Table 1.
Sites involving cleavage on complementary DNA strands | ||
−1 +5 | ||
---|---|---|
CCCCAGCC CAAT CTAAGAAT | Site 1 | S fragment |
TAAGAATG AACT CTATCTAG | 2 | S fragment |
AGTTGAGG GGGA CTCTGCCG | 3 | S fragment |
TTGAGGGG GACT CTGCCGGT | 4 | S fragment |
CAAGGTCG TGAC CGCAAGTT | 5 | S fragment |
TTCCAGGC TATT CTACCTCT | 6 | S fragment |
CAGGCTAT TCTA CCTCTTCG | 7 | S fragment |
AGGCTATT CTAC CTCTTCGT | 8 | S fragment |
ATTCTACC TCTT CGTGGTAA | 9 | S fragment |
CCAAGATG GCGG ATATCCTC | 10 | S fragment |
CAAAAATG AAGA GATCAATA | 11 | S fragment |
GGTAGATG ACGA CCATCAGG | Site 1 | pBR322-1073 |
GCAGGTAG ATGA CGACCATC | 2 | pBR322-1070 |
GTAGATGA CGAC CATCAGGG | 3 | pBR322 |
GAGGCTGG ATGG CCTTCCCC | 4 | pBR322 |
CGCTTCCG GCGG CATCGGGA | 5 | pBR322 |
AGGCCATG CTGT CCAGGCAG | 6 | pBR322 |
CATCAGGG ACAG CTTCAAGG | 7 | pBR322 |
TTACCAGC CTAA CTTCGATC | 8 | pBR322 |
Sites with cleavage on one DNA strand | ||
AGATAGAG TTCA TTCTTAGC | Site 12 | S fragment |
GCCGGTGG TTCT GCCAAACA | 13 | S fragment |
TTTGGCAG AACC ACCGGCAG | 14 | S fragment |
AGCCAAGG CCAA GATGGCGG | 15 | S fragment |
GACCGCTG ATCG TCACGGCG | 9 | pBR322 |
CGGAAGCG AGAA GAATCATA | 10 | pBR322 |
ATAATGGG GAAG GCCATCCA | 11 | pBR322 |
DNA sequences surrounding the breakage point are shown for one strand of each double-stranded breakage site or for sites of single-stranded breakage promoted by clerocidin in the parE S fragment (31) and in pBR322 (905–1200 nt region). The central four nucleotides (+1 to +4) correspond to those in the 4-bp overhang produced by DNA breakage by gyrase. Preferred guanines at –1 and cytosines at +5 (indicating guanine at –1 on the complementary strand) are shown in boldface.