Genome3D Tutorials
Tutorial: SCOP
SCOP Example
From Genome3D examples:
- uniprot:P61604 HSPE1 "10 kDa chaperonin" [human]
- uniprot:P0A6F9 groS "GroES protein" [e coli]
- uniprot:P38910 HSP10 "10 kDa chaperonin" [s cerevisiae]
In CATH, these are in cath-id:2.30.33.40.
In SCOP, they're in scop-id:b.35.1, which merges them with a different, bigger CATH superfamily: cath-id:3.90.180.10.
cath-id:3.90.180.10 contains, eg, N-terminal domains on:
- 2jhf Alcohol dehydrogenase ( cath-dom:2jhfA01, cath-dom:2jhfB01, scop-e:d2jhfa1, scop-e:d2jhfb1)
- 1qor Quinone reductase ( cath-dom:1qorA01, cath-dom:1qorB01, scop-e:d1qora1, scop-e:d1qorb1)
The SCOP2 domain divisions emphasise this relationship better.
Relevant SCOP/CATH mapping page: g3d:internal/cathscop/cluster/2.30.33.40 (CATH v3.5.0 / SCOP v1.75)
The relationship between the two CATH superfamilies can be seen on this superposition of five cath-id:2.30.33.40 domains (black) with five cath-id:3.90.180.10 domains (rainbow) [click image for Pymol script] :
(Note: 1lep is SIFT rejected in CATH because it's a CA-only structure http://www.ebi.ac.uk/pdbe/entry-files/download/pdb1lep.ent )