BBa_I746000 1 BBa_I746000 AIP generator (agrB + agrD with RBSes) 2007-10-19T11:00:00Z 2015-08-31T04:08:04Z The original sequences for agrB and agrD were taken from the S Aureus Sequencing Project at Oklahoma University (http://www.genome.ou.edu/staph.html). The sequences were then codon-optimised for E. coli using GeneDesigner from DNA2.0 (http://www.dna20.com), and then synthesised by that company. This part was made in order to transfer the S. aureus oligopeptide-based quorum sensing system into a BioBirck-compatible signalling mechanism. In the natural system, the signalling oligopeptide (termed AIP) is made from AgrD by the membrane-located enzyme AgrB. It is then detected by the membrane-located AgrC, which phosphorylates AgrA which then has DNA-binding activity and upregulates transcription of the promoters termed P2 and P3 in the ''agr'' locus. There are four known variants of AIP with different molecular structures and cross-inhibitory activity; this BioBrick generates group I AIP. This part contains the coding regions for group I agrB and agrD (in that order), prefixed by the B0034 RBS and separated by a SaII site. false false _116_ 0 1851 9 Not in stock false N/A false David Wyatt annotation1950178 1 B0034-sequence RBS range1950178 1 1 12 annotation1950179 1 agrB coding sequence range1950179 1 19 591 annotation1950180 1 B0034-sequence RBS range1950180 1 598 609 annotation1950182 1 agrD coding sequence range1950182 1 616 759 annotation1950181 1 SaII site range1950181 1 592 597 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_I746002 1 BBa_I746002 AIP generator + mCherry + term 2007-10-22T11:00:00Z 2015-08-31T04:08:04Z Standard assembly of I746000 with J06702. This part is simply the AIP generator (I746000) from the agr system with an mCherry+term device (J06702) downstream. The original part was made in order to transfer the S. aureus oligopeptide-based quorum sensing system into a BioBrick-compatible signalling mechanism. In the natural system, the signalling oligopeptide (termed AIP) is made from AgrD by the membrane-located enzyme AgrB. It is then detected by the membrane-located AgrC, which phosphorylates AgrA which then has DNA-binding activity and upregulates transcription of the promoters termed P2 and P3 in the agr locus. There are four known variants of AIP with different molecular structures and cross-inhibitory activity; this BioBrick generates group I AIP. This part was built to check for transcriptional readthrough - i.e. that I746000 does not contain a cryptic terminator or some other problematic feature. It's also handy for tagging sender cells as red fluorescent (if it works!). false false _116_ 0 1851 9 Not in stock false N/A false David Wyatt component1953090 1 BBa_I746000 component1953096 1 BBa_B0010 component1953098 1 BBa_B0012 component1953095 1 BBa_J06504 component1953092 1 BBa_B0034 annotation1953098 1 BBa_B0012 range1953098 1 1596 1636 annotation1953095 1 BBa_J06504 range1953095 1 786 1499 annotation1953092 1 BBa_B0034 range1953092 1 768 779 annotation1953096 1 BBa_B0010 range1953096 1 1508 1587 annotation1953090 1 BBa_I746000 range1953090 1 1 759 BBa_J06504 1 mCherry monomeric RFP optimized for bacteria 2005-07-17T11:00:00Z 2016-01-25T01:05:28Z mCherry from Roger Y. Tsien's lab, altered to be BioBrick compatible Released HQ 2013 mRFP (DsRed) derived, altered to be a biobrick by removing a PstI site and adding in the ends. false false _20_ 4206 340 20 In stock false <p> Made a point mutation to eliminate a PstI site in the middle and then added BioBrick ends using PCR. </p> <p> Sequenced using primers that bind to the pSB1A2 plasmid on either side of the