoic acid
RALDH II gene - altered for restriction sites http://www.jbc.org/cgi/reprint/271/27/16288 Cloning of a cDNA Encoding an Aldehyde Dehydrogenase and Its Expression in Escherichia coli ~Xianshu Wang, Peter Penzes, and Joseph L. Napoli???
The Raldh II gene converts retinal into retinoic acid. It is helpful if used in conjunction with the Blh gene for the entire process of converting beta-carotene into retinoic acid.
Conversion of the iGEM parts registry to SBOL2.1