BBa_M36805 1 BBa_M36805 Acetaldehyde Sensor 2014-05-02T11:00:00Z 2015-05-08T01:14:06Z AlcR ORF was derived from Teleromyces stipitatus, and codon-optimized for E. coli. This device senses intracellular acetaldehyde, a co-inducer of AlcR transcription factor. Activated AlcR binds its corresponding operon of the downstream promoter, activating transcription of the actuator (not included in this part). false false _848_ 0 22144 9 Not in stock true Codons were chosen to minimize >10bp repeats. false Richard Li component2372839 1 BBa_M36802 component2372837 1 BBa_B0015 component2372829 1 BBa_M36804 component2372828 1 BBa_J23119 component2372830 1 BBa_M36803 component2372838 1 BBa_M36801 annotation2372838 1 BBa_M36801 range2372838 1 2179 2221 annotation2372830 1 BBa_M36803 range2372830 1 63 2033 annotation2372837 1 BBa_B0015 range2372837 1 2042 2170 annotation2372828 1 BBa_J23119 range2372828 1 1 35 annotation2372829 1 BBa_M36804 range2372829 1 44 56 annotation2372839 1 BBa_M36802 range2372839 1 2230 2274 BBa_M36801 1 BBa_M36801 lacUV5 Promoter (weak constitutive) 2014-04-29T11:00:00Z 2015-05-08T01:14:06Z http://www.biochem.wisc.edu/faculty/reznikoff/publications/139.pdf http://openwetware.org/images/1/1c/TheBacterialPromoter.pdf LacUV5 is a constitutive promoter mutated from of the lac promoter found in E. coli. The lac promoter is considered weak, it varies from the consensus sequence by 3 bases. On the other hand, the lacUV5 mutated promoter varies from the consensus sequence by only 1 base and is much stronger than the lac promoter. Even though lacUV5 is considered strong relative to other E. coli promoters, these are still weak when compared to T7 promoters. false false _848_ 0 22143 9 Not in stock false No significant design issues encountered. false Bradley Hammoor BBa_M36804 1 BBa_M36804 pRBS-SD1+6A 2014-04-29T11:00:00Z 2015-05-08T01:14:06Z This part comes from GeneDesigner and DNA 2.0 This is a prokaryotic ribosome binding site from GeneDesigner (made by DNA 2.0). It has a 6A tail to provide spacing. false false _848_ 0 22143 9 Not in stock false No considerations made. false Bradley Hammoor 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 annotation7020 1 BBa_B0012 range7020 1 1 41 annotation1690 1 polya range1690 1 28 41 annotation1687 1 stop range1687 1 34 34 annotation1686 1 T7 TE range1686 1 8 27 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_J23119 1 BBa_J23119 constitutive promoter family member 2006-08-23T11:00:00Z 2015-08-31T04:08:40Z Overlap extension of synthetic oligonucleotides Released HQ 2013 Later false true _52_ 0 483 95 In stock false N/A true John Anderson BBa_M36803 1 BBa_M36803 AlcR Gene 2014-04-29T11:00:00Z 2015-05-08T01:14:06Z The AlcR sequence was generated from Talaromyces stipitatus and codon-optimized for E. coli. AlcR regulates transcriptional elements by binding cognate targets 5'-WGCGG-3' in the responsive promoters. false false _848_ 0 22144 9 Not in stock false Minimize >10 bp repeats to only 3. false Richard Li BBa_B0015 1 BBa_B0015 double terminator (B0010-B0012) 2003-07-16T11:00:00Z 2015-08-31T04:07:20Z Released HQ 2013 Double terminator consisting of BBa_B0010 and BBa_B0012 false true _1_ 0 24 7 In stock false true Reshma Shetty