Difference between revisions of "Part:BBa K4361018"

Revision as of 08:46, 10 October 2022

BlcR-binding oligo, 131 bp, (IR1 + IR2) x3

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.
To our understanding, one BlcR dimer contains two domains that allow for tetramerization, only one of which is used during tetramerization in vivo. Part:BBa_K4361015, Part:BBa_K4361016, and this part have been designed to show whether or not BlcR dimers are able to form multimers larger than tetramers when bound to DNA. To create this part, the original 3 nt linker sequence (tca), a copy of IR1, tca, and a copy of IR2 have been added twice to the 3' end of the original IR2. The BlcR-binding domain of this part thus consists of IR1-tca-IR2-tca-IR1-tca-IR2-tca-IR1-tca-IR2. As the distance between the centers of all IRs is still 20 nt, see also Usage and Biology below, this oligo theoretically allows for the correct orientation of six sequential BlcR dimers to bind to each other, resulting in a BlcR dodecamer.

Sequence and Features