SCOP: Structural Classification of Proteins and ASTRAL

Structural Classification of Proteins and ASTRAL release 1.75B (January 2013)

Starting with version 1.75A, data from all versions of SCOP+Astral since 1.55 are stored in a relational database.
To download a copy of the MySQL database released with SCOP+Astral 1.75B (sql.bz2 format), click here (1.3 GB).
To download a copy of the MySQL database released with the update to 1.75B on 2013-04-25, click here (1.4 GB).
Documentation for our schema is available here. (ER diagrams were autogenerated using SchemaSpy.)

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 References tab.

SCOP parseable files for version 1.75B:

dir.des.scop.txt (6.8 MB)
dir.cla.scop.txt (12.8 MB)
dir.hie.scop.txt (3.5 MB)
dir.com.scop.txt (6.4 MB)

Parseable files for the update to SCOP 1.75B on 2013-04-25:

dir.des.scop.txt (6.8 MB)
dir.cla.scop.txt (12.9 MB)
dir.hie.scop.txt (3.5 MB)
dir.com.scop.txt (6.4 MB)

Parseable files for previous releases of SCOP:

dir.des.scop.txt: 1.75A 1.75 1.73 1.71 1.69 1.67 1.65 1.63 1.61 1.59 1.57 1.55
dir.cla.scop.txt: 1.75A 1.75 1.73 1.71 1.69 1.67 1.65 1.63 1.61 1.59 1.57 1.55
dir.hie.scop.txt: 1.75A 1.75 1.73 1.71 1.69 1.67 1.65 1.63 1.61 1.59 1.57 1.55
dir.com.scop.txt: 1.75A 1.75 1.73 1.71 1.69 1.67 1.65 1.63

Free Software

Past (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.
XML2RAF: Perl software to create RAF maps from PDB XML files, used to build Astral 1.73-1.75B.
Version 1.01 was released 15 October 2008.
MakeRAF: Java software to create RAF maps from PDB files is included in the StrBio Java class libraries.
As of Astral 1.73, this software has been deprecated and replaced by XML2RAF.

Parseable files for very old releases of SCOP (without stable identifiers):

dir.dom.scop.txt: 1.53 1.50 1.48 1.41 1.37 1.35

Old sequence libraries

Brenner S. E., Chothia C., Hubbard T. (1998)
Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. Proc. Natl. Acad. Sci. USA 95, 6073-6078. sdqib40-1.35.seg.fa, sdqib90-1.35.seg.fa
Park, S., Karplus, K., Barrett, C., Hughey, R., Haussler, D., Hubbard, T. and Chothia, C. (1998)
Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. J. Mol. Biol. 284 (4), 1201-1210. PDB40D-J
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, 14658-14663. PDB95D-T