Table 2. Type II R-M systems in H.pylori J99 strain.
| JHP (ORF) | Annotation | Putative function | Function confirmed | Name |
|---|---|---|---|---|
| 42 | – | ENase | – | |
| 43 | 37% with M.DpnA, N6-A | MTase | +, m6A | M.Hpy99V |
| 45 | 45% with M.Tsp45I, N6-A | MTase | +, m6A | M.Hpy99II |
| 46 | – | ENase | +, (Tsp45I) | Hpy99II |
| 84 | 51% with R.MboI | ENase | Inactive ENase | |
| 85 | 60% with M.MboI, N6-A | MTase | +, m6A | M.Hpy99VI |
| 247 | – | ENase | – | |
| 248 | 28% with M.ScaI, N4-C | MTase | +, m4C | M.Hpy99VIII |
| 430 | 40% with M.VspI, N6-A | MTase | Inactive MTase | |
| 431 | – | ENase | – | |
| 433 | 29% with M.FokI, N6-A | MTase | Inactive MTase | |
| 434 | – | ENase | – | |
| 435 | 37% with M.HphI, 5-C | MTase | +, m5C | M.Hpy99XI |
| 436 | – | ENase | – | |
| 629 | 38% with M.CfrBI, N4-C | MTase | +, m4C | M.Hpy99IV |
| 630 | 25% with R.CfrBI | ENase | +, (BsaJI) | Hpy99IV |
| 755 | – | ENase | +, (new) | Hpy99I |
| 756 | 45% with BamHI, N4-C | MTase | +, m4C | M.Hpy99I |
| 845 | – | ENase | – | |
| 846 | 33% with M.HindII, N6-A | MTase | Inactive MTase | |
| 1012 | 31% with M.CviQI, N6-A | MTase | Inactive MTase | |
| 1013 | – | ENase | – | |
| 1049 | – | ENase | +, (HhaI) | Hpy99III |
| 1050 | 36% with M.Bsp6I, 5-C | MTase | + | M.Hpy99III |
| 1131 | 60% with M.NlaIII, N6-A | MTase | + | M.Hpy99X |
| 1270 | – | ENase | Inactive ENase | |
| 1271 | 62% with M.HifI, N6-A | MTase | +, m6A | M.Hpy99IX |
| 1364 | 31% with BcgI.B | S | – | |
| 1365 | 28% with BcgI.A | RM | Inactive RM | |
| 1442 | 37% with MboII | ENase | Inactive ENase |
MTase, DNA methylase; ENase, restriction endonuclease; S, specificity subunit. The active R-M systems are highlighted in bold type. Inactive ENase or MTase indicates an ORF with similarity to a known endonuclease or methylase but no function was detected. +, function detected; –, no function detected.