Protein Alignment

This program applies the hit-and-extension method to allocate the local high scoring pairs between 2 protein sequences. It allows to extend one gap up to as long as user's request. The “hit” step is similar to which is applied in NCBI's BLAST. The “extension” step is somewhat brand new.

View three examples as query sequences against NCBI protein database (Homo Sapiens).

1. View gi|118907|sp|P22346|PEPX_LACLC Xaa-Pro dipeptidyl-peptidase (X-Pro dipeptidyl-peptidase) (X-prolyl-dipeptidyl aminopeptidase) (X-PDAP)

2. View gi|1345731|sp|P49454|CENF_HUMAN CENP-F kinetochore protein (Centromere protein F) (Mitosin) (AH antigen)

3. View gi|401055|sp|P30957|RYR2_RABIT Ryanodine receptor 2 (Cardiac muscle-type ryanodine receptor) (RyR2) (RYR-2) (Cardiac muscle ryanodine receptor-calcium release channel)

Download the executable compiled for Linux (RedHat 9.0).