Table 2.
Functions of top five structurally similar fragments in PDB
| ID | Length | Structurally matched protein | Function of the protein | CATH code | Length of the fragment | rmsd (Å) of the fragment |
|---|---|---|---|---|---|---|
| MG059 | 106 | 1c9uA (444) | Soluble quinoprotein glucose dehydrogenase | 2.120.10.30 | 99 | 4.9 |
| 1iov (306) | d-Ala ligase | 2.30.35.30 | 100 | 4.9 | ||
| 1fiqC (745) | Xanthine oxidase | 8.1.51.1 | 104 | 5.6 | ||
| 1fsz (334) | Cell division protein ftsz | 3.40.50.1440 | 99 | 4.9 | ||
| 1a8l (226) | Protein disulfide oxidoreductase | 3.40.30.10 | 100 | 4.8 | ||
| MG158 | 138 | 1qfmA (705) | Prolyl oligopeptidase | 3.40.50.950 | 105 | 3.5 |
| 1qmuA (380) | Carboxypeptidase D domain II | 8.1.24.1 | 109 | 4.1 | ||
| 1obr (323) | Carboxypeptidase t. chain | 3.40.630.10 | 114 | 4.7 | ||
| 1a4sA (503) | Betaine aldehyde dehydrogenase | 3.40.605.10 | 103 | 4.2 | ||
| 1ai2 (414) | Isocitrate dehydrogenase | 3.40.718.10 | 111 | 4.7 | ||
| MG198 | 124 | 1axb (263) | Tem-1 β-lactamase | 3.40.710.10 | 89 | 3.9 |
| 1ecrA (305) | Replication terminator protein | 3.50.14.10 | 78 | 4.1 | ||
| 2gsaA (427) | Glutamate-1-semialdehyde aminomutase | 3.40.640.10 | 105 | 6.2 | ||
| 1fwyA (326) | N-acetylglucosamine 1-phosphate uridyltransferase | 8.1.72.1 | 89 | 5.0 | ||
| 2aacA (163) | Gene regulatory protein arac | 2.60.120.280 | 76 | 3.7 | ||
| MG232 | 100 | 1c8zA (265) | Tubby protein | 3.20.90.10 | 81 | 4.2 |
| 1apa (261) | Pokeweed antiviral protein | 3.40.420.10 | 89 | 4.8 | ||
| 1epaA (160) | Epididymal retinoic acid binding protein | 2.40.128.20 | 74 | 4.1 | ||
| 1thtA (294) | Myristoyl-ACP-specific thioesterase | 3.40.50.950 | 83 | 4.8 | ||
| 1smlA (266) | Metallo β lactamase | 3.60.15.10 | 86 | 5.0 | ||
| MG335.1 | 73 | 1g99A (398) | Acetate kinase | — | 59 | 2.7 |
| 1csmA (256) | Chorismate mutase | 1.10.590.10 | 66 | 3.3 | ||
| 1pbwA (184) | Phosphatidylinositol 3-kinase | 1.10.555.10 | 66 | 3.4 | ||
| 1bluA (80) | 2[4Fe-4S] ferredoxin | 3.30.70.20 | 64 | 3.1 | ||
| 1f7cA (182) | Rho GTPase regulator | — | 73 | 3.9 |
Similar structures to the consensus cluster centroid between RE and PHS are searched in PDB. Detected fragments were sorted by their relative rmsd Z scores. A representative set of proteins that do not have more than 35% sequence similarity between each other was used. The numbers in parentheses next to the PDB code are the length of the chain. CATH code: protein fold classification code in CATH database (12). — denotes that the protein has not been included in CATH yet. Proteins that have the same first three numbers in CATH code were eliminated in this table.