Warning Renaming of ' ' chains as 'A' chains in PDB files has introduced inconsistencies with respect to PDB files in all aspects of SCOP that depend on the chain identifier (SCOP domain definition/identifiers, ASTRAL domain sequences, rasmol images, etc).

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

dir.dom.scop.txt is a condensed version of the SCOP domain classification, meant to be easy to parse and process automatically. It contains all domains that appear in the corresponding release. The classification is meaningless for class 1.008 and upwards.

Some of the SCOP domains are composed of several regions of amino acid sequence that may come from different amino acid chains. See 1dan for example.

d1dan.1 1dan    t:,u:91-106     1.002.001.002.001.001
d1danu1 1dan    u:107-210       1.002.001.002.001.001
d1danh_ 1dan    h:		1.002.036.001.002.018
d1danl1 1dan    l:47-86		1.007.003.009.001.003
d1danl2 1dan    l:87-142        1.007.003.009.001.003
d1danl3 1dan    l:1-46		1.007.028.001.001.001

d1cfi__ 1cfi    -		1.007.028.001.001.003

Sequences corresponding to SCOP domains, filtered according to different criteria, can be obtained from the ASTRAL web site. Differences in domain definitions.

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