BBa_M36285 1 BBa_M36285 Cop Y : negative transcriptional regulator 2011-12-06T12:00:00Z 2015-05-08T01:14:04Z CopYAZ operon from the oral bacterium Streptococcus mutants JH1005 Reference : Brown, N. L., Lee, B. T. O. & Silver, S. (1994). Bacterial transport of and resistance to copper. In Metal Ions in Biological Systems, pp. 405???434. Edited by H. Sigel & A. Sigel. New York: Marcel Dekker. Cop Y is a negative transcriptional regulatory protein. In the absence of effector molecules (in this case, CopZ and Cu2+), CopY binds to the promoter and depresses transcription of cop operon. On the other hand, CopZ is an anti-repressor of cop operon. Cop Z brings copper to CopY that is bound to the operon. In the presence of CopZ and copper, CopY detaches itself from the operon. When using CopZ, always pair it up with CopY, to get the copper sensing feature. false false _848_ 0 11086 9 Not in stock false The whole CopYAZ operon from Streptococcus mutant allows the bacteria to sense and translocate copper in their system. CopY and CopZ are regulators of the expression of the cop operon in response to both copper starvation and copper excess, and CopA is a Cu(I)-translocating P-type ATPase. Since our project is to create a sensor, we concentrated on CopY and CopZ, which regulate transcription of cop operon. false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166628 1 copY range2166628 1 1 342 BBa_M36291 1 BBa_M36291 Transcription terminator (apFAB391) (99% efficient) 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z BIOFAB.org This part is a transcription terminator. false false _848_ 0 11080 9 Not in stock false none. false Victoria Robles, Kyung Ri Park, Ken Xiong BBa_M36288 1 BBa_M36288 medium 5' Bicistronic UTR (BD21) 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z BIOFAB.org apFAB599 This part is a 5' UTR of medium strength (varying with it upstream promoter) based on bicistronic junction architecture. The first RBS is strong and drives expression of short leader cistron. The second RBS is internal to the first cistron and controls translation of gene of interest. Architecture is optimized so that downstream CDS for gene of interest does not have a chance to form a secondary structure with the 5' UTR. See BIOFAB.org for more information. false true _848_ 0 11080 9 Not in stock false - false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166696 1 dna range2166696 1 1 88 BBa_M36286 1 BBa_M36286 Cop Z : anti-repressor 2011-12-06T12:00:00Z 2015-05-08T01:14:04Z CopYAZ operon from the oral bacterium Streptococcus mutants JH1005 Reference : Brown, N. L., Lee, B. T. O. & Silver, S. (1994). Bacterial transport of and resistance to copper. In Metal Ions in Biological Systems, pp. 405???434. Edited by H. Sigel & A. Sigel. New York: Marcel Dekker. Cop Y is a negative transcriptional regulatory protein. In the absence of effector molecules (in this case, CopZ and Cu2+), CopY binds to the promoter and depresses transcription of cop operon. On the other hand, CopZ is an anti-repressor of cop operon. Cop Z brings copper to CopY that is bound to the operon. In the presence of CopZ and copper, CopY detaches itself from the operon. When using CopZ, always pair it up with CopY, to get the copper sensing feature. false false _848_ 0 11086 9 Not in stock false The whole CopYAZ operon from Streptococcus mutant allows the bacteria to sense and translocate copper in their system. CopY and CopZ are regulators of the expression of the cop operon in response to both copper starvation and copper excess, and CopA is a Cu(I)-translocating P-type ATPase. Since our project is to create a sensor, we concentrated on CopY and CopZ, which regulate transcription of cop operon. false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166629 1 Cop Z range2166629 1 1 204 BBa_M36279 1 BBa_M36279 Copper Sensor --> PoPS 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z copY, copZ, and the cop promoter are all parts from the copper-regulating cop operon found in the oral bacterium Streptococcus mutans JH1005. This device sends PoPs signals in response to the presence of copper. It consists of a strong constitutive promoter, a bicistronic RBS, copZ, another bicistronic RBS, copY, a transcription terminator, and cop promoter. The copY protein represses the cop promoter, but if copper attaches to copY, copY will release from the promoter, and PoPs will be produced. The copZ protein acts as a copper chaperone, transporting copper to copY attached to the cop promoter. false false _848_ 0 11080 9 Not in stock false Since we were testing our device in