Table 1. Radical SAM superfamily.
| Proteina |
Sequenceb |
Function |
Clusterc |
mBEd |
Reference |
| NifB | 18 | Nitrogenase cofactor (FeMoCo) | 2 | 9e-25 | (33) |
| MiaB branch | 53 | (Two known functions) | 3 | 0.001 | |
| MiaB | 17 | Methylthiolation of tRNA | 45 | 8e-42 | (34) |
| Nclk-binding | 6 | Cdk5 activator binding | 45 | 3e-59 | (36) |
| BioB/LipA | 46 | Biotin and lipoic acid synthases | 4 | >1 | |
| BioB | 20 | Sulfur transfer to dethiobiotin | 5 | 3e-8 | (7) |
| LipA | 26 | Sulfur transfer to octanoate | 5 | 9e-29 | (9) |
| HemN branch | 40 | Heme biosynthesis | 8 | 0.028 | |
| HemN | 19 | Coproporphyrinogen III oxidase | 37 | 3e-24 | (38) |
| HemN-like | 21 | Coproporphyrinogen III oxidase | 37 | 1e-8 | (29) |
| PhuW | 6 | Associated with virulence | 85 | 1e-8 | (30) |
| MoaA | 28 | Pterin formation in molybdopterin | 14 | 8e-19 | (65) |
| PflA | 7 | Pyruvate formate-lyase activation | 17 | 7e-42 | (11) |
| BchE | 3 | Bacteriochlorophyll | 18 | 2e-91 | (39) |
| Best5 | 3 | Eukaryotic interferon-inducible | 23 | 1e-101 | (46) |
| PqqE | 6 | Pyrroloquinoline quinone | 25 | 1e-44 | (44) |
| ThiH | 4 | Thiazole ring formation in thiamin | 27 | 4e-31 | (32) |
| SplB | 2 | Spore photoproduct lyase | 34 | 1e-127 | (59) |
| DesII | 3 | Desosamine moiety in antibiotics | 34 | 1e-84 | (56) |
| AtsB | 7 | Formylglycine in sulfatases | 43 | 9e-12 | (42) |
| Cmo | 3 | Putative cofactor modification | 46 | 1e-79 | (67) |
| NirJ | 10 | Heme d1 biosynthesis | 46 | 5e-16 | (41) |
| BssD | 8 | Benzylsuccinate synthase | 53 | 3e-5 | (58) |
| ExsD | 12 | Succinoglycan production | 60 | 5e-6 | (62) |
| NrdG | 6 | Anaerobic ribonucleotide reductase | 61 | 0.0001 | (10) |
| SpcY | 2 | Spectinomycin biosynthesis | 82 | 7e-14 | (49) |
| AlbA | 6 | Subtilosin biosynthesis | 83 | 0.05 | (50) |
| SanA | 1 | Nikkomycin biosynthesis | 93 | – | (51) |
| P-methylase | 2 | Bialaphos biosynthesis | 101 | 0.013 | (53) |
| MitD | 1 | Mitomycin C biosynthesis | 102 | – | (45) |
| MmcD | 3 | Mitomycin C biosynthesis | 108 | 1e-11 | (45) |
| OxsB | 3 | Oxetanocin biosynthesis | 108 | 1e-11 | (52) |
| Methylases | 2 | Fortimicin, fosfomycin | 130 | 1e-129 | (53) |
| LAM | 2 | Lysine 2,3-aminomutase | 155 | 2e-7 | (13) |
Included are protein groups that appear in the dendrogram with an mBE value of <1.0 and contain a protein associated with any biochemical data. The number of sequences in the group and the level in the dendrogram (number of clusters) at which the group appears are listed.
aProtein with biochemical information used to define group.
bNumber of sequences in group.
cLevel in the dendrogram (number of clusters) at which the group appears.
dmBE value as a measure of cluster cohesion in the group.