Table 4.
Performance Comparison between Our CRFFolder and Skolnick's TOUCHSTONE-II
| |
|
|
TOUCHSTONE |
CRFFolder |
|||
|---|---|---|---|---|---|---|---|
| Target | Size | Class | BestCluster | BestCluster | Best | 1% | 2% |
| 1bw6A | 56 | α | 4.79 (2/3) | 3.82 (3/3) | 2.75 | 3.38 | 3.54 |
| 1lea | 72 | α | 5.69 (5/5) | 4.10 (5/7) | 3.41 | 4.19 | 4.48 |
| 2af8 | 86 | α | 11.07 (5/6) | 8.9 (12/19) | 7.07 | 8.53 | 8.97 |
| 256bA | 106 | α | 3.61 (2/3) | 2.75 (6/11) | 2.50 | 3.45 | 3.70 |
| 1sra | 151 | α | 10.71 (3/12) | 13.95 (17/25) | 10.82 | 13.76 | 14.24 |
| 1gpt | 47 | α β | 6.30 (1/25) | 5.55 (42/67) | 4.34 | 5.20 | 5.47 |
| 1kp6A | 79 | α β | 10.01 (8/14) | 7.99 (1/7) | 6.29 | 7.51 | 7.81 |
| 1poh | 85 | α β | 9.10 (5/9) | 8.84 (5/10) | 7.49 | 8.70 | 9.04 |
| 1npsA | 88 | α β | 6.89 (33/34) | 9.91 (41/57) | 7.87 | 9.19 | 9.66 |
| 1t1dA | 100 | α β | 8.96 (7/13) | 9.22 (10/13) | 6.51 | 9.51 | 9.94 |
| 1msi | 66 | β | 7.72 (19/28) | 7.77 (12/15) | 6.24 | 7.55 | 7.89 |
| 1hoe | 74 | β | 9.39 (5/13) | 9.87 (16/35) | 7.96 | 10.00 | 10.37 |
| 1ezgA | 82 | β | 11.03 (40/44) | 10.42 (42/66) | 9.66 | 10.35 | 10.62 |
| 1sfp | 111 | β | 7.48 (2/18) | 11.07 (5/11) | 9.32 | 11.09 | 11.59 |
| 1b2pA | 119 | β | 12.52 (31/56) | 10.01 (18/25) | 8.76 | 10.89 | 11.32 |
Columns 1–3 list the PDB code, size, and type of the test proteins. Column “Best Cluster” lists the RMSDs of the representative decoys of the best clusters. In this column, the first number in parentheses denotes the rank of the best cluster and the second number is the total number of clusters. Column “best” lists the RMSDs of the best decoys. Columns “1%” and “2%” list the average RMSDs of the top 1% and 2% decoys, respectively. The results of TOUCHSTONE-II are from Zhang et al. (2003).