Table 2. Significant segments detected by TwinCons for protein composite alignments.
Sequence ranges for segments detected as significant with TwinCons and in parenthesis their respective distance from the decision boundary. Sum of all significant segment lengths for each alignment. HHalign E-value confidence results of aligning the group sequences. Number of aligned columns with HHalign; for each pair, each protein was used as template and the higher result is reported here. Figures that show detected segments in 3D are indicated under the alignment names. Indexing species for the indicated ranges and complete data for all query alignments are available in S9 Dataset.
| Composite alignment | TWC Segment residue ranges (Boundary dist.; prob.) | Total length | HHalign E-value | HH Range | HHalign aligned columns |
|---|---|---|---|---|---|
| IF2/EF-Tu P-loop | 10–35 (5.4; 100%) 95–145 (12.8; 100%) |
75 | 2.8e-29 | 16–181 | 140 |
| aIF5/EF-Tu (Fig J in S1 Appendix) | 8–32 (4.7; 100%) 95–141 (11.1; 100%) |
70 | 3.6e-22 | 15–274 | 237 |
| aL8/eS12 | 30–93 (10; 100%) | 63 | 5.1e-18 | 22–137 | 115 |
| RNAP7C/bS1 (Fig K in S1 Appendix) | 83–120 (8.2; 100%) | 37 | 3.6e-15 | 114–203 | 72 |
| aL8-aL30 | 22–66 (6.8; 100%) | 44 | 4.2e-15 | 32–124 | 91 |
| aL37-bL34 (Fig L in S1 Appendix) | 1–26 (5.7; 100%) | 25 | 0.39 | 51–51 | 1 |
| aL30-eS12 | 3–43 (4.1; 100%) | 40 | 7e-8 | 20–114 | 92 |
| aL14-eL27 | 4–30 (4.7; 100%) | 26 | 6.5e-9 | 3–66 | 64 |
| RNAP7C/bS1 Struct. based | 83–114 (2.1; 99%) | 31 | 1.2e-18 | 120–286 | 136 |
| aL42/bL33CP | 4–26 (1.3; 95%) | 22 | 3.1e-8 | 76–154 | 68 |
| aL42/bL33 | 3–31 (1.2; 93%) | 28 | 5.8e-5 | 101–122 | 20 |
| TyrRS/TrpRS | 38–63 (0.9; 89%) | 25 | 3.5e-28 | 118–287 | 151 |
| uL2/bL34 | 13–39 (0.81; 87%) | 26 | 0.064 | 77–107 | 30 |