Example
Most pages in SCOP contain a search box. Entering "trypsin +human" retrieves several proteins, including the protein trypsinogen from humans. Selecting that entry displays a page that includes the "lineage", which is at the top of most SCOP pages. The page includes the following information.
- Lineage:
- 1. Root: scop
- 2. Class: All beta proteins
- 3. Fold: Trypsin-like serine proteases
- barrel, closed; n=6, S=8; greek-key
- duplication: consists of two domains of the same fold
- 4. Superfamily: Trypsin-like serine proteases
- 5. Family: Eukaryotic proteases
- 6. Protein: Trypsin(ogen)
- 7. Species: Human (Homo sapiens)
Searching for "Subtilisin" brings up the protein, "Subtilisin from Bacillus subtilis, carlsberg", with the following lineage.
- Lineage:
- 1. Root: scop
- 2. Class: Alpha and beta proteins (a/b)
- Mainly parallel beta sheets (beta-alpha-beta units)
- 3. Fold: Subtilisin-like
- 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 2314567; left-handed crossover connection between strands 2 & 3
- 4. Superfamily: Subtilisin-like
- 5. Family: Subtilases
- 6. Protein: Subtilisin
- 7. Species: Bacillus subtilis, carlsberg
Although both of these proteins are proteases, they do not even belong to the same fold, which is consistent with them being an example of convergent evolution.
Read more about this topic: Structural Classification Of Proteins Database
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