Table 2. Functional category reassignment for poorly characterized COGs.
| Example | ||||
|---|---|---|---|---|
| Changea | Number of COGs | COG no. | Gene | New COG name, reference |
| S to known function | 294 | COG3681 | cdsB (yhaM) | L-cysteine desulfidase (50,51) |
| S to J | 37 | COG1617 | – | tRNA threonylcarbamoyladenosine modification (KEOPS) complex, Cgi121 subunit (52) |
| S to K | 25 | COG5503 | ykzG | DNA-dependent RNA polymerase auxiliary subunit epsilon (53) |
| S to T | 19 | COG1774 | yaaT | Cell fate regulator YaaT, PSP1 superfamily (controls sporulation, competence, biofilm development) (54) |
| S to R | 130 | COG0718 | ebfC (ybaB) | Conserved DNA-binding protein YbaB (function unknown) (55,56) |
| S to X | 32 | COG3645 | yoqD | Phage antirepressor protein YoqD, KilAC domain (57) |
| R to known function | 210 | COG1623 | disA | Diadenylate cyclase (c-di-AMP synthetase), DNA integrity scanning protein DisA (58,59) |
| R to J | 42 | COG0319 | ybeY | ssRNA-specific RNase YbeY, 16S rRNA maturation enzyme (60) |
| R to M | 18 | COG3107 | yraM | Outer membrane lipoprotein LpoA, binds and activates PBP1a (61–69) |
| R to X | 42 | COG3941 | gp42 | Phage tail tape-measure protein, controls tail length |
| R to S | 52 | COG3193 | glcG | Uncharacterized conserved protein GlcG, DUF336 family (64) |
aFunctional category designations are as in Table 1 with the following additions: K, transcription; M, cell wall/membrane/envelope biogenesis; T, signal transduction mechanisms; X, mobilome: phages and transposons.