Table 3.
Comparison of lowest RMSD and DI models generated using F-RAG, Vfold3D, and 3dRNA.
| PDB | Lowest RMSD Model | Lowest DI Model | PDB | Lowest RMSD Model | Lowest DI Model | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
|
|
|
||||||||||
| F-RAG | Vfold3D | 3dRNA | F-RAG | Vfold3D | 3dRNA | F-RAG | Vfold3D | 3dRNA | F-RAG | Vfold3D | 3dRNA | ||
|
| |||||||||||||
| 2M4W | 2.439 | 3.957 | 2.16 | 3.19 | 4.86 | 3.45 | 5BTM | 2.906 | 4.932 | 2.303 | 3.37 | 5.18 | 2.63 |
| 2MEQ | 6.367 | 7.319 | 0 | 8.49 | 9.71 | 0 | 1S03 | 5.088 | 3.356 | 5.911 | 6.38 | 3.98 | 7.86 |
| 2M5U | 2.635 | 3.078 | 0 | 3.12 | 3.61 | 0 | 1XJR | 8.025 | 5.442 | 9.216 | 10.97 | 6.61 | 14.23 |
| 2N7X | 3.588 | 4.94 | 5.106 | 4.68 | 6.29 | 5.96 | 2MTJ | 13.255 | N/A | 2.288 | 21.27 | N/A | 2.88 |
| 1RLG | 1.034 | 1.544 | 2.637 | 1.25 | 1.7 | 3.76 | 2VPL | 0.428 | 4.069 | 1.766 | 0.48 | 4.39 | 2.1 |
| 2MIS | 2.087 | 2.311 | 1.392 | 2.46 | 3 | 1.53 | 1U63 | 3.408 | 4.295 | 4.119 | 4.37 | 4.93 | 5.44 |
| 2N0J | 2.170 | 1.845 | 3.889 | 2.86 | 2.13 | 4.68 | 2PXB | 5.065 | 1.728 | 1.145 | 6.10 | 1.85 | 1.2 |
| 2NCI | 9.916 | 8.229 | 11.815 | 12.62 | 10.82 | 15.25 | 2N4L | 5.843 | 3.801 | 10.898 | 7.15 | 4.06 | 13.08 |
| 3SIU | 3.480 | 1.554 | 1.832 | 4.55 | 1.69 | 1.94 | 2HGH | 3.375 | 4.045 | 5.079 | 3.99 | 4.38 | 5.55 |
| 1OOA | 5.005 | 5.228 | 5.455 | 7.22 | 6.73 | 7.16 | 1DK1 | 1.008 | 2.317 | 3.025 | 1.18 | 2.51 | 3.43 |
| 2IPY | 1.461 | 2.353 | 3.933 | 1.67 | 2.64 | 4.48 | 1MMS | 0.647 | 2.145 | 2.746 | 0.73 | 2.52 | 3.82 |
| 2OZB | 3.291 | 4.059 | 6.178 | 3.76 | 4.54 | 8.14 | 1Y39 | 0.717 | 2.733 | 8.183 | 0.81 | 3.2 | 13.5 |
| 2XEB | 5.798 | N/A | 3.456 | 6.97 | N/A | 4.07 | 2N3Q | 17.006 | N/A | 4.528 | 25.25 | N/A | 6.56 |
| 1MJI | 3.246 | 2.201 | 4.332 | 4.27 | 2.65 | 5.63 | 2MQT | 8.665 | 6.129 | 4.311 | 11.24 | 6.93 | 4.83 |
| 2M57 | 5.169 | 1.949 | 2.057 | 7.75 | 2.17 | 2.45 | 2N6W | 5.722 | 5.86 | 8.988 | 7.40 | 7.45 | 12.06 |
| 4PCJ | 1.116 | 4.514 | 2.701 | 1.23 | 5.47 | 3.1 | 1KXK | 0.544 | 5.116 | 6.561 | 0.62 | 5.57 | 8.46 |
| 2HW8 | 0.450 | 1.627 | 1.639 | 0.50 | 1.75 | 1.68 | 2OIU | 1.004 | N/A | 12.472 | 1.06 | N/A | 15.65 |
| 2N6S | 2.436 | 3.024 | 2.685 | 2.75 | 3.46 | 3.16 | 4LCK | 0.729 | 2.772 | 7.27 | 0.83 | 3.2 | 9.74 |
| 5KQE | 8.803 | 7.793 | 5.503 | 10.51 | 8.97 | 7.17 | 1P5O | 2.148 | 4.095 | 7.353 | 2.53 | 4.99 | 9.96 |
| 1I6U | 0.532 | 1.458 | 2.65 | 0.63 | 1.7 | 3.15 | 3D2G | 1.460 | 3.916 | 3.538 | 1.64 | 4.36 | 5.08 |
| 1F1T | 5.060 | 6.503 | 6.484 | 7.30 | 9.12 | 11.4 | 2HOJ | 2.504 | 17.084 | 4.703 | 3.03 | 20.55 | 6.45 |
| 1ZHO | 1.089 | 1.757 | 2.033 | 1.21 | 1.94 | 2.16 | 2GDI | 4.976 | 16.959 | 3.887 | 6.71 | 21.66 | 4.57 |
| 2MXL | 8.419 | 4.116 | 3.602 | 12.37 | 4.72 | 4.52 | 2GIS | 0.919 | N/A | 4.224 | 1.05 | N/A | 5.17 |
| 2N6T | 5.351 | 3.892 | 6.51 | 7.72 | 5.6 | 8.97 | 1LNG | 0.858 | 4.86 | 6.966 | 0.96 | 5.82 | 8.71 |
| 2N6X | 12.312 | 14.652 | 12.411 | 16.20 | 20.16 | 16.54 | 2LKR | 20.262 | N/A | 19.553 | 31.07 | N/A | 32.65 |
The bold numbers indicate the program that had the lowest value of RMSD or DI. N/A entry in the Vfold3D column indicates that it was not able to generate an atomic model for that structure.