Difference between revisions of "Part:BBa K1152007:Design"
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===Design Notes=== | ===Design Notes=== | ||
| − | BBa_K1152007 was assembled via Gibson Cloning out of four fragments. The modules that were required for the NRPS were amplified from ''B. parabrevis'' | + | BBa_K1152007 was assembled via Gibson Cloning out of four fragments. The modules that were required for the NRPS were amplified from ''B. parabrevis'', ''P. luminescens'' an the pDONR-vector. There were no illegal restiction sites, neither in ccdB, nor in the C-domain of TycC2. However in indC, the gene that encodes for the Indigoidine synthetase, two illegal restriction sites (one for EcoRI, one for SpeI) had to be removed by mutagenesis. In order to change the Indigoidine-module from an initiation module to a subsequent module, it has to be put behind a C-domain. We selected the C-domain of TycC4-module, as it is specific for Glutamine, which is the subtrate for Indigoidine. |
| − | + | ||
===Source=== | ===Source=== | ||
| + | Coding regions were amplified from genomes of ''B. parabrevis'' that was sent to us by the lab of Prof. Marahiel from Marburg and ''P. luminescens'' that we bought from DSMZ. ccdB was amplified from pDONR-vector from Invitrogen. | ||
| − | + | ===References=== | |
| − | + | 1. Marahiel MA, Stachelhaus T, Mootz HD (1997) Modular Peptide Synthetases Involved in Nonribosomal Peptide Synthesis. Chem Rev 97:2651–2674.<br/> | |
| + | 2. Mootz HD, Schwarzer D, Marahiel MA (2000) Construction of hybrid peptide synthetases by module and domain fusions. Proc Natl Acad Sci USA 97: 5848–5853.<br/> | ||
| + | 3. Mootz HD, Marahiel MA (1997) The tyrocidine biosynthesis operon of Bacillus brevis: complete nucleotide sequence and biochemical characterization of functional internal adenylation domains. JBacteriol 179: 6843–6850.<br/> | ||
| + | 4. Finking R, Marahiel MA (2004) Biosynthesis of nonribosomal peptides. Annu Rev Microbiol 58: 453–488. | ||
Revision as of 00:07, 5 October 2013
Helper construct for NRP-Indigoidine-tagging
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal BglII site found at 3061
Illegal BamHI site found at 891 - 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 341
Illegal SapI.rc site found at 4324
Design Notes
BBa_K1152007 was assembled via Gibson Cloning out of four fragments. The modules that were required for the NRPS were amplified from B. parabrevis, P. luminescens an the pDONR-vector. There were no illegal restiction sites, neither in ccdB, nor in the C-domain of TycC2. However in indC, the gene that encodes for the Indigoidine synthetase, two illegal restriction sites (one for EcoRI, one for SpeI) had to be removed by mutagenesis. In order to change the Indigoidine-module from an initiation module to a subsequent module, it has to be put behind a C-domain. We selected the C-domain of TycC4-module, as it is specific for Glutamine, which is the subtrate for Indigoidine.
Source
Coding regions were amplified from genomes of B. parabrevis that was sent to us by the lab of Prof. Marahiel from Marburg and P. luminescens that we bought from DSMZ. ccdB was amplified from pDONR-vector from Invitrogen.
References
1. Marahiel MA, Stachelhaus T, Mootz HD (1997) Modular Peptide Synthetases Involved in Nonribosomal Peptide Synthesis. Chem Rev 97:2651–2674.
2. Mootz HD, Schwarzer D, Marahiel MA (2000) Construction of hybrid peptide synthetases by module and domain fusions. Proc Natl Acad Sci USA 97: 5848–5853.
3. Mootz HD, Marahiel MA (1997) The tyrocidine biosynthesis operon of Bacillus brevis: complete nucleotide sequence and biochemical characterization of functional internal adenylation domains. JBacteriol 179: 6843–6850.
4. Finking R, Marahiel MA (2004) Biosynthesis of nonribosomal peptides. Annu Rev Microbiol 58: 453–488.