BBa_K914003 1 BBa_K914003 L-rhamnose-inducible promoter (pRha) 2012-09-19T11:00:00Z 2015-05-08T01:13:45Z Amplification of the plasmid pJOE3075 (Dr. Altenbuchner). Released HQ 2013 L-rhamnose-inducible promoter is capable of high-level recombinant protein expression in the presence of L-rhamnose, it is also tightly regulated in the absence of L-rhamnose by the addition of D-glucose. false false _1179_ 0 13487 9 In stock true One base pair modified (90: A -> T) to avoid EcoRI site. Mutation made in a less conserved base pair. false Denis Samuylov annotation2188559 1 pRha range2188559 1 1 122 BBa_B0034 1 BBa_B0034 RBS (Elowitz 1999) -- defines RBS efficiency 2003-01-31T12:00:00Z 2015-08-31T04:07:20Z Released HQ 2013 RBS based on Elowitz repressilator. false true _1_ 0 24 7 In stock false Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix. <p>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: <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a> true Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003. annotation23325 1 conserved range23325 1 5 8 BBa_K1583015 1 BBa_K1583015 Linker in fusion protein 2015-09-07T11:00:00Z 2015-09-08T04:50:17Z The DNA was synthesized. The sequence of CsgA originates from the genomic DNA of E. coli K-12 MG1655.(http://www.ncbi.nlm.nih.gov/gene/949055). The design was based on the paper "Programmable biofilm-based materials from engineered curli nanofibres"[1] 1. Nguyen, P. Q., Botyanszki, Z., Tay, P. K. R., & Joshi, N. S. (2014). Programmable biofilm-based materials from engineered curli nanofibres. Nature communications, 5. A linker with the protein sequence GSGGSG was placed in between the CsgA and the affinity tag for increased performance reasons. The design was based on the paper "Programmable biofilm-based materials from engineered curli nanofibres"[1] 1. Nguyen, P. Q., Botyanszki, Z., Tay, P. K. R., & Joshi, N. S. (2014). Programmable biofilm-based materials from engineered curli nanofibres. Nature communications, 5. false false _2000_ 24463 24463 9 false We followed the design of "Programmable biofilm-based materials from engineered curli nanofibres"[1] 1. Nguyen, P. Q., Botyanszki, Z., Tay, P. K. R., & Joshi, N. S. (2014). Programmable biofilm-based materials from engineered curli nanofibres. Nature communications, 5. false Stefan Robert Marsden annotation2474933 1 Linker range2474933 1 1 18 BBa_K1583051 1 BBa_K1583051 Scar 2 2015-09-03T11:00:00Z 2015-09-18T07:34:25Z This scar is part of a synthesized construct. Scar in constructs BBa_K1583100 - BBa_K1583112 false false _2000_ 24478 24478 9 false This scar originates from the part BBa_K1316015, on which the composite part BBa_K1583100 is based. false Max van 't Hof annotation2475065 1 Scar range2475065 1 1 14 BBa_K1583060 1 BBa_K1583060 Hydroxyapatite affinity tag 2015-09-07T11:00:00Z 2015-09-08T04:31:43Z The sequence was obtained from the paper "Identification of a Highly Specific Hydroxyapatite-binding Peptide using Phage Display" [1] 1. M. Roy, S. Stanley, E. Amis, M. Becker, Adv. Mater., 2008, 20, 1830-1836. This part generates a peptide tag which shows high adhesive properties towards hydroxyapatite, a main component of teeth. false false _2000_ 24463 24463 9 false No specific design considerations were made. false Stefan Robert Marsden annotation2473127 1 Hydroxyapatite-affinity tag range2473127 1 1 39 BBa_K1583050 