PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB)

PDB-REPRDB is a database of representative protein chains from the Protein Data Bank (PDB). The previous version of PDB-REPRDB provided 48 representat ive sets, whose similarity criteria were predetermined, on the WWW. The cur rent version is designed so that the user may obtain a quick selection of r epresentative chains from PDB, The selection of representative chains can b e dynamically configured according to the user's requirement, The WWW inter face provides a large degree of freedom in setting parameters, such as cut- off scores of sequence and structural similarity, One can obtain a represen tative list and classification data of protein chains from the system, The current database includes 20 457 protein chains from PDB entries (August 6, 2000). The system for PDB-REPRDB is available at the Parallel Protein Info rmation Analysis system (PAPIA) WWW server (http://www.rwcp.or.jp/ papia/).