RefProtDom: a protein database with improved domain boundaries and homology relationships.

ABSTRACT

UNLABELLED RefProtDom provides a set of divergent query domains, originally selected from Pfam, and full-length proteins containing their homologous domains, with diverse architectures, for evaluating pair-wise and iterative sequence similarity searches. Pfam homology and domain boundary annotations in the target library were supplemented using local and semi-global searches, PSI-BLAST searches, and SCOP and CATH classifications. AVAILABILITY: RefProtDom is available from http//faculty.virginia.edu/wrpearson/fasta/PUBS/gonzalez09a.