Table 1.
Initiator recognition sequences in bacterial and archaeal oriCs
| Site | Affinity | |
|---|---|---|
| Bacteria representative DnaA boxes | ||
| Escherichia coli | ||
| TGTGGATAA | R1/R4 | High |
| TGTGTATAA | R2 | High |
| TGTCAGGAA | C1 | Low |
| TGTGAATGA | R5 | Low |
| TGGGATCAG | I2 | Low with DnaA-ATP preference |
| TTGGATCAA | I3 | Low with DnaA-ATP preference |
| GGTGATCCT | τ2 | Low with DnaA-ATP preference |
| AAAGAACAA | C3 | Low with DnaA-ATP preference |
| ACCGTATAA | I1 | Low with DnaA-ATP preference |
| GGTAGTTAT | C2 | Low with DnaA-ATP preference |
| Caulobacter crescentus | ||
| TGTGGATCA | G1 | Medium |
| TGTTAATCA | G2 | Medium |
| TCATCCCCA | W1 | Low |
| TCATCCCCA | W2 | Low |
| GCATCCCCC | W3 | Low |
| GAATCCCGA | W4 | Low |
| TCATCCCCA | W5 | Low |
| Mycobacterium tuberculosis | ||
| TGTGAGTGT | 3A | |
| TGTGCACAC | 3 | |
| TGTGCGCGG | 3B | |
| TGTGAACGG | 4 | |
| TGTGGGGTG | 6 | |
| TGTGGATGA | 8 | |
| TGTCCCCAA | 9 | |
| TGTGCAGTT | 10 | |
| Bacillus subtilis | ||
| oriII region | ||
| TGTGGATAA | ||
| TGTGAAAAA | ||
| TGTGGACAG | ||
| TGTGTATGA | ||
| TGTGAATAA | ||
| Helicobacter pylori | ||
| TGTCTATAA | H1 | |
| TGTGAATGA | H2/H3 | |
| TCATTCACC | H4 | |
| CGTGAATAA | H5 | |
| Representative archaeal miniORB (as 12-mer) and ORB sites (as 23-mer) | ||
| Pyrococcus furiosus | ||
| TTCCAATGGAGA | ||
| TTCCTCTGGAAA | ||
| TTCCAGTGGAAA | ||
| CTCCAGTGGAAATGAAACTCTGG(ORB2) | ||
| Aeropyrum pernix | ||
| CTCCACAGGAAA | ||
| CTCCAGAGGAAC | ||
| ATCCAGCGGAAA | ||
| CTCCACAGGAAACGGAGGGGTCG (ORB4) | ||
| Sulfolobus solfataricus | ||
| CTCCAGTGGAAA | ||
| TTCCAAACGAAA | ||
| TTCCAGAGGAAA | ||
| TTCCAGAGGAAATAGATGGGTCC (ORB3 in oriC1) | ||
| Methanothermobacter thermoautotrophicus | ||
| TTACAGTTGAAA | ||
| TTACACTTGAAA | ||
| TTACAGTTGAAC | ||