Difference between revisions of "Part:BBa K4361013"
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<partinfo>BBa_K4361013 short</partinfo> | <partinfo>BBa_K4361013 short</partinfo> | ||
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| + | 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> | ||
| + | [[Part:BBa_K4361010]] up to this part have been designed to test whether or not the exact orientation of IRs influences the binding strength of BlcR to DNA. This is achieved by 'flipping' the IRs, or replacing them by their reverse complements. Additionally, to test if the order of IRs also influences binding strength, the order of IRs has been reversed in this part as well. Thus, to create this part, the nucleotides originally designated as belonging to IR1 have been replaced by the reverse complement of IR2 ('ATTAGagttcaaCTAAT', IR2 flip) and those of IR2 by the reverse complement of IR1 ('ACTTGAATcATTAGAGT', IR1 flip). The BlcR-binding domain of this part thus consists of IR2 flip-tca-IR1 flip, where tca is the original 3 nt linker sequence between IRs. | ||
Similar to BBa_K4361012, but swapping the sequences of inverted repeat pairs 1 and 2. | Similar to BBa_K4361012, but swapping the sequences of inverted repeat pairs 1 and 2. | ||
Revision as of 08:03, 10 October 2022
BlcR-binding oligo, 51 bp, IR2 flip + IR1 flip
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.
Part:BBa_K4361010 up to this part have been designed to test whether or not the exact orientation of IRs influences the binding strength of BlcR to DNA. This is achieved by 'flipping' the IRs, or replacing them by their reverse complements. Additionally, to test if the order of IRs also influences binding strength, the order of IRs has been reversed in this part as well. Thus, to create this part, the nucleotides originally designated as belonging to IR1 have been replaced by the reverse complement of IR2 ('ATTAGagttcaaCTAAT', IR2 flip) and those of IR2 by the reverse complement of IR1 ('ACTTGAATcATTAGAGT', IR1 flip). The BlcR-binding domain of this part thus consists of IR2 flip-tca-IR1 flip, where tca is the original 3 nt linker sequence between IRs.
Similar to BBa_K4361012, but swapping the sequences of inverted repeat pairs 1 and 2.
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
-
Results
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