1 BBa_K1583050 Scar 1 2015-09-03T11:00:00Z 2015-09-18T07:33:29Z This scar is part of a synthesized construct. Scar in constructs BBa_K1583100 - BBa_K1583112 false false _2000_ 24478 24478 9 false This scar originates from the part BBa_K1316015, on which the composite part BBa_K1583100 is based. false Max van 't Hof annotation2475064 1 Scar range2475064 1 1 25 BBa_R0040 1 p(tetR) TetR repressible promoter 2003-01-31T12:00:00Z 2015-05-08T01:14:14Z Lutz, R., Bujard, H., <em>Nucleic Acids Research</em> (1997) 25, 1203-1210. Released HQ 2013 Sequence for pTet inverting regulator driven by the TetR protein.</P> false true _1_ 0 24 7 In stock false <P> <P>BBa_R0040 TetR-Regulated Promoter is based on a cI promoter. It has been modified to include two TetR binding sites and the BioBrick standard assembly head and tail restriction sites.<P> true June Rhee, Connie Tao, Ty Thomson, Louis Waldman annotation1986784 1 BBa_R0040 range1986784 1 1 54 annotation1986783 1 TetR 1 range1986783 1 1 19 annotation1986787 1 -10 range1986787 1 43 48 annotation1986785 1 -35 range1986785 1 20 25 annotation1986786 1 TetR 2 range1986786 1 26 44 BBa_K1583102 1 BBa_K1583102 pRha + CsgA + Hydroxyapatite-affinity tag 2015-09-07T11:00:00Z 2015-09-18T11:07:01Z The DNA was synthesized. The sequence originates from the genomic DNA of E. coli K-12 MG1655 (http://www.ncbi.nlm.nih.gov/gene/949055). This part was synthesized. The rhamnose promoter was used by the iGEM 2014 TU Delft team and originally added by the iGEM12 Paris Bettencourt team. RBS and CsgA originate from E. coli K-12 MG1655. The nucleotides encoding for the second and third amino acid of the CsgA gene were changed to optimize synthesis success. (silent mutations). Upon induction with rhamnose, CsgA is expressed and exported into the extracellular space. There, the membrane protein CsgB can trigger the CsgA protein monomers to aggregate and form amyloid nanofibres. false false _2000_ 24478 24463 9 true The stop codon needed to be removed from CsgA to add the N-terminal hydroxyapatite affinity tag. false Stefan Robert Marsden, Hector Sanguesa Ferrer component2461034 1 BBa_K1583060 component2461031 1 BBa_K1583008 component2461035 1 BBa_K1583051 component2461032 1 BBa_K1583014 component2461033 1 BBa_K1583015 component2461030 1 BBa_K1583050 component2461029 1 BBa_K914003 annotation2461030 1 BBa_K1583050 range2461030 1 123 147 annotation2461032 1 BBa_K1583014 range2461032 1 161 613 annotation2461031 1 BBa_K1583008 range2461031 1 148 159 annotation2461035 1 BBa_K1583051 range2461035 1 671 684 annotation2461033 1 BBa_K1583015 range2461033 1 614 631 annotation2461034 1 BBa_K1583060 range2461034 1 632 670 annotation2461029 1 BBa_K914003 range2461029 1 1 122 BBa_B0010 1 BBa_B0010 T1 from E. coli rrnB 2003-11-19T12:00:00Z 2015-08-31T04:07:20Z Transcriptional terminator consisting of a 64 bp stem-loop. false false _1_ 0 24 7 In stock false true Randy Rettberg annotation7018 1 BBa_B0010 range7018 1 1 80 annotation4184 1 stem_loop range4184 1 12 55 BBa_I13521 1 BBa_I13521 Ptet mRFP 2005-06-21T11:00:00Z 2015-08-31T04:07:34Z Released HQ 2013 Constitutive on mRFP (positive control) false true _11_ 0 253 6 In stock false true jkm component1532589 1 BBa_B0012 component1532566 1 BBa_B0034 component1532579 1 BBa_B0010 component1532558 1 BBa_R0040 component1532573 1 BBa_E1010 annotation1532579 1 BBa_B0010 