THE SBASE PROTEIN DOMAIN LIBRARY, RELEASE 2.0 - A COLLECTION OF ANNOTATED PROTEIN-SEQUENCE SEGMENTS

SBASE 2.0 is the second release of SBASE, a collection of annotated protein domain sequences. SBASE entries represent various structural, functional, ligand-binding and topogenic segments of proteins [Pongor,S. et al. (1993) Prot. Eng., in press]. This release contains 34,518 entries provided with standardized names and it is cross-referenced to the major protein and nucleic acid databanks as well as to the PROSITE catalog of protein sequence patterns [Bairoch,A. (1992) Nucl. Acids Res., 20 suppl, 2013 - 2018]. SBASE can be used for establishing domain homologies using different database-search tools such as FASTA [Lipman and Pearson (1 985) Science, 227, 1436 - 1441 ], FASTDB [Brutlag et al. (1990) Comp. Appl. Biosci., 6, 237 - 245] or BLAST3 [Altschul and Lipman (1990) Proc. Natl. Acad. Sci. USA, 87, 5509 - 5513] which is especially useful in the case of loosely defined domain types for which efficient consensus patterns can not be established. SBASE 2.0 and a set of search and retrieval tools are freely available on request to the authors or by anonymous 'ftp' file transfer from < ftp.icgeb.trieste.it >.