Tests multiple sequence alignment methods. PREFAB is a test set which exploits methodology, test data and statistical methods that have previously been applied to alignment accuracy assessment. It contains (i) a set of reference pair alignments, (ii) samples of sequences for testing multiple alignment programs and (iii) a program of assessing the quality of work of multiple alignment programs.
Provides high quality reference alignments based on 3D structural superpositions. BAliBASE is a large scale benchmarks specifically designed for multiple sequence alignment. The alignment test cases are manually refined to ensure the correct alignment of conserved residues. The alignments are organized into reference sets designed to represent real multiple alignment problems.
Gathers comparison of protein structures. DBAli is a database that contains pairwise and multiple structure alignments of protein structures in the Protein Data Bank (PDB). It also includes five tools that use the structural relationships in the repository. These tools can be employed to annotate the functions of protein structures whose functions are not yet known. The database also provides links to the MODBASE, LigBase, PIBASE, PDB, CATH, SCOP, PFamA, InterPro, Enzyme and GO databases.
Contains a collection of manually curated structural alignments and their inter-relationships. The multiple alignments are constructed for protein structural regions that range from oligomeric biological units, or individual domains to fragments of different size. The SISYPHUS multiple alignments are displayed with SPICE, a browser that provides an integrated view of protein sequences, structures and their annotations.