Table 2.
Sites Predicted to Affect Function Based on Their Location in the Three-Dimensional Structure.
| Gene | Positiona | Functional Informationb | Site Identified byc | Reference Three-Dimensional model |
| TLR1 | 284 | Adjacent to site involved in ligand binding | M8 (<0.9) | Jin et al. (2007) |
| 303 | Adjacent to site involved in ligand binding | M8 (<0.9) | ||
| 308 | Adjacent to site involved in ligand binding | REL, FEL, M8 (<0.9) | ||
| 313d | Ligand binding | REL, FEL, M8 (<0.9) | ||
| 321d | Dimerization surface (ionic interaction) | REL, FEL, M8 | ||
| 337d | Dimerization surface (ionic interaction and hydrogen bond) and adjacent to site involved in ligand binding | M8 (<0.9) | ||
| TLR2 | 267 | Adjacent to site involved in ligand binding | REL, M8 (<0.9) | Jin et al. (2007) |
| 294d | Ligand binding | M8 (<0.9) | ||
| 296 | Adjacent to site involved in ligand binding | M8 (<0.9) | ||
| 270d | Ligand binding | M8 (<0.9) | ||
| 318d | Dimerization surface (ionic interaction) and adjacent to site involved in ligand binding | M8 (<0.9) | ||
| 321d | Dimerization surface (ionic interaction) | REL, M8 | ||
| 324d | Dimerization surface (hydrophobic interaction) | REL, M8 (<0.9) | ||
| 326d | Dimerization surface (hydrophobic interaction) | REL, M8 (<0.9) | ||
| 329 | Adjacent to site involved in ligand binding | M8 (<0.9) | ||
| 338d | Ligand binding | M8 (<0.9) | ||
| 354 | Adjacent to site involved in ligand binding | FEL, REL, M8 (<0.9) | ||
| 373d | Dimerization surface (hydrophobic interaction) | M8 (<0.9) | ||
| 376 | Adjacent to site involved in dimerization surface (hydrogen bond) | REL, M8 | ||
| TLR3 | 86d | Ligand binding | REL, M8 (<0.9) | Liu et al. (2008) |
| TLR4 | 295 | Adjacent to site involved in ligand binding | SLAC, FEL, REL, M8 (<0.9) | Park et al. (2009) |
| 296d | Ligand binding | REL, M8 (<0.9) | ||
| 297 | Adjacent to site involved in ligand binding | REL, M8 | ||
| 339 | Adjacent to site involved in interaction with MD2 (hydrogen bond) | REL, M8 (<0.9) | ||
| 341d | Ligand binding and interaction with MD2 (ionic interaction) | REL, M8 (<0.9) | ||
| 415 | Adjacent to site involved in interaction with MD2 (hydrogen bond) | REL, M8 (<0.9) | ||
| 437 | Adjacent to site involved in ligand binding and interaction with MD2 | FEL, REL, M8 | ||
| TLR6 | 315d | Dimerization surface | REL, M8 (<0.9) | Jin et al. (2007) |
| TLR8 | 491 | Adjacent to predicted site involved in ligand binding | M8 (<0.9) | Wei et al. (2009) |
| TLR9 | 484 | Adjacent to predicted site involved in ligand binding | M8 (<0.9) | Wei et al. (2009) |
a
Relative to human protein sequence.
b
Based on structural information from crystallographic studies or homology modeling.
c
Sites identified by model M8 in CODEML but with posterior probabilities <0.90 (not reported in table 1) were included here.
d
Sites more likely to affect function based on location in protein structure.
Sites identified by more than one method from table 1 are underlined.