BBa_J63003 1 Kozak & st designed yeast Kozak sequence 2006-10-10T11:00:00Z 2015-08-31T01:56:26Z consensus Kozak and start built from oligonucleotides Released HQ 2013 consensus Kozak sequence and start codon false false _97_ 0 545 97 In stock false designed such that fusion using fusion bricks assembly method leads to in frame translation true Caroline Ajo-Franklin annotation1902852 1 start codon range1902852 1 13 15 BBa_K416003 1 BBa_K416003 Yeast Secretion Tag 2010-06-22T11:00:00Z 2015-05-08T01:12:27Z This part was sent to use from Dr. Sheldon Park of the University of Buffalo. This secretion tag when linked to the N-terminal of the protein directs extracellular secretion of the protein. After targeting through the ER to the golgi, this "pre-pro" tag is cleaved by the KEX-2 protease resulting in secretion of protein without the aforementioned tag. To use this tag, attached it directly upstream of your proteins CDS. false false _527_ 0 7430 9 It's complicated true There was an illegal Xbal1 site at bp 101 and we removed it through altering the primers necessary for biobricking the sequence. false John Phair BBa_K243004 1 ShortLinke Short Linker (Gly-Gly-Ser-Gly) 2009-10-11T11:00:00Z 2015-05-08T01:11:37Z Oligos synthesized by sigma. Hybridized by PCR. This linker was used to connect two different parts. The sequence produced the aminoacids Gly-Gly-Ser-Gly. false true _352_ 0 4732 9 In stock false None. false Freiburg Bioware09 annotation2041881 1 Short Linker range2041881 1 1 12 BBa_I766555 1 BBa_I766555 pCyc (Medium) Promoter 2007-08-15T11:00:00Z 2015-08-31T04:08:10Z Endogenous promoter for Cytochrome c Mid-expression level constitutive promoter in yeast false false _155_ 0 1931 9 Not in stock false none false Nili Sommovilla BBa_K1772000 1 BBa_K1772000 yEGFP-tagged Mn peroxidase 2015-09-16T11:00:00Z 2015-09-17T11:06:34Z Promoter: BBa_I766555 Kozak sequence: BBa_J63003 yEGFP (yeast Enhanced Green Fluorescent Protein): NCBI Genbank accession U73901.1 Linker sequences: BBa_K243004 Manganese Peroxidase from Heterobasidion irregulare TC 32-1, NCBI Reference Sequence: NW_009258207.1 Secretion tag: Bba_K416003 Terminator: BBa_K392003 Manganese Peroxidase fusion protein gene flanked by two linker sequences, with a a GFP tag on the N-terminus and a yeast secretion tag on the C-terminus. A constitutive medium strength pCyc promoter followed by a yeast kozak sequence caps the N-terminus, and a yeast terminator sequence caps the C-terminus. false false _2194_ 22695 22695 9 false Our goal was to synthesize lignin-degrading enzymes to be secreted out of yeast cells, which we used the secretion tag for. The fluorescence tag was merely implemented to simplify detection of successful secretion. To avoid time-consuming and low-efficiency standard assembly techniques, this construct was designed to be synthesized by IDT using two GBlocks(c), which were to be joined by Gibson Assembly. Linker sequences were implemented in order to minimize interaction between protein domains. A constitutive promoter was implemented due to the intended application (a bioreactor pretreatment process where a yeast containing this part would secrete enzymes to continuously degrade lignin). false Tianyu Tan component2468828 1 BBa_I766555 component2468836 1 BBa_K416003 component2468833 1 BBa_K1772001 component2468837 1 BBa_K392003 component2468830 1 BBa_J63003 component2468832 1 BBa_K243004 component2468835 1 BBa_K243004 annotation2468836 1 BBa_K416003 range2468836 1 1406 1519 annotation2468828 1 BBa_I766555 range2468828 1 1 244 annotation2468832 1 BBa_K243004 range2468832 1 279 290 annotation2468830 1 BBa_J63003 range2468830 1 253 270 annotation2468837 1 BBa_K392003 range2468837 1 1528 1656 annotation2468833 1 BBa_K1772001 range2468833 1 297 1379 annotation2468835 1 BBa_K243004 range2468835 1 1388 1399 BBa_K1772001 1 BBa_K1772001 Manganese Peroxidase 2015-09-16T11:00:00Z 2015-09-19T10:25:06Z Heterobasidion irregulare TC 32-1 Protein coding sequence for Manganese Peroxidase enzyme, sequence optimized for yeast. Mechanism: oxidizing of Mn2+ ions into Mn3+ ions using an irreversible redox reaction with the aid of fungal chelators such as oxalic acid. This enzyme is specifically used by Heterobasidion irregulare TC 32-1, a variety of white rot fungus, to break down any wooden material in it???s path. Although the enzyme itself is not directly linked to lignin breakdown, the Mn3+ ions that it creates are then able to attack and oxidize organic molecules