BBa_K371001 1 BBa_K371001 pduAB(Propanediol utilization gene A+B)[RBS+pduA+RBS+pduB] 2010-08-26T11:00:00Z 2015-05-08T01:12:15Z pduJK come from Citrobacter Freundii genenom(NBRC NO.12681) Pdu, a abbreviation of propanediol utilization, is name of operon which is used for degradation propanediol to generate energy. Pdu operon consist of 21 genes. Some of these genes encode a series proteins which assemble to a large icosahedral protein complex. PduAB consist of pdu A and pdu B wich their corresponding natural RBS, which got from Citrobacter Freundii by PCR. PduAB, together with others struture part of pdu operon such as pdu JK, can be used to construct a empty proteinous microcompartment in bacteria. false false _498_ 0 3984 9 It's complicated true The sequencing result show that the gene of pduAB has some silent mutations, which have no effect on the function of protein. false Yang Zhang annotation2078680 1 start codon range2078680 1 300 302 annotation2078684 1 stop codon range2078684 1 1110 1112 annotation2078682 1 pduB coding sequence range2078682 1 300 1112 annotation2078681 1 stop codon range2078681 1 298 300 annotation2078678 1 RBS range2078678 1 6 11 annotation2078679 1 pduA coding sequence range2078679 1 19 300 annotation2078683 1 RBS range2078683 1 285 292 annotation2078685 1 start codon range2078685 1 19 21 BBa_K371019 1 BBa_K371019 pdu(Propanediol utilization)BMC shell gene under Plac control 2010-10-10T11:00:00Z 2015-05-08T01:12:16Z Citrobactor freudii, the strain was bought from NITE Biological Resource Center (NBRC). NBRC NO. is 12681. History:IFO 12681 <- Ajinomoto Co., Inc. (AJ 2619) <- ATCC 8090 <- C.H. Werkm This composite consists of eight pdu bacterial microcompartment(BMC) structure gene following a natural lac promotor(BBa_R0010). These genes come from four basic parts,pduAB,pduJK,pduN and pduTUV, which consist of the natural RBS and gene separately. false false _498_ 0 3984 9 It's complicated true Promotor BBa_R0010 was chosen to give a mediate transcription efficiency after induced by IPTG. false Yang Zhang, Ruijun Zhu component2084875 1 BBa_R0010 component2084899 1 BBa_K371000 component2084904 1 BBa_K371004 component2084917 1 BBa_K371005 component2084890 1 BBa_K371001 annotation2084917 1 BBa_K371005 range2084917 1 2422 3817 annotation2084904 1 BBa_K371004 range2084904 1 2120 2413 annotation2084890 1 BBa_K371001 range2084890 1 209 1320 annotation2084899 1 BBa_K371000 range2084899 1 1329 2111 annotation2084875 1 BBa_R0010 range2084875 1 1 200 BBa_R0010 1 LacI promoter (lacI regulated) 2003-01-31T12:00:00Z 2015-05-08T01:14:14Z The Plac insert was PCR'd from the MG1655 strain of E.coli K12. Released HQ 2013 Inverting regulatory region controlled by LacI (<bb_part>BBa_C0010</bb_part>, <bb_part>BBa_C0011</bb_part>, etc.) <p> The pLac regulatory region is a 243 base-pair sequence with standard BioBrick prefix and suffix sections on its ends. It contains two protein binding sites: CAP, which is generally present in E.coli and is assocciated with cell health and availability of glucose., and LacI, the Lac inhibitor <bb_part>BBa_C0010</bb_part> which binds in an dimerized cooperative manner to inhibit the transcription of the protein that follows. In