Table 1 Widely varying structural classes of the proteins selected for experimentation
From: An improved protein structure evaluation using a semi-empirically derived structure property
PDB id | Protein name | Class | Fold | Super family | Family | Duplication | Species |
|---|---|---|---|---|---|---|---|
1ao6 | Serum albumin | All alpha proteins | Serum albumin-like multihelical; one domain consists of two similar disulfide-linked subdomains | Serum albumin link to SUPERFAMILY database - Superfamily | Serum albumin | consists of three domains of this fold | Human (Homo sapiens) |
1new | Cytochrome c7 (cytochrome c551.5, PpcA)contains three heme groups; deletion of one of Cyt c3 heme-binding sites | All alpha proteins | Multiheme cytochromes variable number of helices and little beta structure; not a true fold | Multiheme cytochromes | Cytochrome c3 | contains multiple CxxCH motifs link to SUPERFAMILY | Desulfuromonas acetoxidans |
1ro3 | Echistatin | Small proteins Usually dominated by metal ligand, heme, and/or disulfide bridges | Blood coagulation inhibitor (disintegrin) small disulfide-rich | Blood coagulation inhibitor (disintegrin) link to SUPERFAMILY database - Superfamily | Blood coagulation inhibitor (disintegrin) | Not Reported | Saw-scaled viper (Echis carinatus) |
2vb1 | Lysozyme ubiquitous in a variety of tissues and secretions | Alpha and beta proteins Mainly antiparallel beta sheets (segregated alpha and beta regions) | Lysozyme-like common alpha+beta motif for the active site region | Lysozyme-like Superfamily | C-type lysozyme | Not Reported | Chicken (Gallus gallus) |
2h8b | Insulin from Human (in absence of report for 2h8b other columns were filled in for 1ben) | Small proteins (hormone) | Insulin-like nearly all-alpha can be classified as disulfide-rich | Insulin-like link to SUPERFAMILY database - Superfamily | Insulin | Not Reported | Human (Homo sapiens) |
1a3n | Hemoglobin, alpha-chain from Human | All alpha proteins | Globin-like core: 6 helices; folded leaf, partly opened | Globin-like link to SUPERFAMILY database - Superfamily | Globins Heme-binding protein | Not Reported | Human (Homo sapiens) |