Table 2.
Streptomyces genes or gene clusters that frequently contain TTA codons*
| SCO number of gene *asterisk means TTA codons are absent from the S. coelicolor gene | Function | Fraction of TTA-containing orthologues among 14 Streptomyces genomes (see note) | K. setae orthologue, accepting > 40% identity (TTA present?) |
|---|---|---|---|
| 0381*;0382*;0383 | Enzymatic modifications | 6/12; 5/9; 2/10 | – |
| 0683*;0684*;0685* | Unknown | 2/12; 4/13; 2/13 |
67090 (–) *67100 (–) *67110 (–) |
| 1187(celB);1188* (celS2*) | Cellulose utilisation | 6/13; 7/14 | – *59340 (–) |
| 1242 | DNA-binding regulatory protein (WhiJ-like) | 9/11 | 58780 (–) |
| 1256* | Unknown | 6/10 | – |
| 1434 | Secreted AAA ATPase | 8/13 | 11520 (–) |
| 1592 | ADPribose pyrophosphatase | 8/12 | 41440 (–) |
| 1980 | Possible antisigma factor (AbaA-like) | 9/14 | – |
| 2426 | Regulatory | 8/14 | – |
| 2567*; 2568* | Competence operon | 3/11; 5/13 |
25860 (TTA) *25870 (–) |
| 2792 (adpA) | Major developmental regulator | 14/14 | 26930 (TTA) |
| 3195* | Unknown | 5/14 | – |
| 3423 | Possible antisigma factor (AbaA-like) | 12/14 | 17120 (TTA) |
| 3550* (widespread among actinobacteria) | Helicase | 6/14 | 35850 (–) |
| 3919* (abaB*) | LysR-like regulator of antibiotic biosynthesis | 7/13 | – |
| 3943* (rstP*) | LacI-like regulator | 5/14 | 40040 (–) |
| 4114 (widespread among actinobacteria) | Sporulation-associated protein (ankyrin-like repeats) | 9/14 | 43220 (–) |
| 4263 | LuxR-like regulator | 8/11 | – |
| 4395 | Hydroxylase | 12/14 | – |
| 5203 | 6/14 | 49090 | |
| 5460 | Possible antisigma factor (AbaA-like) | 6/14 | 50850 (TTA) |
| 5495 | Cyclic di-GMP cyclase/phosphodiesterase | 7/14 | 51100 (TTA) |
| 5970 | 6/13 | 26520 | |
| 6156* | Possible antisigma factor (AbaA-like) | 5/14 | 19600 (–) |
| 6245* | Unknown | 5/13 | – |
| 6476 | Unknown | 7/14 | – |
| 6681(amfC); 6685* (amfR*) | SapB biosynthetic enzyme; regulator of SapB biosynthesis | 2/12; 7/12 | – |
| 7251 | Possible phosphotransferase | 10/12 | 16190 |
| 7465 (cvnC13) | Component of conservon | 9/12 | 37840 (TTA) |
*
Throughout, examples included had a TTA codon in at least five genomes other than S. coelicolor (arbitrarily chosen as a level likely to indicate adaptive value). The table includes gene clusters likely to share a physiological role, selected because of the frequent occurrence of a TTA codon in one or another gene of the cluster.