the presence of lactose or IPTG, an analog of lactose, LacI is unable to correctly bind and inhibit transcription. This allows <bb_part>BBa_R0010</bb_part> to be used as a inverter or as a detector of lactose or IPTG. false true _1_ 0 24 7 In stock false <P> <P><P> LacI binds to this regulator. This part is incompatible with species containing active LacI coding regions. Lactose and IPTG disable the operation of LacI and this regulator. This part is incompatible with environments containing lactose or lactose analogs. true annotation1961222 1 BBa_R0010 range1961222 1 1 200 annotation1961226 1 LacI binding site range1961226 1 166 200 annotation1961221 1 end of LacI coding region (inactive) range1961221 1 1 88 annotation1961223 1 CAP binding site range1961223 1 89 126 annotation1961224 1 -35 range1961224 1 137 142 annotation1961227 1 start range1961227 1 173 173 annotation1961225 1 -10 range1961225 1 161 166 BBa_K371004 1 BBa_K371004 pduN(Propanediol utilization gene N)[RBS+pduN] 2010-08-26T11:00:00Z 2015-05-08T01:12:15Z pduJK come from Citrobacter Freundii genenom(NBRC NO.12681) Pdu, a abbreviation of propanediol utilization, is name of operon which is used for degradation propanediol to generate energy. Pdu operon consist of 21 genes, which belongs to a kind of BMC(bacterial microcompartment).Some of these genes encode a series proteins which assemble to a large icosahedral protein complex. PduN consist of pdu N wich their natural RBS, which got from Citrobacter Freundii by PCR. PduN, together with others struture part of pdu operon, can be used to construct a empty proteinous microcompartment in bacteria. false false _498_ 0 3984 9 It's complicated true There are some silent mutation in sequencing result of pduN. false Yang Zhang annotation2078723 1 start codon range2078723 1 19 21 annotation2078724 1 RBS range2078724 1 4 12 annotation2078725 1 pduN conding sequence range2078725 1 19 294 annotation2078722 1 stop codon range2078722 1 292 294 BBa_K371000 1 BBa_K371000 pduJK(Propanediol utilization gene J+K)[RBS+pduJ+RBS+pduK] 2010-08-26T11:00:00Z 2015-05-08T01:12:15Z pduAb come from Citrobacter Freundii genenom(NBRC NO.12681) Pdu, a abbreviation of propanediol utilization, is name of operon which is used for degradation propanediol to generate energy. Pdu operon consist of 21 genes. Some of these genes encode a series proteins which assemble to a large icosahedral protein complex. PduAB consist of pdu A and pdu B wich their natural RBS, which got from Citrobacter Freundii by PCR. PduAB, together with others struture part of pdu operon, can be used to construct a empty proteinous microcompartment in bacteria. false false _498_ 0 3984 9 It's complicated true The sequence results of pduAB, which we got by PCR from Citrobacter Freundii(NBRC NO.12681), are different from the sequence we found on the papar. We suspect that the strain we used is not same with the papar. false Yang Zhang annotation2078676 1 start codon range2078676 1 319 321 annotation2078675 1 pduK RBS range2078675 1 307 312 annotation2078673 1 pduK coding sequence range2078673 1 319 783 annotation2078672 1 pduJ coding sequence range2078672 1 19 294 annotation2078670 1 pduJ RBS range2078670 1 5 12 