range1532579 1 795 874 annotation1532589 1 BBa_B0012 range1532589 1 883 923 annotation1532566 1 BBa_B0034 range1532566 1 63 74 annotation1532558 1 BBa_R0040 range1532558 1 1 54 annotation1532573 1 BBa_E1010 range1532573 1 81 761 BBa_K1583108 1 BBa_K1583108 pRha + CsgA with Hydroxyapatite-affinity tag & pTet + RFP 2015-09-07T11:00:00Z 2016-01-25T11:31:05Z The DNA was synthesized. The sequence originates from the genomic DNA of E. coli K-12 MG1655 (http://www.ncbi.nlm.nih.gov/gene/949055). Upon induction with rhamnose, a fusion protein of CsgA with a hydroxyapatite affinity tag is expressed. The CsgA protein monomers can aggregate to form amyloid nanofibres. The affinity tag is supposed to increase adhesive properties of the biofilm created as a result of the CsgA induction. In order to better visualize the individual cells in the biofilm, we added the constitutive expression of RFP to our plasmid in a different operon. For our design, we took advantage of the double terminator present in the biobrick I13521 by placing it in front of our genes. false false _2000_ 4206 24463 9 false For our design, we took advantage of the double terminator present in the biobrick I13521 by placing it in front of our genes. false Stefan Robert Marsden component2461052 1 BBa_I13521 component2461061 1 BBa_K1583102 annotation2461052 1 BBa_I13521 range2461052 1 1 923 annotation2461061 1 BBa_K1583102 range2461061 1 932 1615 BBa_K1583014 1 BBa_K1583014 CsgA missing the stop codon for creation of fusion proteins 2015-09-03T11:00:00Z 2015-09-18T07:00:29Z The DNA was synthesized. The sequence originates from the genomic DNA of E. coli K-12 MG1655 (http://www.ncbi.nlm.nih.gov/gene/949055). This part was designed to create a fusion protein of CsgA with Mfp3 (mussel foot protein). This protein has got high adhesive properties towards wet polar surfaces. Like this, an amyloid nanowire with high binding properties is created. false false _2000_ 24478 24463 9 false The stop codon was deleted to create a fusion protein. false Stefan Robert Marsden annotation2474839 1 CsgA range2474839 1 1 453 BBa_E1010 1 mRFP1 **highly** engineered mutant of red fluorescent protein from Discosoma striata (coral) 2004-07-27T11:00:00Z 2015-08-31T04:07:26Z Campbell et al., PNAS v99 p7877 <a href="http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=12060735">URL</a> Released HQ 2013 monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm false false _11_1_ 0 52 7 In stock false TAATAA double stop codon added (DE). Four silent mutations made to remove three EcoRI sites and one PstI site: A28G, A76G, A349G, G337A. true Drew Endy annotation2214014 1 Help:Barcodes range2214014 1 682 706 annotation1014044 1 mrfp1 range1014044 1 1 675 BBa_K1583008 1 BBa_K1583008 RBS 2015-09-03T11:00:00Z 2015-09-04T05:18:43Z Synthesized RBS false false _2000_ 24478 24478 9 false Based on RBS of BBa_K1316015. false Max van BBa_B0012 1 BBa_B0012 TE from coliphageT7 2003-01-31T12:00:00Z 2015-08-31T04:07:20Z Derived from the TE terminator of T7 bacteriophage between Genes 1.3 and 1.4 <genbank>V01146</genbank>. Released HQ 2013 Transcription terminator for the <i>E.coli</i> RNA polymerase. false false _1_ 0 24 7 In stock false <P> <P>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).