Biochemistry 4th Edition by Christopher Mathews,Kensal van Holde, Dean Appling, Spencer Anthony Cahill

Exercise 6

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(a) Using the same shorthand as in Problem 3, show the complete structure of any one of the foregoing restriction cleavage sites (both strands and cutting sites).
(b) Which two of the cleavages shown will yield fragments that cannot be rejoined by E. coli DNA ligase Why not (Note: In vitro DNA ligase shows strong preference for sealing a staggered, rather than blunt-ended, cut.)
(c) Cleavage products from two of these reactions can readily be joined to one another by DNA ligase, even though the two enzymes recognize different sites. Which two
(d) If you wished to linearize a newly isolated plasmid DNA, which one of the sites shown would be least likely to be represented only once in that DNA molecule Assume that the DNA has equal proportions of the four nucleotides.