annotation2078674 1 stop codon range2078674 1 292 294 annotation2078677 1 stop codon range2078677 1 781 783 annotation2078671 1 start codon range2078671 1 19 21 BBa_K371005 1 BBa_K371005 pduTUV(Propanediol utilization gene T+U+V)[RBS+pduT+RBS+pduU+RBS+pduV] 2010-08-26T11:00:00Z 2015-05-08T01:12:16Z pduJK come from Citrobacter Freundii genenom(NBRC NO.12681) Pdu, a abbreviation of propanediol utilization, is name of operon which is used for degradation propanediol to generate energy. Pdu operon consist of 21 genes, which belongs to a kind of BMC(bacterial microcompartment).Some of these genes encode a series proteins which assemble to a large icosahedral protein complex. PduTUV consist of pduT, pduU and pduV wich their corresponding natural RBS, which got from Citrobacter Freundii by PCR. PduTUV, together with other struture parts of pdu operon, can be used to construct a empty proteinous microcompartment in bacteria. false false _498_ 0 3984 9 It's complicated true Sequencing result shows that there are several silent mutation in pduT and pduU. PduV has some error mutation. We are still working on the function assay to certify whether the mutation pduV still function well. false Yang Zhang annotation2078732 1 start codon range2078732 1 35 47 annotation2078734 1 start codon range2078734 1 944 946 annotation2078731 1 RBS range2078731 1 931 937 annotation2078728 1 pduV coding sequence range2078728 1 944 1396 annotation2078730 1 RBS range2078730 1 576 582 annotation2078733 1 start codon range2078733 1 589 591 annotation2078729 1 RBS range2078729 1 23 28 annotation2078727 1 pduU coding sequence range2078727 1 589 939 annotation2078726 1 stop codon range2078726 1 1393 1396 annotation2078737 1 pduT coding sequence range2078737 1 35 589 annotation2078735 1 stop codon range2078735 1 587 589 annotation2078736 1 stop codon range2078736 1 937 939 BBa_R0010_sequence 1 caatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgacaggtttcccgactggaaagcgggcagtgagcgcaacgcaattaatgtgagttagctcactcattaggcaccccaggctttacactttatgcttccggctcgtatgttgtgtggaattgtgagcggataacaatttcacaca BBa_K371005_sequence 1 ctgagcaatccatcacggtaataagaggttaatcatgtctcaggctatagggattttagaactcaccagcattgccaaaggaatggaagctggcgatgccatgttaaaaagcgcgaatgtgaatttactggtcagcaagaccatctgcccgggaaaatttctactcatgctcggtggtgacgtaggtgccgtacaacaggcgattgccactggaacatctcttgctggcgatatgctcgttgatagtctggtactccccaacattcatgccagcgtactacccgcaatcagcggactaaacagcgtagataagcgtcaggcagttggtattgtcgaaacatggagcgttgctgcctgcatctgcgccgccgaccgggcggttaaagcctccaacgtcacgctggtccgcgtccgtatggcatttggtattggcggcaagtgttacatggtcgtagctggcgatgtatccgatgtgaataacgcggtgacggttgccagtgaaagtgcgggtgaaaaaggcctgctggtttaccgctcggtcatcccccgtccacacgaaagcatgtggcgacaaatggtggaaggataatggaaagacaacccaccacggatcgtatgattcaggaatatgttcctggcaaacaggtcacgttggcgcaccttatcgccaatcccggtaaggatttgttcaagaaactgggattacctgattcggtttctgcgatcggtattctgaccattacccctagcgaagcctcaatcatcgcctgtgatatcgccacgaaatcaggggcggtagagattggttttctcgaccggtttaccggcgcggtggtactgacgggcgatgtttcagccgttgagtacgcgctgaaacaggtaacccgaacgctgggcgaaatgatgcgttttaccgcgtgtcccatcacccggacgtaatctcgtgaaacgtatcatgctaattggccccagccagtgcggtaaaacgtcgctcacacagtgcatgcgcggagaggtgctccactatcagaagacccaggccatagtctggtcacctacgacaatagacacaccgggtgaatatcttgagaaccgctgcctgtacagtgcgctgctggccagcgcctgtgaagcggacattattgcgctggtactcaatgctgacgcgccgtggtcaccattttctcccggttttaccggaccaatgaaccgacccgttattggcctcgttaccaaagccgatttagccaacccgcagcgtatttctcttgtggagagttggttagctcaggctggtgcgcaaaaagtatttgtcaccagcgcgctggagaataccggggtcgatgagatgttcatttttctgaatgcaaaggaatcttcctgtctcacaaaataa