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Nucleic Acids Research, 2001, Vol. 29, No. 1 58-60
© 2001 Oxford University Press

The SBASE protein domain library, release 8.0: a collection of annotated protein sequence segments

János Murvai1, Kristian Vlahovicek1, Endre Barta2 and Sándor Pongor1,2,*

1International Centre for Genetic Engineering and Biotechnology, Area Science Park, Padriciano 99, I-34012 Trieste, Italy and 2ABC Institute for Biochemistry and Protein Research, 2100 Gödöllö, Hungary

SBASE 8.0 is the eighth release of the SBASE library of protein domain sequences that contains 294 898 annotated structural, functional, ligand-binding and topogenic segments of proteins, cross-referenced to most major sequence databases and sequence pattern collections. The entries are clustered into over 2005 statistically validated domain groups (SBASE-A) and 595 non-validated groups (SBASE-B), provided with several WWW-based search and browsing facilities for online use. A domain-search facility was developed, based on non-parametric pattern recognition methods, including artificial neural networks. SBASE 8.0 is freely available by anonymous ‘ftp’ file transfer from ftp.icgeb.trieste.it. Automated searching of SBASE can be carried out with the WWW servers http://www.icgeb.trieste.it/sbase/ and http://sbase.abc.hu/sbase/.

* To whom correspondence should be addressed. Tel: +39 040 375 7300; Fax: +39 040 226 555; Email: pongor{at}icgeb.trieste.it


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