The DNA for this part was taken from the registry
A fusion of the INP.Si4 complex with the hydrophobic cell stress reporter to create a system capable of detecting silica particles in solution
The biobricks were digested and ligated together using the RFC10 restriction sites
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.
Double terminator consisting of BBa_B0010 and BBa_B0012
Overlap extension of synthetic oligonucleotides
This part is based on the Edinburgh 2011 iGEM team's Ice Nucleation Protein part BBa_K523008 with the Si4 binding peptide part BBa_K1028000 submitted by Leeds 2013 iGEM team.
Fusion of the silica binding peptide Si4, part BBa_K1028000, to Ice Nucleation Protein (INP) to achieve presentation and expression of the binding domain on the outer membrane.
The Si4 part was added at the C-terminus of INP using PCR assembly methods.
The parts for this were aquired from the iGEM 2013 delivery plates.
The CpxR promoter is activated via adhesion of the cellular membrane to hydrophobic surfaces, with GFP downstream of the promoter the gene functions to produce a visible and quantitive signal upon surface binding.
The parts were assembled using PCR assembly to avoid introducing a scar site between the promoter and the ribosome binding site included in part BBa_K081012 and in assembled parallel
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.
PoPS in -> GFP out Strong RBS (efficiency=0.6).
This part comes from the genome of E.coli TR235, as used in the PNAS paper of Otto and Silhavy mentioned previously. TR235 is K-12 MC4100 containing a pCpxR-LacZ fusion inserted at the (Lambda)att site, plus some other modifications (see Otto and Silhavy). The part is a portion of the CpxR responsive region used in these LacZ fusions.
This is suggested to be an adhesion responsive promoter. It contains the binding site for CpxR-P (phosphorylated CpxR). CpxR is one member of the two-component Cpx response to envelope stress. Briefly, envelope stress causes CpxA, an inner-membrane histidine Kinase to Phosphorylate CpxR, allowing it to bind to CpxR-P responsive regions and regulate downstream target genes. See 'Surface sensing and adhesion of Escherichia coli controlled by the Cpx-signaling pathway', Karen Otto and Thomas J. Silhavy, PNAS, Vol. 99., No, 4., 2287-2292. 2002.
This sequence is taken from the "Site-Speciﬁc Labeling of Surface Proteins on Living Cells Using Genetically Encoded Peptides that Bind Fluorescent Nanoparticle Probes" paper published by Rocco et al.
This is a short peptide of 15 amino acids designed to bind with high affinity to silica and silica-like particles, designed as a tag to be attached to the C-terminus of polypeptides. This part was originally designed to be conjugated to the C-terminal of Ice Nucleation Protein allowing extracellular expression of the binding region.
The sequence was codon optomised for E.Coli expression.
This is a modified version of <partinfo>BBa_K265008</partinfo> for use with the BioSandwich protocol of Edinburgh 2011.
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
green fluorescent protein derived from jellyfish Aequeora victoria wild-type GFP (SwissProt: P42212
GFP (mut3b) [note that this part does not have a barcode]
modified E. coli thr terminator, replaced all A-T pairs in stem with C-G pairs
Artificial terminator, estimated %T~>90% *8bp stem, 6nt loop *Bidirectional, estimated reverse %T~>90%
Bidirectional, with the reverse estimated to be less effective than the forward. Has a polyA tail of 9 residues.
Conversion of the iGEM parts registry to SBOL2.1