<P> Use anywhere transcription should be stopped when the gene of interest is upstream of this terminator. false Reshma Shetty annotation1690 1 polya range1690 1 28 41 annotation7020 1 BBa_B0012 range7020 1 1 41 annotation1686 1 T7 TE range1686 1 8 27 annotation1687 1 stop range1687 1 34 34 BBa_K1583102_sequence 1 ccacaattcagcaaattgtgaacatcatcacgttcatctttccctggttgccaatggcccattttcctgtcagtaacgagaaggtcgcgtattcaggcgctttttagactggtcgtaatgaatactagagcagcaaggaaatactagaaggaggtatataatgaaactgctgaaagtagcagcaattgcagcaatcgtattctccggtagcgctctggcaggtgttgttcctcagtacggcggcggcggtaaccacggtggtggcggtaataatagcggcccaaattctgagctgaacatttaccagtacggtggcggtaactctgcacttgctctgcaaactgatgcccgtaactctgacttgactattacccagcatggcggcggtaatggtgcagatgttggtcagggctcagatgacagctcaatcgatctgacccaacgtggcttcggtaacagcgctactcttgatcagtggaacggcaaaaattctgaaatgacggttaaacagttcggtggtggcaacggtgctgcggttgaccagactgcatctaactcctccgtcaacgtgactcaggttggctttggtaacaacgcgaccgctcatcagtacggcagcggtggcagtggctctgtttctgttggtatgaaaccgtctccgcgtccgtaactactagaaggagg BBa_I13521_sequence 1 tccctatcagtgatagagattgacatccctatcagtgatagagatactgagcactactagagaaagaggagaaatactagatggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgctactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata BBa_K1583060_sequence 1 tctgtttctgttggtatgaaaccgtctccgcgtccgtaa BBa_K1583051_sequence 1 ctactagaaggagg BBa_K1583015_sequence 1 ggcagcggtggcagtggc BBa_B0034_sequence 1 aaagaggagaaa BBa_E1010_sequence 1 atggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgc BBa_K1583050_sequence 1 tactagagcagcaaggaaatactag BBa_K1583108_sequence 1 tccctatcagtgatagagattgacatccctatcagtgatagagatactgagcactactagagaaagaggagaaatactagatggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgctactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttatatactagagccacaattcagcaaattgtgaacatcatcacgttcatctttccctggttgccaatggcccattttcctgtcagtaacgagaaggtcgcgtattcaggcgctttttagactggtcgtaatgaatactagagcagcaaggaaatactagaaggaggtatataatgaaactgctgaaagtagcagcaattgcagcaatcgtattctccggtagcgctctggcaggtgttgttcctcagtacggcggcggcggtaaccacggtggtggcggtaataatagcggcccaaattctgagctgaacatttaccagtacggtggcggtaactctgcacttgctctgcaaactgatgcccgtaactctgacttgactattacccagcatggcggcggtaatggtgcagatgttggtcagggctcagatgacagctcaatcgatctgacccaacgtggcttcggtaacagcgctactcttgatcagtggaacggcaaaaattctgaaatgacggttaaacagttcggtggtggcaacggtgctgcggttgaccagactgcatctaactcctccgtcaacgtgactcaggttggctttggtaacaacgcgaccgctcatcagtacggcagcggtggcagtggctctgtttctgttggtatgaaaccgtctccgcgtccgtaactactagaaggagg BBa_K1583008_sequence 1 aaggaggtatat BBa_K914003_sequence 1 ccacaattcagcaaattgtgaacatcatcacgttcatctttccctggttgccaatggcccattttcctgtcagtaacgagaaggtcgcgtattcaggcgctttttagactggtcgtaatgaa BBa_B0010_sequence 1 ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctc BBa_K1583014_sequence 1 atgaaactgctgaaagtagcagcaattgcagcaatcgtattctccggtagcgctctggcaggtgttgttcctcagtacggcggcggcggtaaccacggtggtggcggtaataatagcggcccaaattctgagctgaacatttaccagtacggtggcggtaactctgcacttgctctgcaaactgatgcccgtaactctgacttgactattacccagcatggcggcggtaatggtgcagatgttggtcagggctcagatgacagctcaatcgatctgacccaacgtggcttcggtaacagcgctactcttgatcagtggaacggcaaaaattctgaaatgacggttaaacagttcggtggtggcaacggtgctgcggttgaccagactgcatctaactcctccgtcaacgtgactcaggttggctttggtaacaacgcgaccgctcatcagtac BBa_R0040_sequence 1 tccctatcagtgatagagattgacatccctatcagtgatagagatactgagcac BBa_B0012_sequence 1 tcacactggctcaccttcgggtgggcctttctgcgtttata igem2sbol 1 iGEM to SBOL conversion Conversion of the iGEM parts registry to SBOL2.1 Chris J. Myers James Alastair McLaughlin 2017-03-06T15:00:00.000Z