TABLE 1.
Molecular models.
Model No. | PDB ID | Organism | Protein | Mutation |
---|---|---|---|---|
1 | 6NDU | Human | MEIG1–PACRG | Wild type |
2 | 6UCC | Human | MEIG1–PACRG | Wild type |
3 | 6NDU | Human | MEIG1–PACRG | W50A |
4 | 6UCC | Human | MEIG1–PACRG | W50A |
5 | 6NDU | Human | MEIG1–PACRG | Y68A |
6 | 6UCC | Human | MEIG1–PACRG | Y68A |
7 | 6NDU | Human | MEIG1 | Wild type |
8 | 6UCC | Human | MEIG1 | Wild type |
9 | 6NDU | Human | MEIG1 | W50A |
10 | 6UCC | Human | MEIG1 | W50A |
11 | 6NDU | Human | MEIG1 | Y68A |
12 | 6UCC | Human | MEIG1 | Y68A |
13 | 6NDU | Human | PACRG | Wild type |
14 | 6UCC | Human | PACRG | Wild type |
15 | 2N2Y-1 and I-TASSER | Mouse | MEIG1–PACRG | Wild type |
16 | 2N2Y-11 and I-TASSER | Mouse | MEIG1–PACRG | Wild type |
17 | 2N2Y-1 and I-TASSER | Mouse | MEIG1–PACRG | W50A |
18 | 2N2Y-11 and I-TASSER | Mouse | MEIG1–PACRG | W50A |
19 | 2N2Y-1 and I-TASSER | Mouse | MEIG1–PACRG | Y68A |
20 | 2N2Y-11 and I-TASSER | Mouse | MEIG1–PACRG | Y68A |
21 | 2N2Y-1 | Mouse | MEIG1 | Wild type |
22 | 2N2Y-11 | Mouse | MEIG1 | Wild type |
23 | 2N2Y-1 | Mouse | MEIG1 | W50A |
24 | 2N2Y-11 | Mouse | MEIG1 | W50A |
25 | 2N2Y-1 | Mouse | MEIG1 | Y68A |
26 | 2N2Y-11 | Mouse | MEIG1 | Y68A |
27 | I-TASSER | Mouse | PACRG | Wild type |
Note: The models extracted from PDB are underlined. The mouse model 2N2Y7 was obtained from solution NMR, which contains 20 conformations. The two conformations (Nos. 1 and 11) were chosen for GaMD simulations. Models 15, 17, 19, 21, 23, and 25 were from the first NMR conformation; models 16, 18, 20, 22, 24, and 26 were from the 11th NMR conformation. The mouse PACRG model was predicted using the I-TASSER server.33
Abbreviations: GaMD, Gaussian-accelerated molecular dynamics; MEIG1, meiosis-expressed gene 1; PACRG, Parkin co-regulated gene; PDB, Protein Data Bank.