Difference between revisions of "Part:BBa K4361007"
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<partinfo>BBa_K4361007 short</partinfo> | <partinfo>BBa_K4361007 short</partinfo> | ||
− | + | BlcR is a transcription factor originating from the bacterium <i>Agrobacterium tumefaciens</i> ([[Part:BBa_K4361100]]). In a homodimer state it contains a single DNA-binding domain that specifically binds one of two DNA sequences. Both sequences are so-called inverted repeat pairs (IRs), short DNA sequences whose ends are reverse complements of each other. For the Blc operator, these sequences are 'ACTCTAATgATTCAAGT' (IR1) and 'ATTAGttgaactCTAAT' (IR2), as further explained in [[Part:BBa_K4361001]]. <br> | |
+ | In the original binding sequence, only the outer 5 nucleotides on each end of IR2 form the inverted repeat, whereas the outer 8 nucleotides form the repeat in IR1. This part has been designed to test whether or not shortening the complementary sequences on each end of IR1 would increase the binding strength between BlcR and DNA. To create this part, nucleotides 6-12 of IR1 have been replaced by those of IR2, resulting in 'ACTCTttgaactCAAGT' (IR1 outer 5). | ||
+ | The original IR1 sequence is not a perfect reverse complement of itself. The BlcR-binding domain of this part thus consists of IR1 outer 5-tca-IR2, where tca is the original 3 nt linker sequence between IRs. | ||
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Revision as of 07:41, 10 October 2022
BlcR-binding oligo, 51 bp, IR1 outer 5 + IR2
BlcR is a transcription factor originating from the bacterium Agrobacterium tumefaciens (Part:BBa_K4361100). In a homodimer state it contains a single DNA-binding domain that specifically binds one of two DNA sequences. Both sequences are so-called inverted repeat pairs (IRs), short DNA sequences whose ends are reverse complements of each other. For the Blc operator, these sequences are 'ACTCTAATgATTCAAGT' (IR1) and 'ATTAGttgaactCTAAT' (IR2), as further explained in Part:BBa_K4361001.
In the original binding sequence, only the outer 5 nucleotides on each end of IR2 form the inverted repeat, whereas the outer 8 nucleotides form the repeat in IR1. This part has been designed to test whether or not shortening the complementary sequences on each end of IR1 would increase the binding strength between BlcR and DNA. To create this part, nucleotides 6-12 of IR1 have been replaced by those of IR2, resulting in 'ACTCTttgaactCAAGT' (IR1 outer 5).
The original IR1 sequence is not a perfect reverse complement of itself. The BlcR-binding domain of this part thus consists of IR1 outer 5-tca-IR2, where tca is the original 3 nt linker sequence between IRs.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Usage and biology
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Results
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