Table 3.
A genome-scale analysis of 32 known DNA-binding sites of CRP in E.coli.K12 predicted using 1O3T (PDB ID)
| Sequence sources | Sequence | Maximal similarity to sequence fragments of 1o3t with 19 nt (%) | Rank in total 639 232 sequences | ||
|---|---|---|---|---|---|
| Z-score | Position | Top (%) | |||
| DNA sequence in 1o3t | GCGAAAAATGCGATCTAGATCGCATTTTTCG | — | — | — | — |
| CRP-binding sites 1 | AGTAATCTGCTTTATGCCT | 47.37 | 1.5025 | 33 144 | 5.1850 |
| CRP-binding sites 2 | TTCTTCGTCAAATTTATCA | 57.89 | 1.5254 | 31 178 | 4.8774 |
| CRP-binding sites 3 | AGTGTGGAAGTATTGACCA | 36.84 | 1.9167 | 9199 | 1.4391 |
| CRP-binding sites 4 | GTTGTTACAAACATTACCA | 36.84 | 1.4114 | 41 799 | 6.5389 |
| CRP-binding sites 5 | TGCGTGACGAAGTTGCCAA | 42.11 | 1.1646 | 72 996 | 11.4193 |
| CRP-binding sites 6 | TTTAAATTAACTTATGTAA | 42.11 | 2.4214 | 1017 | 0.1591 |
| CRP-binding sites 7 | AATGTGACGGCAATCGATT | 57.89 | 2.0021 | 6759 | 1.0574 |
| CRP-binding sites 8 | TAGTTGAACCAGGTCACAA | 52.63 | 2.2871 | 2064 | 0.3229 |
| CRP-binding sites 9 | CGTAATGTGATTTATGCCT | 52.63 | 2.0207 | 6359 | 0.9948 |
| CRP-binding sites 10 | TGTGCGGGCGTGATCACAA | 57.89 | 1.9889 | 7114 | 1.1129 |
| CRP-binding sites 11 | AAATTGATCCCTTTTTAAC | 57.89 | 2.1399 | 3991 | 0.6243 |
| CRP-binding sites 12 | TGTGTGACGAAGTAACCAC | 42.11 | 1.4588 | 37 138 | 5.8098 |
| CRP-binding sites 13 | ATAGAGATCTACTTCACAA | 63.16 | 2.4383 | 928 | 0.1452 |
| CRP-binding sites 14 | GTTGTCACTCTAATGATAA | 42.11 | 2.0646 | 5,427 | 0.8490 |
| CRP-binding sites 15 | TATGTGACCTGGCAGCCAA | 52.63 | 2.2324 | 2685 | 0.4200 |
| CRP-binding sites 16 | AGATTAACTTATGTAACAG | 36.84 | 1.8809 | 10 403 | 1.6274 |
| CRP-binding sites 17 | GTTATCGTGACCTGGATCA | 52.63 | 1.5356 | 30 406 | 4.7566 |
| CRP-binding sites 18 | ACGATTGTGATTCGATTCA | 52.63 | 2.1064 | 4587 | 0.7176 |
| CRP-binding sites 19 | AACGTGATCAACCCCTCAA | 57.89 | 2.1973 | 3139 | 0.4911 |
| CRP-binding sites 20 | AAATTTGAGAGTTGAATCT | 57.89 | 2.1134 | 4427 | 0.6925 |
| CRP-binding sites 21 | AGAGTGATATGTATAACAT | 57.89 | 2.1929 | 3209 | 0.5020 |
| CRP-binding sites 22 | CGTTTCGTGACAGGAATCA | 36.84 | 1.0437 | 92 717 | 14.5044 |
| CRP-binding sites 23 | AGGAATGCGATTCCACTCA | 57.89 | 2.2785 | 2136 | 0.3342 |
| CRP-binding sites 24 | CTTCTCGTGATCAAGATCA | 52.63 | 1.7621 | 15480 | 2.4217 |
| CRP-binding sites 25 | TTTTTCTTGCTTACCGTCA | 36.84 | 2.1998 | 3112 | 0.4868 |
| CRP-binding sites 26 | TGCGATGAATGTCACATCC | 63.16 | 1.6900 | 19 371 | 3.0304 |
| CRP-binding sites 27 | ATCGTGCTCGCTTTCACGC | 52.63 | 1.2674 | 58398 | 9.1357 |
| CRP-binding sites 28 | AAAATATAGATCTCCGTCA | 57.89 | 3.2175 | 2 | 0.0003 |
| CRP-binding sites 29 | CAATTTGCGACGCGTCTCA | 47.37 | 1.5920 | 25 926 | 4.0558 |
| CRP-binding sites 30 | ACTGTAAAAGGAAACATCA | 42.11 | 1.5288 | 30 907 | 4.8350 |
| CRP-binding sites 31 | AATTCAATATTCATCACAC | 63.16 | 2.9837 | 29 | 0.0045 |
| CRP-binding sites 32 | TTTGTGAAGGCTATTAGCC | 42.11 | 2.0571 | 5590 | 0.8745 |