BBa_K371001_sequence 1 aacccaggcgaggtctttatgcaacaagaagcgttaggaatggtagaaaccaaaggcttgacagcagccatagaggccgcagatgcaatggtgaagtcagccaatgtaatgctggtcggctacgaaaaaattggttcggggctggtaacagttattgtccgcggcgatgtcggcgcagtcaaagcagcaacagatgccggtgccgccgcagcccgtaatgtgggagaagtgaaagccgtacacgttatcccacgcccgcataccgatgtagaaaaaatcttaccgaagggaattagctaatgagcagcaatgaactggttgaacagatcatggcgcaggtgattgctcgcgtggcaacgccggaacagcaggctatcccagaaaataatcacccaacacgagaaacggctatggcagagaaaagctgtagtttaacggagtttgtcggtaccgcgattggcgacaccgtcggtctggtaatcgccaacgtagacagtgccctactggacgcaatgaaacttgaaaaacgctatcgctccattggcatccttggcgcccgtactggtgcgggtccacacatcatggccgctgatgaagcggtgaaagccaccaatactgaagtcgtcagtattgagttaccacgtgataccaaaggcggcgcaggtcatggctcgctgattattcttggcggcaacgatgtttccgacgtgaaacgcggcattgaagtcgcactgaaagagctggatcgcacctttggcgacgtttatgccaacgaagccggtcacatcgaaatgcaatacaccgcacgcgccagctacgcacttgaaaaagcctttggcgcaccgattggtcgtgcctgtggcgtcatcgtcggcgcaccagcatccgttggtgtcctgatggctgatactgccctgaaatccgccaacgtggaagttgtggcttacagctcccctgctcatggcaccagcttcagtaacgaagccattctggttatttcgggtgactctggcgctgttcgtcaggctgttatctctgcccgtgaaatcggtaaaaccgtactcgggaccctcggctcagagccgaaaaacgatcgtccgtcctacatctga BBa_K371000_sequence 1 ccacaggagaaaagcagtatgaataacgcactgggactggttgaaacaaaagggcttgtcggcgctattgaagccgctgatgccatggtgaaatccgcaaacgtgcagttggttggttacgaaaaaatcggctctggcctgatcaacgttatggttcgcggtgatgtcggcgcggtgaaagcagccgtagatgctggaagcgcagcagcaagcgccgttggtgaggtgaaatcctgccacgttatcccgcgtccgcacagcgacgttgaagccattttacctaaatccgcataagtcgttgcaaccaaggagcacagcgtgaagcaatcactgggattacttgaagttagtggtctggcattagccatcagttgcgcggacgtcatggcgaaagccgcctccatcacgctggtgggcctcgaaaaaaccaacggctcaggctggacggtgatcaagataatcggggatgtggcctccgtccaggcggccatttccactggtgtcagtttcgctgaccagcgagatggactggtggctcacaaagtcatttccagacccggggacgggatcctgtcgcatagcgttgtcctggagcctgaaccaacgcccgaccccataccagccataccacatgaagaaatccctgaggaccatgcggcacccgaagcaccgcaagatgcagaattgattagctgcaatttgtgtcttgatcctgcctgccctcgccaaaaaggtgagccgcgcacactttgtcttcactccggcaaacgaggtgaagcgtga BBa_K371004_sequence 1 attaagcaggagtgagctatgcatctggcacgggttacaggcgttgtggtttccacgcaaaaatctccatcactggtgggaaaaaaactgttgctggtacgtcgggtaagtgctgacggagagcttcctgcgtctccagtgagtggagatgaagtcgctgttgattctgtcggcgcggggaccggcgaactggtattactcagcagcgggtccagcgccagacacgttttttccggcccgaatgaggccattgatctggctatcgtcggcattgtcgacacgctttctcgttag BBa_K371019_sequence 1 caatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgacaggtttcccgactggaaagcgggcagtgagcgcaacgcaattaatgtgagttagctcactcattaggcaccccaggctttacactttatgcttccggctcgtatgttgtgtggaattgtgagcggataacaatttcacacatactagagaacccaggcgaggtctttatgcaacaagaagcgttaggaatggtagaaaccaaaggcttgacagcagccatagaggccgcagatgcaatggtgaagtcagccaatgtaatgctggtcggctacgaaaaaattggttcggggctggtaacagttattgtccgcggcgatgtcggcgcagtcaaagcagcaacagatgccggtgccgccgcagcccgtaatgtgggagaagtgaaagccgtacacgttatcccacgcccgcataccgatgtagaaaaaatcttaccgaagggaattagctaatgagcagcaatgaactggttgaacagatcatggcgcaggtgattgctcgcgtggcaacgccggaacagcaggctatcccagaaaataatcacccaacacgagaaacggctatggcagagaaaagctgtagtttaacggagtttgtcggtaccgcgattggcgacaccgtcggtctggtaatcgccaacgtagacagtgccctactggacgcaatgaaacttgaaaaacgctatcgctccattggcatccttggcgcccgtactggtgcgggtccacacatcatggccgctgatgaagcggtgaaagccaccaatactgaagtcgtcagtattgagttaccacgtgataccaaaggcggcgcaggtcatggctcgctgattattcttggcggcaacgatgtttccgacgtgaaacgcggcattgaagtcgcactgaaagagctggatcgcacctttggcgacgtttatgccaacgaagccggtcacatcgaaatgcaatacaccgcacgcgccagctacgcacttgaaaaagcctttggcgcaccgattggtcgtgcctgtggcgtcatcgtcggcgcaccagcatccgttggtgtcctgatggctgatactgccctgaaatccgccaacgtggaagttgtggcttacagctcccctgctcatggcaccagcttcagtaacgaagccattctggttatttcgggtgactctggcgctgttcgtcaggctgttatctctgcccgtgaaatcggtaaaaccgtactcgggaccctcggctcagagccgaaaaacgatcgtccgtcctacatctgatactagagccacaggagaaaagcagtatgaataacgcactgggactggttgaaacaaaagggcttgtcggcgctattgaagccgctgatgccatggtgaaatccgcaaacgtgcagttggttggttacgaaaaaatcggctctggcctgatcaacgttatggttcgcggtgatgtcggcgcggtgaaagcagccgtagatgctggaagcgcagcagcaagcgccgttggtgaggtgaaatcctgccacgttatcccgcgtccgcacagcgacgttgaagccattttacctaaatccgcataagtcgttgcaaccaaggagcacagcgtgaagcaatcactgggattacttgaagttagtggtctggcattagccatcagttgcgcggacgtcatggcgaaagccgcctccatcacgctggtgggcctcgaaaaaaccaacggctcaggctggacggtgatcaagataatcggggatgtggcctccgtccaggcggccatttccactggtgtcagtttcgctgaccagcgagatggactggtggctcacaaagtcatttccagacccggggacgggatcctgtcgcatagcgttgtcctggagcctgaaccaacgcccgaccccataccagccataccacatgaagaaatccctgaggaccatgcggcacccgaagcaccgcaagatgcagaattgattagctgcaatttgtgtcttgatcctgcctgccctcgccaaaaaggtgagccgcgcacactttgtcttcactccggcaaacgaggtgaagcgtgatactagagattaagcaggagtgagctatgcatctggcacgggttacaggcgttgtggtttccacgcaaaaatctccatcactggtgggaaaaaaactgttgctggtacgtcgggtaagtgctgacggagagcttcctgcgtctccagtgagtggagatgaagtcgctgttgattctgtcggcgcggggaccggcgaactggtattactcagcagcgggtccagcgccagacacgttttttccggcccgaatgaggccattgatctggctatcgtcggcattgtcgacacgctttctcgttagtactagagctgagcaatccatcacggtaataagaggttaatcatgtctcaggctatagggattttagaactcaccagcattgccaaaggaatggaagctggcgatgccatgttaaaaagcgcgaatgtgaatttactggtcagcaagaccatctgcccgggaaaatttctactcatgctcggtggtgacgtaggtgccgtacaacaggcgattgccactggaacatctcttgctggcgatatgctcgttgatagtctggtactccccaacattcatgccagcgtactacccgcaatcagcggactaaacagcgtagataagcgtcaggcagttggtattgtcgaaacatggagcgttgctgcctgcatctgcgccgccgaccgggcggttaaagcctccaacgtcacgctggtccgcgtccgtatggcatttggtattggcggcaagtgttacatggtcgtagctggcgatgtatccgatgtgaataacgcggtgacggttgccagtgaaagtgcgggtgaaaaaggcctgctggtttaccgctcggtcatcccccgtccacacgaaagcatgtggcgacaaatggtggaaggataatggaaagacaacccaccacggatcgtatgattcaggaatatgttcctggcaaacaggtcacgttggcgcaccttatcgccaatcccggtaaggatttgttcaagaaactgggattacctgattcggtttctgcgatcggtattctgaccattacccctagcgaagcctcaatcatcgcctgtgatatcgccacgaaatcaggggcggtagagattggttttctcgaccggtttaccggcgcggtggtactgacgggcgatgtttcagccgttgagtacgcgctgaaacaggtaacccgaacgctgggcgaaatgatgcgttttaccgcgtgtcccatcacccggacgtaatctcgtgaaacgtatcatgctaattggccccagccagtgcggtaaaacgtcgctcacacagtgcatgcgcggagaggtgctccactatcagaagacccaggccatagtctggtcacctacgacaatagacacaccgggtgaatatcttgagaaccgctgcctgtacagtgcgctgctggccagcgcctgtgaagcggacattattgcgctggtactcaatgctgacgcgccgtggtcaccattttctcccggttttaccggaccaatgaaccgacccgttattggcctcgttaccaaagccgatttagccaacccgcagcgtatttctcttgtggagagttggttagctcaggctggtgcgcaaaaagtatttgtcaccagcgcgctggagaataccggggtcgatgagatgttcatttttctgaatgcaaaggaatcttcctgtctcacaaaataa 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