Parsers and API for SCOP, Structural Classification of Proteins. See DemoSCOP.java for an example.
Interface Summary Interface Description LocalScopDatabaseClasses which implement ScopDatabase in a way which allows them to serve queries without accessing the internet should implement this interface instead. ScopDatabaseGeneral API how to interact with SCOP
Class Summary Class Description AstralProvides programmatic access to ASTRAL representative sets. BerkeleyScopInstallationSCOPe: The Structural Classification of Proteins (extended) at Berkeley Lab and UC Berkeley (http://scop.berkeley.edu/). CachedRemoteScopInstallationAn extension of the RemoteScopInstallation that caches some of the data locally. RemoteScopInstallationA class that fetches information about SCOP from a remote data-source. ScopDescriptionContains data from dir.des.scop.txt_1.75 ScopDomainContainer for the information for a domain. ScopFactoryControls the global ScopDatabase being used. ScopInstallationThis class provides access to the SCOP protein structure classification. ScopMirrorHelper class to store paths to the four SCOP files The string "%s" is replaced with the version number. ScopNode
Enum Summary Enum Description Astral.AstralSetAn ASTRAL sequence-identity cutoff with an identifier such as: ScopCategoryThe various categories provided by SCOP.
Exception Summary Exception Description ScopIOExceptionIndicates that an I/O error occurred with SCOP lazy initialization.