Table 3.
Functional classification and taxonomic distribution of families containing both TAPs and their archaeal homologues. Definitions: TAP domain = phylogenetic domain (Archaea = ARC, Bacteria = BAC, Eukaryota = EUK) of the reference TAP sequences; Code = abbreviation of TAP domains (A = Archaea, B = Bacteria, E = Eukaryota); No. = number of families in each taxonomic grouping; percentage (%) = total number of TRIBE clusters; Functional classification = RNA Polymerase, Basal TFacs (basal transcription factors), Regulators (transcriptional regulators and DNA-binding proteins)—these classifications were derived from the SwissProt functional annotations of the TAPs that are present in the families of a particular TAP domain; Taxonomic distribution = Crenarchaeota (CREN), Euryarchaeota (EURY) or both (CREN & EURY)—lineage origins of the archaeal TAP-homologues within clusters of a particular TAP domain. In both these previous sections, each of the rows in the three columns that comprise the section, adds to 100% per TAP domain grouping—the number of families present in each category is shown in brackets.
| TAP domain | Code | No. | % | Functional classification | Distribution | ||||
| RNA Polymerase | Basal TFacs | Regulators | CREN | EURY | CREN & EURY | ||||
| ARC | A | 43 | 36.1% | 11.6% (5) | 7.0% (3) | 81.4% (35) | 16.3% (7) | 62.8% (27) | 20.9% (9) |
| BAC | B | 36 | 30.3% | - - | - - | 100.0% (36) | 2.8% (1) | 80.6% (29) | 16.7% (6) |
| ARC::BAC | AB | 18 | 15.1% | - - | - - | 100.0% (18) | - - | 44.4% (8) | 55.6% (10) |
| ARC::EUK | AE | 12 | 10.1% | 66.7% (8) | 25.0% (3) | 8.3% (1) | 8.3% (1) | 8.3% (1) | 83.3% (10) |
| ARC::BAC::EUK | ABE | 5 | 4.2% | 20.0% (1) | 40.0% (2) | 40.0% (2) | - - | 40.0% (2) | 60.0% (3) |
| BAC::EUK | BE | 4 | 3.4% | 25.0% (1) | - - | 75.0% (3) | - - | 75.0% (3) | 25.0% (1) |
| EUK | E | 1 | 0.8% | - - | 100.0% (1) | - - | - - | - - | 100.0% (1) |
| Total no. TRIBE clusters | 119 | 100.0% | (15) | (9) | (95) | (9) | (70) | (40) | |