Table 6.
Sequence and structural homology-based prediction of damaging coding nonsynonymous SNPs in the RelA gene using SIFT and PolyPhen-2
| NO | Substitution | SIFT prediction | PolyPhen-2 prediction | ||
|---|---|---|---|---|---|
| Score | prediction | Score | Effect | ||
| 1 | P374-S | 0.005 | Damaging | 0.999 | Probably damaging |
| 2 | L437-P | 0.11 | Tolerated | 0.002 | Benign |
| 3 | T448-S | 0.01 | Damaging | 0.952 | Probably damaging |
| 4 | L455T | 0.005 | Damaging | 0.288 | Benign |
| 5 | T460-N | 0.52 | Tolerated | 0.507 | Possibly damaging |
| 6 | P462-R | 0.01 | Damaging | 0.999 | Probably damaging |
| 7 | V464-Q | 0.02 | Damaging | 0.985 | Probably damaging |
| 8 | T466-R | 0.005 | Damaging | 0.791 | Possibly damaging |
| 9 | Q478-H | 0.0 | Damaging | 0.998 | Probably damaging |
| 10 | A491-G | 0.06 | Tolerated | 0.001 | Benign |
| 11 | L495-E | 0.01 | Damaging | 0.999 | Probably damaging |
| 12 | P499-Q | 0.0 | Damaging | 1.00 | Probably damaging |
| 13 | A501-G | 0.06 | Tolerated | 0.770 | Possibly damaging |
| 14 | S509-K | 0.0 | Damaging | 0.770 | Possibly damaging |
| 15 | P513-L | 0.07 | Tolerated | 0.836 | Possibly damaging |
| 16 | P517-T | 0.21 | Tolerated | 1.00 | Possibly damaging |