such as phenolic substrates or several lignin compounds. These lignin compounds are broken down into free radicals which quickly degrade due to their molecular instability. Note: Calcium ions and heme-B are involved with the enzyme???s mechanism. false false _2194_ 21316 22695 9 false This gene sequence excludes introns (noncoding segments) present in the original gene from Heterobasidion irregulare TC 32-1. Sequence optimization was done using IDT's codon optimizer. Illegal restriction enzyme sites (under RFC 10 definition) were detected using NEBcutter2 and removed with silent mutations. false Tianyu Tan BBa_K392003 1 BBa_K392003 yeast ADH1 terminator 2010-10-09T11:00:00Z 2015-05-08T01:12:20Z Registry parts BBa_K105027 (promoter) and BBa_J63003 (Kozak). Engineered 'cyc100 promoter' of <i>Saccharomyces cerevisiae</i> with Kozak sequence attached downstream. false false _528_ 0 6220 9 It's complicated true Assembled by 3A method. false Tadashi Nakamura, Shuhei Yasumoto, Takahiro Saka, Saya Kakuda BBa_K243004_sequence 1 ggtggttctggt BBa_I766555_sequence 1 cagatccgccaggcgtgtatatatagcgtggatggccaggcaactttagtgctgacacatacaggcatatatatatgtgtgcgacgacacatgatcatatggcatgcatgtgctctgtatgtatataaaactcttgttttcttcttttctctaaatattctttccttatacattaggacctttgcagcataaattactatacttctatagacacacaaacacaaatacacacactaaattaata BBa_K416003_sequence 1 atgaaagttttgattgttttgttggctattttcgctgctttgccattggctttggctcaaccagttatttctactactgttggttctgctgctgaaggttcactagataaaaga BBa_K1772000_sequence 1 cagatccgccaggcgtgtatatatagcgtggatggccaggcaactttagtgctgacacatacaggcatatatatatgtgtgcgacgacacatgatcatatggcatgcatgtgctctgtatgtatataaaactcttgttttcttcttttctctaaatattctttccttatacattaggacctttgcagcataaattactatacttctatagacacacaaacacaaatacacacactaaattaatatactagagcccgccgccaccatggagtactagagggtggttctggttactagatggcattcggaacattgatagcttttgctgccctaataggtgcaagctctgcagcgattacaagaagagttgcctgccctgatggtgtcaatacggctacaaacgcagcttgttgtgctctgtttgccgtcagggatgatatccaggagaatctatttgatggaggcgaatgcggtgaagatgttcacgaatctttaagactaacatttcatgatgctataggtttctctctatccgctaatgcagccggtacatttggaggtggtggagccgatgggtctattatagttttctcctcaatcgaaaccgcattccatgcgaataatggaatcgatgaaatagtggaggaacagaaaccatttattgccagacataatattacaccaggcgatttcatacagttcgctggcgccattggtgtgtccaattgtcccggtgctccccaattggattttttgcttgggaggcctgcacccgttgctcctgcaccagatctgacggtgccggaacctttcgactccgtggactcaattttggcaagatttaacgatactggttttaacgccgcagaggtcgttgctttactggcttctcacacaatcgccgccgccgataaggtggacgtcactatccctggtacaccatttgattctacacctgaaatgttcgatacccagttctttatagaaacgcaattaagaggtactttgttccctggcactgcaggaaatcaaggtgaagttatgagtccgcttgcgggtgagttgaggctacaatccgattctgaattggctagagacaatagaacggcttgtctatggcaggcaaacgtaaatcagttagcacatatgaccagtaccttcaaagctgccatggcgaaacttgctgttcttggccaagacacaagccaaatggtagactgtagcgagttgatacctacccctcctccttttacaggtgcagcccatctgccagctggtctgacctcagctgatatagaacaagcttgcagcctgacaccttttcctaccctgccaaccgatccaggaccaattacgagtgtcgcacccgtgccacctagttactagagggtggttctggttactagatgaaagttttgattgttttgttggctattttcgctgctttgccattggctttggctcaaccagttatttctactactgttggttctgctgctgaaggttcactagataaaagatactagaggcatgtgctctgtatgtatataaaactcttgttttcttcttttctctaaatattctttccttatacattaggacctttgcagcataaattactatacttctattactagagcccgccgccaccatggag BBa_K1772001_sequence 1 atggcattcggaacattgatagcttttgctgccctaataggtgcaagctctgcagcgattacaagaagagttgcctgccctgatggtgtcaatacggctacaaacgcagcttgttgtgctctgtttgccgtcagggatgatatccaggagaatctatttgatggaggcgaatgcggtgaagatgttcacgaatctttaagactaacatttcatgatgctataggtttctctctatccgctaatgcagccggtacatttggaggtggtggagccgatgggtctattatagttttctcctcaatcgaaaccgcattccatgcgaataatggaatcgatgaaatagtggaggaacagaaaccatttattgccagacataatattacaccaggcgatttcatacagttcgctggcgccattggtgtgtccaattgtcccggtgctccccaattggattttttgcttgggaggcctgcacccgttgctcctgcaccagatctgacggtgccggaacctttcgactccgtggactcaattttggcaagatttaacgatactggttttaacgccgcagaggtcgttgctttactggcttctcacacaatcgccgccgccgataaggtggacgtcactatccctggtacaccatttgattctacacctgaaatgttcgatacccagttctttatagaaacgcaattaagaggtactttgttccctggcactgcaggaaatcaaggtgaagttatgagtccgcttgcgggtgagttgaggctacaatccgattctgaattggctagagacaatagaacggcttgtctatggcaggcaaacgtaaatcagttagcacatatgaccagtaccttcaaagctgccatggcgaaacttgctgttcttggccaagacacaagccaaatggtagactgtagcgagttgatacctacccctcctccttttacaggtgcagcccatctgccagctggtctgacctcagctgatatagaacaagcttgcagcctgacaccttttcctaccctgccaaccgatccaggaccaattacgagtgtcgcacccgtgccacctagt BBa_J63003_sequence 1 cccgccgccaccatggag BBa_K392003_sequence 1 gcatgtgctctgtatgtatataaaactcttgttttcttcttttctctaaatattctttccttatacattaggacctttgcagcataaattactatacttctattactagagcccgccgccaccatggag 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