Table 1
From: Phylogenomic analysis of the GIY-YIG nuclease superfamily
Family | Subfamily | No. of members | A | B | E | V | O | Characteristic structural features |
|---|---|---|---|---|---|---|---|---|
UvrC-like | UvrC | 318 | 8 | 310 | - | - | - | CTD: C4-UvrBb-EndoV-HhH |
| Â | Cho | 20 | - | 20 | - | - | - | CTD: C4-ChoCTD |
| Â | Cho+Exo | 18 | - | 18 | - | - | - | CTD: C4-ChoCTD, NTD: ExoIII |
| Â | Cho-like | 1 | - | 1 | - | - | - | CTD: C4-UvrBb |
| Â | Cho-like+Exo | 11 | - | 11 | - | - | - | CTD: C4-UvrBb, NTD: ExoIII |
| Â | Bacillus1&2 | 10 | - | 10 | - | - | - | NTD&CTD: unknown conserved domains |
HEases | orthodox | 91 | - | 10 | - | 27 | 54 | CTD: Different patterns of NUMODs |
| Â | unorthodox | 12 | - | 9 | 3 | - | - | no NUMODs, other domains sometimes present |
COG1833 | orthodox | 20 | 15 | 5 | - | - | - | CTD: His/Cys-rich |
| Â | EndoIII-fusion | 2 | 2 | - | - | - | - | CTD: His/Cys-rich, NTD: Endonuclease III |
COG3680 | Eukaryota | 15 | - | - | 15 | - | - | NTD: ankyrin repeats, LEM |
| Â | Bacteria | 9 | - | 9 | - | - | - | CTD: unknown conserved domain |
Penelope | 10 | - | - | 10 | - | - | NTD: RVT | |
REases | 5 | - | 5 | - | - | - | GIY-YIG with insertions and terminal extensions | |
Slx1 | orthodox | 30 | - | - | 30 | - | - | no C-terminal Asn, CTD: RING finger |
| Â | MutS-fusion | 2 | - | - | 2 | - | - | no C-terminal Asn, NTD: MutS domain |
| Â | non-Eukaryota | 208 | 2 | 191 | - | 15 | - | no C-terminal Asn |
Total: | 782 | 27 | 599 | 60 | 42 | 54 | Â | |