RADS (radscan) 0.5.7 / RAMPAGE
RADS is a program to detect homology of proteins by comparing the domain arrangements of proteins. In RADS, amino acid sequences are not directly compared between your query and the proteins in the database. Instead, RADS examines the protein domains (from Pfam database) present in the protein and looks up in our local database which proteins have a similar arrangement of domains.
RAMPAGE uses RADS to create a pairwise alignement. First, matching domains are found by RADS. Then, RAMPAGE aligns first the matched domains, and then all other regions of the two sequences. Finally, the aligned fragments are put together.
Bornberglab – Bioinformatics at the IEB
- Windows/Linux / MacOsX
:: MORE INFORMATION
Bioinformatics. 2014 Jan 15;30(2):274-81. doi: 10.1093/bioinformatics/btt379. Epub 2013 Jul 4.
Rapid similarity search of proteins using alignments of domain arrangements.
Terrapon N1, Weiner J, Grath S, Moore AD, Bornberg-Bauer E.