component1916612 1 BBa_B0012 component1916610 1 BBa_B0010 annotation1916610 1 BBa_B0010 range1916610 1 1 80 annotation1916612 1 BBa_B0012 range1916612 1 89 129 BBa_M36802 1 BBa_M36802 alcR operator/promoter 2014-04-29T11:00:00Z 2015-05-08T01:14:06Z This concept comes from the 2011 iGEM ETH Zurich team. (http://2011.igem.org/Team:ETH_Zurich). It also comes from extensive research done by Beatrice Felenbok. The sequence is the highest affinity binding site for alcR-acetaldehyde complex. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC364357/pdf/molcellb00027-0040.pdf) The alcR operator/promoter provides a binding site for the alcR protein-acetaldehyde complex. In Aspergillus nidulans, the alcR gene encodes a regulatory protein which activates the expression of the ethanol utilization (alc) pathway if the co-inducer acetaldehyde is present. Ethanol is converted to acetaldehyde by the alcohol dehydrogenase and further metabolized to acetate by the aldehyde dehydrogenase. Both genes alcA and aldA are regulated by AlcR. AlcR also regulates its own expression by autoactivation. The AlcR DNA binding domain contains a zinc bi-nuclear cluster, which can bind either to symmetric and asymmetric sites with same affinity. In contrast to other members of the Zn2Cys6, the DNA binding domain is stretch of 16 amino acid residues between the third and fourth cysteine. AlcR binds as a monomer, but 2 proteins can bind to inverted repeats in a noncooperative manner. Additional DNA sequences upstream of the zinc cluster were identified to be responsible for high-affinity binding, false false _848_ 0 22143 9 Not in stock false The mechanism by which the complex binds and inhibits/activates this region is currently unknown. false Bradley Hammoor BBa_M36802_sequence 1 gggctagcggaaatgcggggggcggccatgcggagccgcacgcgt BBa_B0010_sequence 1 ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctc BBa_M36805_sequence 1 ttgacagctagctcagtcctaggtataatgctagctactagagaggaggtaaaaaatactagatgaccagccagtctaaaccaaatacccgtcgccttatgagtgtagtgaaactggagcagtgtacgagtgcaaactcgtccaccgtggcgatagccgcagcgagagtggcaggtccagtgatgcagcagagcgaggggagtaccctgtttcagcgacgcctgaaccataaagatcaggcagattcctccctccacgcgcatttccgcaccagaggtcagctgccggagagtattaagcgtcgttatctgcgagatgtgccgttagtacatgatatcccggcgcgtcttggtcaggattctagtacgcctgcgggacagaatgtacaatctgccggttcagaagcgaacactcagctctttctacacccagacatccagtcacttgtggatgaagatcgtattgctagagcgttggggcgcgacgttacctcagatcgcctgttggtggtatatgtatcttcttttgaatctaccatatctaaatgggcgacactgtccaaccagcctccgggtatctcgcagtatccgacgcttcataacaccttatacgatcgcgttcaaagactagatcataaagcctcagcgctaatacggcagcacacaggttctgatcattgccacagggctacgcgtgtgcttaaactggctgttatgacattttcgtctcaaagctcgtgtatcgaacgcgcggaaactagccaggcttttggagaaatgtttgtcccggttaatgacttccagagtttattatttcaaactctttggcatgaaacccggcgtagcttggaatggtttgccgattgggattgtctagaggttattctggcgcgcattatctttagtttaacccagtccccactgaaccatccggagacggactctagacatgaaggagttcgtaatggtccacacttgtatgactcgccggaatccatggcgctgcgtaaagcgcatctcgataaagcattgcagtccctgtccttctggaatagggaaatgcagcctctgttgcaagtccctgagcgtctggaacattcacttattggttttaatgatgatgacatcaccgatttctgtgtacttgtcaaattagccattatttacgacgaaacgacggcagtcctttggaaccgtacgatccagattactgaagggaaaggcgatatctcgtggagcaggggcggatgtgcgctgcaatcgtcctcgccagattcaattgggcaagctggtcagttccttaaggctcactatctgaaggcgtcactgtggcgtaaattgggccaacttcagcgacttgcgaggcacgctgacgcgctgacgtcaaacctcgaaacatatatacaagagaccttagaaatttttcatgaatggaacggtgcatgtgcttcatacatgaaaacgtgtatggaatctattaccacctccccattcgacctggaagcatcctgctttggtcacgccgcacactggtatctgggtgttctgctttttgcgactgaagtggaagtgttagatgccaccggccgttccgattcaattaagtcttctctgcgccgctctaccggtttgacaggcgagctgcgcacagatagcatttatgcgatatctgacctggcccgggcggcgaatagtctgacgactgaaggccttacacgtcagcgtcgtacgtattatgagcatccgctgctcgtggatccgctgtttgcagttattcatatcgcatttgcagaaacatgcgagacactgctggagtggcgtaacttgttgttgttacgattgagcaatgaaaacttggaccgttctattgaagatacgtcgcaggatgaaacgtttttagccaacttgagtgaacgcctcaatcattgcatcgaagccttagacttactgggcaaaaaaagcggcgtatcgaaaggctatgcatgtagaatgcgcaccgtcctggacatgggattgtattggccggataaaggatactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttatatactagaggcttccggctcgtataatgtgtggaattgtgagcggataacaatactagaggggctagcggaaatgcggggggcggccatgcggagccgcacgcgt BBa_M36803_sequence 1 atgaccagccagtctaaaccaaatacccgtcgccttatgagtgtagtgaaactggagcagtgtacgagtgcaaactcgtccaccgtggcgatagccgcagcgagagtggcaggtccagtgatgcagcagagcgaggggagtaccctgtttcagcgacgcctgaaccataaagatcaggcagattcctccctccacgcgcatttccgcaccagaggtcagctgccggagagtattaagcgtcgttatctgcgagatgtgccgttagtacatgatatcccggcgcgtcttggtcaggattctagtacgcctgcgggacagaatgtacaatctgccggttcagaagcgaacactcagctctttctacacccagacatccagtcacttgtggatgaagatcgtattgctagagcgttggggcgcgacgttacctcagatcgcctgttggtggtatatgtatcttcttttgaatctaccatatctaaatgggcgacactgtccaaccagcctccgggtatctcgcagtatccgacgcttcataacaccttatacgatcgcgttcaaagactagatcataaagcctcagcgctaatacggcagcacacaggttctgatcattgccacagggctacgcgtgtgcttaaactggctgttatgacattttcgtctcaaagctcgtgtatcgaacgcgcggaaactagccaggcttttggagaaatgtttgtcccggttaatgacttccagagtttattatttcaaactctttggcatgaaacccggcgtagcttggaatggtttgccgattgggattgtctagaggttattctggcgcgcattatctttagtttaacccagtccccactgaaccatccggagacggactctagacatgaaggagttcgtaatggtccacacttgtatgactcgccggaatccatggcgctgcgtaaagcgcatctcgataaagcattgcagtccctgtccttctggaatagggaaatgcagcctctgttgcaagtccctgagcgtctggaacattcacttattggttttaatgatgatgacatcaccgatttctgtgtacttgtcaaattagccattatttacgacgaaacgacggcagtcctttggaaccgtacgatccagattactgaagggaaaggcgatatctcgtggagcaggggcggatgtgcgctgcaatcgtcctcgccagattcaattgggcaagctggtcagttccttaaggctcactatctgaaggcgtcactgtggcgtaaattgggccaacttcagcgacttgcgaggcacgctgacgcgctgacgtcaaacctcgaaacatatatacaagagaccttagaaatttttcatgaatggaacggtgcatgtgcttcatacatgaaaacgtgtatggaatctattaccacctccccattcgacctggaagcatcctgctttggtcacgccgcacactggtatctgggtgttctgctttttgcgactgaagtggaagtgttagatgccaccggccgttccgattcaattaagtcttctctgcgccgctctaccggtttgacaggcgagctgcgcacagatagcatttatgcgatatctgacctggcccgggcggcgaatagtctgacgactgaaggccttacacgtcagcgtcgtacgtattatgagcatccgctgctcgtggatccgctgtttgcagttattcatatcgcatttgcagaaacatgcgagacactgctggagtggcgtaacttgttgttgttacgattgagcaatgaaaacttggaccgttctattgaagatacgtcgcaggatgaaacgtttttagccaacttgagtgaacgcctcaatcattgcatcgaagccttagacttactgggcaaaaaaagcggcgtatcgaaaggctatgcatgtagaatgcgcaccgtcctggacatgggattgtattggccggataaagga BBa_M36801_sequence 1 gcttccggctcgtataatgtgtggaattgtgagcggataacaa BBa_M36804_sequence 1 aggaggtaaaaaa BBa_B0012_sequence 1 tcacactggctcaccttcgggtgggcctttctgcgtttata BBa_J23119_sequence 1 ttgacagctagctcagtcctaggtataatgctagc BBa_B0015_sequence 1 ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata 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