SCOPe: Structural Classification of Proteins — extended. Release 2.04 (July 2014, new entries added 2014-11-15)
Starting with SCOPe version 2.01, data from all versions of
SCOPe, SCOP, and Astral since 1.55 are stored
in a relational database.
To download a copy of the MySQL database released with stable
SCOPe 2.04 (sql.bz2 format),
click here (740.4 MB).
Documentation for our schema is available
(ER diagrams were autogenerated using
Since SCOP release 1.55, the
SCOP classification has
been distributed in the form of a
set of sequences, coordinates, and parseable files, all based on a
new set of identifiers.
For an account of these changes, file
formats, file contents and meaning, see the Lo Conte et al (2002)
and Chandonia et al (2004) references under the
SCOPe parseable files for stable release 2.04:
Click here for access to the parseable files and MySQL database released with the periodic update to SCOPe 2.04 on 2014-11-15.
Parseable files for previous stable releases of SCOP
(PDB Archival Snapshot Toolkit):
Perl tools to efficiently store and archive multiple datestamped
snapshots of the PDB.
Version 1.31, released 8 January 2013, is needed to interoperate
with the new PDB FTP server.
Perl software to create RAF maps
from PDB XML files, used to build
Version 1.01 was released 15 October 2008.
MakeRAF: Java software to create
RAF maps from
PDB files is
included in the
As of Astral 1.73,
this software has been deprecated and replaced by
Parseable files for very old releases of
(without stable identifiers):
Old sequence libraries
Brenner S. E., Chothia C., Hubbard T. (1998)
sequence comparison methods with reliable structurally
identified distant evolutionary relationships. Proc. Natl.
Acad. Sci. USA 95, 6073-6078.
Park, S., Karplus, K., Barrett, C., Hughey, R., Haussler, D.,
Hubbard, T. and Chothia, C. (1998)
using multiple sequences detect three times as many remote
homologues as pairwise methods. J. Mol. Biol. 284 (4),
Teichmann, S. A., Park, J. and Chothia, C. (1998)
Structural assignments to the Mycoplasma genitalium
proteins show extensive gene duplications and domain
rearrangements. Proc. Natl. Acad. Sci USA 95,
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