| Superfamily ID | Domain name | NCBI ID | Description | Gene name | Product length | Assembly | Seq type | Genomic accession | Start | End | Strand |
| cl00083 | HNHc (WHH) | WP_000065894.1 | putative endonuclease YhhZ | b3442 | 392 | GCF_000005845.2 | chromosome | NC_000913.3 | 3581863 | 3583041 | + |
| cl00083 | HNHc (WHH) | WP_003112476.1 | pyocin-S2 | PA1150 | 689 | GCF_000006765.1 | chromosome | NC_002516.2 | 1243594 | 1245663 | + |
| cl00083 | HNHc (WHH) | WP_000107153.1 | WXG100 family type VII secretion target | GBAA_RS29195 | 410 | GCF_000008445.1 | plasmid | NC_007322.2 | 160278 | 161510 | + |
| cl00083 | HNHc (WHH) | WP_238380304.1 | HNH endonuclease | STROP_RS05325 | 2256 | GCF_000016425.1 | chromosome | NC_009380.1 | 1194970 | 1201740 | + |
| cl00083 | HNHc (WHH) | WP_012859918.1 | polymorphic toxin-type HINT domain-containing protein | STERM_RS21515 | 701 | GCF_000024405.1 | chromosome | NC_013517.1 | 486915 | 489020 | + |
| cl00083 | HNHc (WHH) | WP_012239590.1 | HNH endonuclease | SCE_RS56520 | 400 | GCF_000067165.1 | chromosome | NC_010162.1 | 9740750 | 9741952 | - |
| cl00083 | HNHc (WHH) | WP_157907141.1 | HNH endonuclease | SCE_RS56525 | 3403 | GCF_000067165.1 | chromosome | NC_010162.1 | 9744238 | 9754449 | - |
| cl00083 | HNHc (WHH) | WP_004164647.1 | PAAR domain-containing protein | EAMY_RS28990 | 1426 | GCF_000091565.1 | chromosome | NC_013961.1 | 2604838 | 2609118 | + |
| cl00083 | HNHc (WHH) | WP_242655284.1 | HNH endonuclease | CLOCEL_RS17945 | 198 | GCF_000145275.1 | chromosome | NC_014393.1 | 4359174 | 4359770 | - |
| cl00083 | HNHc (WHH) | WP_013318569.1 | DUF6531 domain-containing protein | DDA3937_RS13755 | 1436 | GCF_000147055.1 | chromosome | NC_014500.1 | 3131418 | 3135728 | - |