Table 3.
PV_SF domain occurrence in biosphere.
| SCOP/SF ID | Classification | SF/FOLD | Families/SF | Description | PV | Viruses 1 | Plasmids 2 | Archaea | Bacteria | Eukaryota | HMMER A | HMMER B | HMMER E | HMMER V 1 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 55464 | d.89.1 | 1 | 5 | Origin of replication-binding domain, RBD-like (E1 DBD) | 123 | 424/15 * | 420 | - | 134 | 8 | - | 4038 | 32 | 1563/169 * |
| 52540 | c.37.1 | 1 | 24 | P-loop containing nucleoside triphosphate hydrolases (E1 helicase) | 123 | 2346 | 19971 | 122 | 1153 | 440 | ND | ND | ND | ND |
| 51332 | b.91.1 | 1 | 1 | E2 regulatory, transactivation domain (E2 TAD) | 123 | - | - | - | - | - | - | - | - | - |
| 54957 | d.58.8 | 59 | 1 | Viral DNA-binding domain (E2 DBD) | 123 | 4 | - | - | - | - | - | - | - | 6 |
| 88648 | b.121.6 | 7 | 1 | Group I dsDNA viruses (L1) | 123 | 50/- * | - | - | - | - | - | - | - | 170/- * |
| 161229 | g.90.1 | 1 | 1 | E6 C-terminal domain-like | 115 | - | - | - | - | - | - | 1? | - | - |
| 161234 | g.91.1 | 1 | 1 | E7 C-terminal domain-like | 108 | - | - | - | - | - | - | - | - | - |
| 55464:52540 | DBD + helicase | 123 | 7 | 356 | - | 119 | 5 | - | ND | 10 | ||||
“-” No true positive hits were found. “ND” Not determined. “Underlined” Number of primary hits. “Bold” Number of true positive hits. * Number of true positives without Polyomaviridae, Parvoviridae and Geminiviridae. “?” Questionable result. 1 Excluding papillomaviruses. 2 Number of proteins. Non-redundant set of genomes contain 122 Archaeal, 1153 Bacterial, and 440 Eukaryotic species) (i.e., redundant strains and isolates removed). DBD: DNA-binding domain; TAD: transactivation domain. For more detailed information, see Table S3.