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The Shine-Dalgarno sequence (or Shine-Dalgarno box) is a ribosomal binding site (RBS) generally located 6-7 nucleotides upstream of the start codon AUG. The six-base consensus sequence is AGGAGG. in E. coli, the sequence is AGGAGGU. Note-In 'The metabolic pathway engineering handbook' (CRC Press), ed. C.D. Smolke 2010, Chapter 8.2.1, Win and Smolke write "The spacing between the RBS sequence and the start codon is also
essential, and while it typically ranges between five to eight nucleotides, the optimum spacing has been
shown to be five." (Chen et al 1994 PMID 7528374, where researchers inserted two series of synthetic RBSs of varying spacing and SD sequence into a plasmid vector containing the chloramphenicol acetyltransferase gene). See BNID 103091 |