Table 1 Representation of an example TFBS. Two sequence-based representations of the same TFBS, a consensus sequence and a position specific scoring matrix (PSSM). The example used here is the binding site of the early growth response protein 1 (EGR-1, Zif268), which is a zinc finger protein.
From: From sequence to structure and back again: approaches for predicting protein-DNA binding
CONSENSUS | T | G | C | G | T | G | G | G | C | G | |
|---|---|---|---|---|---|---|---|---|---|---|---|
POSITION | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | |
SCORING MATRIX | A | 5 | 7 | 0 | 2 | 0 | 31 | 0 | 0 | 13 | 0 |
| Â | C | 3 | 0 | 98 | 0 | 2 | 0 | 0 | 0 | 76 | 0 |
| Â | G | 5 | 93 | 0 | 98 | 14 | 69 | 100 | 100 | 0 | 100 |
| Â | T | 87 | 0 | 2 | 0 | 84 | 0 | 0 | 0 | 11 | 0 |