Escherichia coli str. K-12 substr. MG1655
Efficacy testing RFP generator of BBa_K861060 (PfadR)
Promoter + BBa_I13507 in high copy number plasmid. Used to amplify plasmid
RBS.1 (strong) -- modified from R. Weiss
Strong RBS based on Ron Weiss thesis. Strength is considered relative to <bb_part>BBa_B0031</bb_part>, <bb_part>BBa_B0032</bb_part>, <bb_part>BBa_B0033</bb_part>.
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix ("orig" in figure 4-14 of Ron Weiss thesis). 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 Brian Chow
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
Built by Josh as an intermediate in screening plasmid construction.
double terminator (B0012-B0011), reversed
FadR, fatty acid sensor from E.coli str. K12
FadR is a transcriptional regulator,which, when binding to acyl-CoA can either serve as activator for fatty acid synthetase gene like FabA, FabB and etc. or repressor for fatty acid degradation gene like FadA, FadB, FadD and etc. After long chain fatty acid is converted to fatty acyl- CoA by FadD, it can bind to FadR. This binding will alter the conformation of FadR and FadR can no longer bind to the DNA sequence it recognizes to fulfill its function. To our knowledge, there is no promoter exists in nature that can respond solely to FadR since those promoters are often regulated by glucose concentration or oxidative stress and many other factors.
PfadR, synthetic promoter with tandem FadR binding site
At least to our knowledge, there is no promoter exists in nature that can respond solely to FadR since those promoters are often regulated by glucose concentration or oxidative stress and many other factors. We decided to design an artificial promoter to fulfill this task. Specifically, a tandem FadR binding site in FadL promoter is place downstream of promoter J23110 with 3 base pair overlap. We test its function in M9 medium with oleic acid as sole carbon source in plasmid pSB6A1.
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
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.
Transcriptional terminator consisting of a 64 bp stem-loop.
**highly** engineered mutant of red fluorescent protein from Discosoma striata (coral)
Campbell et al., PNAS v99 p7877 URL
monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm
TAATAA double stop codon added (DE). Four silent mutations made to remove three EcoRI sites and one PstI site: A28G, A76G, A349G, G337A.
Conversion of the iGEM parts registry to SBOL2.1