Table 1. The comparisons between the predictions with and without docking on 50 targets selected from the CAMEO-LB dataset between 20160326 and 20160416. a results without docking. b results after docking, where the ligand-binding pose was the one that matches the best with the consensus binding site prediciton. c results after docking, where the ligand-binding pose was the one with lowest docking energy.

No. PDB ID Ligand ID MCCa MCCb MCCc Clasha Clashb Clashc
1 4za0B PAH 0.67 0.41 0.23 3 1 2
2 5fsgA MTT 0.92 0.92 0.92 1 0 0
3 5ed1D IHP 0.97 0.8 0.8 0 0 0
4 4yuqB KS1 0.77 0.77 0.77 2 0 0
5 4z6cA 0KX 0.14 0.14 0.14 0 0 0
6 5iqxA HEM 0.97 0.85 0.85 2 2 2
7 4uhmA PLP 1 0.9 0.61 1 0 0
8 5d3xB 4IP 1 0.92 0.76 1 0 0
9 4rfrB RHN 1 0.9 0.86 0 0 0
10 5j94A 1XF -0.04 -0.05 -0.04 1 0 0
11 5cfyE ASP 0.81 0.79 0.79 1 0 0
12 4xf1A CYS 0.95 0.91 0.79 0 0 0
13 5f8yB X6X 0.81 0.83 0.83 3 0 0
14 5hv3A ANP 1 0.89 0.73 0 0 0
15 5hi2A BAX 0.54 0.62 0.62 2 0 0
16 5esxB 5GP 0.71 0.75 0.69 2 0 0
17 5d75A FK5 0.78 0.83 0.91 0 0 0
18 5frzB 2MP 0.85 0.86 0.79 0 0 0
19 5et6D AMP 0.88 0.85 0.78 1 0 0
20 4z7jA RP5 0.69 0.57 0.57 1 0 0
21 5hidA B1E 0.56 0.64 0.64 1 0 0
22 5fwjB MMK 0.75 0.75 0.69 1 0 0
23 5d1nA SAH 0.89 0.82 0.82 0 0 0
24 5ep4A ATP 0.62 0.77 0.81 3 0 0
25 5anlA RBQ 0.74 0.78 0.83 1 0 0
26 4uj1A NVX 0.78 0.89 0.89 3 3 3
27 5hw0A GLU 0.94 0.89 0.89 1 0 0
28 5ensC RHQ -0.02 -0.02 -0.02 6 1 1
29 5fsyA AR6 0.82 0.87 0.81 2 0 0
30 5hr6A SF4 0.18 0.34 0.5 1 0 0
31 5dlpA MBT 0.2 0.56 0.56 1 0 0
32 4z51A GNP 0.71 0.79 0.79 7 0 0
33 4y22B SGA 0.66 0.63 0.63 3 0 0
34 5d0yB FOL 0.94 0.69 0.69 0 0 0
35 4z6dA 1FZ -0.04 -0.04 -0.04 1 1 1
36 4z07C PCG -0.05 -0.05 -0.05 0 0 0
37 5f8bA GSH 0.69 0.72 0.65 6 0 0
38 5h8yF FES 1 0.9 0.34 4 1 1
39 4yvnA EBS -0.02 -0.01 -0.01 0 0 0
40 5aniA ES4 0.62 0.71 0.57 6 0 0
41 4ujaA 4L7 0.84 0.87 0.87 3 3 3
42 5hesB 032 0.65 0.73 0.75 1 0 0
43 5j3uA CMP -0.04 -0.05 -0.05 3 0 0
44 5eb4B FAD 0.91 0.69 0.69 4 1 1
45 5j23B A2R 0.65 0.64 0.65 0 0 0
46 5hraB DAS 0.85 0.78 0.78 2 0 0
47 5bw4A SAM 0.85 0.79 0.72 2 0 0
48 4yx6B FMN 0.91 0.8 0.8 1 0 0
49 5ihxA TYR 0.9 1 0.66 0 0 0
50 5fsxA ADP 0.67 0.74 0.72 2 0 0
51 Average -- 0.67 0.66 0.62 1.72 0.26 0.28
P.S. The Clash column measures the total number of unique residues having steric clash with the ligand. One residue is defined to have steric clash with the ligand when their closest atomic distance is less than three quarters of the sum of their Van der Waals radii.