TABLE 3.
Conservation of RNA transcription proteins in Acinetobacter spp.
| Protein | Function | Protein length (amino acids)a | % Sequence identity (residue range) |
Essentialityd | Homologs with known structuresb (residue range of sequence match; % sequence identity) | Known protein-protein interactions in E. coli | Reference(s) | ||
|---|---|---|---|---|---|---|---|---|---|
| A. baylyi vs E. colib | A. baumannii vs E. colic | A. baylyi vs A. baumanniib | |||||||
| RpoA | RNAP, α subunit | 335 | 66 (1-324) | 66 (1-324) | 99 (1-335) | A, P, E | E. coli (1-235; 60), Thermus aquaticus (24-312; 39) | RpoB, RpoC, RpoZ | 33, 276 |
| RpoB | RNAP, β subunit | 1,362 | 70 (1-1360) | 70 (1-1360) | 92 (1-1362) | A, P, E | Thermus thermophilus (13-219; 44/357-938; 52/1055-1357; 53) | RpoA, RpoC, RpoD, RpoH, RpoN, RpoZ, NusA, Mfd | 60, 198, 269, 276 |
| RpoC | RNAP, β′ subunit | 1,413 | 71 (17-1386) | 70 (1-1370) | 97 (1-1380) | A, P, E | T. aquaticus (37-1044; 50/1145-1374; 47) | RpoA, RpoB, RpoD, RpoH, RpoN, RpoZ, NusG | 174, 178, 276 |
| RpoD | RNAP sigma 70 factor | 629 | 60 (5-628) | 59 (5-289) | 95 (1-628) | A, P, E | T. thermophilus (97-182; 34/359-627; 61) | RpoB, RpoC | 272, 276 |
| RpoE | RNA polymerase sigma 70 factor, ECF subfamily | 206 | 26 (31-197) | 25 (55-195) | 100 (1-206) | E | —e | RpoB, RpoC | 94 |
| RpoH | RNAP sigma factor 32 | 289 | 58 (5-288) | 59 (5-289) | 95 (1-288) | A, P, E | — | RpoB, RpoC | 94 |
| RpoN | RNAP sigma factor 54 | 482 | 46 (1-482) | 47 (1-482) | 81 (1-482) | D | A. aeolicus (429-480; 61) | RpoB, RpoC | 68, 94 |
| RpoS | RNAP sigma factor 38 | — | — | — | — | D | — | RpoB, RpoC | 94 |
| RpoZ | RNAP, ω subunit | 93 | 54 (1-64) | 54 (1-64) | 93 (1-93) | D | T. thermophilus (1-67; 30) | RpoA, RpoB, RpoC | 276 |
| GreA | Transcription elongation factor, cleaves 3′ nucleotide of paused mRNA | 158 | 68 (1-155) | 70 (1-146) | 93 (1-146) | D | E. coli (1-158; 68) | RpoC | 152, 238 |
| GreB | Transcription elongation factor and transcript cleavage | 157 | 61 (1-155) | 67 (1-159) | 58 (1-158) | D | E. coli (1-155; 61) | RpoC | 152, 252 |
| DksA | DnaK suppressor protein | 179 | 62 (41-179) | 63 (42-186) | 87 (7-186) | D | E. coli (41-179; 62) | RpoC | 201, 205 |
| NusA | Transcription elongation factor NusA (N utilization substance protein A) | 494 | 52 (1-493) | 53 (1-493) | 94 (1-494) | A, P, E | T. maritima (1-344; 40) | RpoB, phage λ N protein | 212, 264, 269 |
| NusB | Transcription termination, L factor (N utilization substance protein B) | 149 | 44 (19-145) | 44 (19-145) | 91 (1-148) | P | E. coli (19-145; 44) | NusE | 5, 152 |
| NusE | 30S ribosomal protein S10 | 108 | 83 (6-108) | 83 (1-108) | 99 (1-108) | A, P, E | E. coli (6-108; 83) | NusB | 164 |
| NusG | Transcription antitermination protein | 177 | 61 (2-176) | 59 (2-176) | 96 (1-177) | A, P, E | E. coli (2-176; 61) | RpoC, Rho | 153, 178, 232, 239 |
| Mfd | Transcription-repair coupling protein | 1,171 | 50 (30-1165) | 50 (14-1147) | 86 (1-1153) | D | E. coli (30-1163; 50) | RpoB | 60, 198 |
| Rho | Transcription termination factor Rho | 422 | 77 (1-418) | 77 (1-418) | 98 (1-421) | E, P | E. coli (1-418; 77) | NusG | 153, 232, 246 |