Package org.biojava.nbio.structure.scop

package org.biojava.nbio.structure.scop
Parsers and API for SCOP, Structural Classification of Proteins. See DemoSCOP.java for an example.
  • Class
    Description
    Astral
    Provides programmatic access to ASTRAL representative sets.
    Astral.AstralSet
    An ASTRAL sequence-identity cutoff with an identifier such as:
    BerkeleyScopInstallation
    SCOPe: The Structural Classification of Proteins (extended) at Berkeley Lab and UC Berkeley (http://scop.berkeley.edu/).
    LocalScopDatabase
    Classes which implement ScopDatabase in a way which allows them to serve queries without accessing the internet should implement this interface instead.
    ScopCategory
    The various categories provided by SCOP.
    ScopDatabase
    General API how to interact with SCOP
    ScopDescription
    Contains data from dir.des.scop.txt_1.75
    ScopDomain
    Container for the information for a domain.
    ScopFactory
    Controls the global ScopDatabase being used.
    ScopInstallation
    This class provides access to the SCOP protein structure classification.
    ScopIOException
    Indicates that an I/O error occurred with SCOP lazy initialization.
    ScopMirror
    Helper class to store paths to the four SCOP files The string "%s" is replaced with the version number.
    ScopNode