Table 5 BLAST Substitution Matrices and Gap Costs used for BLASTP searches in this paper.
From: HomPPI: a class of sequence homology based protein-protein interface prediction methods
Query Length | Substitution Matrix | Gap Costs |
|---|---|---|
<35 | PAM-30 | (9,1) |
35-50 | PAM-70 | (10,1) |
50-85 | BLOSUM-80 | (10,1) |
85 | BLOSUM-62 | (10,1) |