brick. </p> true ytwang annotation1585829 1 mCherry range1585829 1 1 711 annotation1585833 1 C->T (removing PstI site) range1585833 1 352 352 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_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_B0010_sequence 1 ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctc BBa_B0034_sequence 1 aaagaggagaaa BBa_J06504_sequence 1 atggtgagcaagggcgaggaggataacatggccatcatcaaggagttcatgcgcttcaaggtgcacatggagggctccgtgaacggccacgagttcgagatcgagggcgagggcgagggccgcccctacgagggcacccagaccgccaagctgaaggtgaccaagggtggccccctgcccttcgcctgggacatcctgtcccctcagttcatgtacggctccaaggcctacgtgaagcaccccgccgacatccccgactacttgaagctgtccttccccgagggcttcaagtgggagcgcgtgatgaacttcgaggacggcggcgtggtgaccgtgacccaggactcctccttgcaggacggcgagttcatctacaaggtgaagctgcgcggcaccaacttcccctccgacggccccgtaatgcagaagaagaccatgggctgggaggcctcctccgagcggatgtaccccgaggacggcgccctgaagggcgagatcaagcagaggctgaagctgaaggacggcggccactacgacgctgaggtcaagaccacctacaaggccaagaagcccgtgcagctgcccggcgcctacaacgtcaacatcaagttggacatcacctcccacaacgaggactacaccatcgtggaacagtacgaacgcgccgagggccgccactccaccggcggcatggacgagctgtacaagtaataa BBa_I746000_sequence 1 aaagaggagaaatactagatgaactattttgacaacaagatcgaccaatttgctacttacctgcaaaaacgcaacaacctggaccacatccagtttctgcaagttcgtctgggcatgcaggttctggctaaaaacatcggcaaactgatcgttatgtacaccatcgcctatattctgaacatcttcctgtttaccctgatcaccaacctgaccttctatctgattcgccgtcatgcccacggcgctcatgcaccttcttccttttggtgttatgtagagagcattattctgtttatcctgctgccgctggtaatcgttaacttccacatcaatttcctgattatgatcatcctgactgtgatttccctgggtgtaatctctgtttacgctccggctgccactaagaaaaagccgattccggtgcgcctgatcaaacgtaaaaagtactacgctatcatcgtttccctgaccctgttcattatcaccctgattatcaaagaaccgtttgcacagttcatccagctgggtattatcatcgaagcgatcactctgctgccgatctttttcatcaaagaggatctgaaataataagtcgacaaagaggagaaatactagatgaatactctgttcaatctgtttttcgatttcattactggcatcctgaagaacatcggtaacatcgcagcgtacagcacctgcgacttcatcatggatgaagtagaggtcccgaaagagctgacccagctgcatgaataataa BBa_I746002_sequence 1 aaagaggagaaatactagatgaactattttgacaacaagatcgaccaatttgctacttacctgcaaaaacgcaacaacctggaccacatccagtttctgcaagttcgtctgggcatgcaggttctggctaaaaacatcggcaaactgatcgttatgtacaccatcgcctatattctgaacatcttcctgtttaccctgatcaccaacctgaccttctatctgattcgccgtcatgcccacggcgctcatgcaccttcttccttttggtgttatgtagagagcattattctgtttatcctgctgccgctggtaatcgttaacttccacatcaatttcctgattatgatcatcctgactgtgatttccctgggtgtaatctctgtttacgctccggctgccactaagaaaaagccgattccggtgcgcctgatcaaacgtaaaaagtactacgctatcatcgtttccctgaccctgttcattatcaccctgattatcaaagaaccgtttgcacagttcatccagctgggtattatcatcgaagcgatcactctgctgccgatctttttcatcaaagaggatctgaaataataagtcgacaaagaggagaaatactagatgaatactctgttcaatctgtttttcgatttcattactggcatcctgaagaacatcggtaacatcgcagcgtacagcacctgcgacttcatcatggatgaagtagaggtcccgaaagagctgacccagctgcatgaataataatactagagaaagaggagaaatactagatggtgagcaagggcgaggaggataacatggccatcatcaaggagttcatgcgcttcaaggtgcacatggagggctccgtgaacggccacgagttcgagatcgagggcgagggcgagggccgcccctacgagggcacccagaccgccaagctgaaggtgaccaagggtggccccctgcccttcgcctgggacatcctgtcccctcagttcatgtacggctccaaggcctacgtgaagcaccccgccgacatccccgactacttgaagctgtccttccccgagggcttcaagtgggagcgcgtgatgaacttcgaggacggcggcgtggtgaccgtgacccaggactcctccttgcaggacggcgagttcatctacaaggtgaagctgcgcggcaccaacttcccctccgacggccccgtaatgcagaagaagaccatgggctgggaggcctcctccgagcggatgtaccccgaggacggcgccctgaagggcgagatcaagcagaggctgaagctgaaggacggcggccactacgacgctgaggtcaagaccacctacaaggccaagaagcccgtgcagctgcccggcgcctacaacgtcaacatcaagttggacatcacctcccacaacgaggactacaccatcgtggaacagtacgaacgcgccgagggccgccactccaccggcggcatggacgagctgtacaagtaataatactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata BBa_B0012_sequence 1 tcacactggctcaccttcgggtgggcctttctgcgtttata igem2sbol 1 iGEM to SBOL conversion Conversion of the iGEM parts registry to SBOL2.1 James Alastair McLaughlin Chris J. Myers 2017-03-06T15:00:00.000Z