E. coli, we wanted to use copper regulating proteins not already found in E. coli. The regular cop operon consists of more proteins, however, we chose just copY and copZ because these were the only functions we were interested in giving our device. false Victoria Robles, Kyung Ri Park, Ken Xiong component2166672 1 BBa_M36289 component2166669 1 BBa_M36288 component2166668 1 BBa_M36287 component2166671 1 BBa_M36286 component2166675 1 BBa_M36291 component2166676 1 BBa_M36290 component2166674 1 BBa_M36285 annotation2166676 1 BBa_M36290 range2166676 1 885 941 annotation2166669 1 BBa_M36288 range2166669 1 45 132 annotation2166668 1 BBa_M36287 range2166668 1 1 36 annotation2166672 1 BBa_M36289 range2166672 1 351 438 annotation2166671 1 BBa_M36286 range2166671 1 139 342 annotation2166674 1 BBa_M36285 range2166674 1 445 786 annotation2166675 1 BBa_M36291 range2166675 1 795 876 BBa_M36287 1 BBa_M36287 Promoter (strong constitutive) 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z BIOFAB.org BIOFAB id : pFAB708 This is a strong constitutive promoter that allows transcription of the downstream genes regardless of transcription factors. false false _848_ 0 11080 9 Not in stock false - false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166695 1 promoter range2166695 1 1 36 BBa_M36289 1 BBa_M36289 medium 5' Bicistronic UTR (BD8) 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z BIOFAB.org apFAB567 Much like BD21 (BBa_M36289), this part is a 5' UTR of medium strength (varying with it upstream promoter) based on bicistronic junction architecture. The first RBS is strong and drives expression of short leader cistron. The second RBS is internal to the first cistron and controls translation of gene of interest. Architecture is optimized so that downstream CDS for gene of interest does not have a chance to form a secondary structure with the 5' UTR. See BIOFAB.org for more information. false false _848_ 0 11080 9 Not in stock false - false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166694 1 dna range2166694 1 1 88 BBa_M36290 1 BBa_M36290 cop Promoter 2011-12-09T12:00:00Z 2015-05-08T01:14:04Z Streptococcus mutans JH1005 cop operon This part is a promoter taken from the copper regulating operon in the oral bacterium Streptococcus mutans JH1005. It is repressed by copY and anti-repressed in the presence of copper with the aid of the copper chaperone copZ. false false _848_ 0 11080 9 Not in stock false Must have copY and copZ to function properly. false Victoria Robles, Kyung Ri Park, Ken Xiong annotation2166697 1 promoter range2166697 1 1 57 BBa_M36288_sequence 1 gggcccaagttcacttaaaaaggagatcaacaatgaaagcaattttcgtactgaaacatcttaatcatgcgagggatggtttctaatg BBa_M36290_sequence 1 tcagtttttgttgacaaatgtagacaaagaggttataatatatctacaaatgtagat BBa_M36279_sequence 1 ttgacaattaatcatccggctcgtaatgtttgtggatactagaggggcccaagttcacttaaaaaggagatcaacaatgaaagcaattttcgtactgaaacatcttaatcatgcgagggatggtttctaatgtactagatggaaaaaacctaccacatcgacggtctgaaatgccagggttgcgctgacaacgttaccaaacgtttctctgaactgaaaaaagttaacgacgttaaagttgacctggacaaaaaagaagttcgtatcaccggtaacccgtctaaatggtctctgaaacgtgctctgaaaggtaccaactacgaactgggtgctgaaatctaatactagaggggcccaagttcacttaaaaaggagatcaacaatgaaagcaattttcgtactgaaacatcttaatcatgcatcggaccgtttctaatgtactagatgacctctatctctaacgctgaatgggaagttatgcgtgttgtttgggctaaacagatgacctcttcttctgaaatcatcgctatcctgtctcgtacctactgctggtctgcttctaccatcaaaaccctgatcacccgtctgtctgaaaaaggttacctgacctctcagcgtcagggtcgtaaatacatctactcttctctgatctctgaagaagaagctctggaacagcaggtttctgaagttttctctcgtatctgcgttaccaaacaccaggctctgatccgtcacctggttgaagaaaccccgatgaccctgtctgacatcgaaaaactggaagcttactagagtcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtctactagagtcagtttttgttgacaaatgtagacaaagaggttataatatatctacaaatgtagat BBa_M36289_sequence 1 gggcccaagttcacttaaaaaggagatcaacaatgaaagcaattttcgtactgaaacatcttaatcatgcatcggaccgtttctaatg BBa_M36285_sequence 1 atgacctctatctctaacgctgaatgggaagttatgcgtgttgtttgggctaaacagatgacctcttcttctgaaatcatcgctatcctgtctcgtacctactgctggtctgcttctaccatcaaaaccctgatcacccgtctgtctgaaaaaggttacctgacctctcagcgtcagggtcgtaaatacatctactcttctctgatctctgaagaagaagctctggaacagcaggtttctgaagttttctctcgtatctgcgttaccaaacaccaggctctgatccgtcacctggttgaagaaaccccgatgaccctgtctgacatcgaaaaactggaagct BBa_M36286_sequence 1 atggaaaaaacctaccacatcgacggtctgaaatgccagggttgcgctgacaacgttaccaaacgtttctctgaactgaaaaaagttaacgacgttaaagttgacctggacaaaaaagaagttcgtatcaccggtaacccgtctaaatggtctctgaaacgtgctctgaaaggtaccaactacgaactgggtgctgaaatctaa BBa_M36287_sequence 1 ttgacaattaatcatccggctcgtaatgtttgtgga BBa_M36291_sequence 1 tcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtc 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