Scop parseable files

Structural Classification of Proteins

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Starting with release 1.55, the SCOP classification is 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:

Lo Conte L., Brenner S. E., Hubbard T.J.P., Chothia C., Murzin A. (2002). SCOP database in 2002: refinements accommodate structural genomics. Nucl. Acid Res. 30(1), 264-267 [PDF].

Chandonia JM, Walker NS, Lo Conte L, Koehl P, Levitt M, Brenner SE. The ASTRAL compendium in 2004. Nucleic Acids Research 32:D189-D192 (2004) [PDF].

scop parseable files

dir.des.scop.txt 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 1.75 1.73 1.71 1.69 1.67 1.65 1.63 1.61 1.59 1.57 1.55

dir.hie.scop.txt 1.75 1.73 1.71 1.69 1.67 1.65 1.63 1.61 1.59 1.57 1.55

dir.com.scop.txt 1.75 1.73 1.71 1.69 1.67 1.65 1.63

scop domain sequences

SCOP genetic domain sequences can be obtained from the ASTRAL web site.
(There may be a short delay after a new SCOP release before the new set of sequences become available.)

scop domain coordinate files

PDB-style coordinate files for all SCOP genetic domains are available at the ASTRAL web site.
(There may be a short delay after a new SCOP release before the new set of coordinates become available.)

old parseable files

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

June 2009