Table 1.
Comparison of BsFinder, SiteEngine, SuMo, and pdbFun on 55 proteins.
| BsFinder | SiteEngine | SuMo | pdbFun | |||||
|---|---|---|---|---|---|---|---|---|
| number† | ratio(%)‡ | number† | ratio(%)‡ | number† | ratio(%)‡ | number† | ratio(%)‡ | |
| 1C52 | 5937/1583 | 27/73 | 4798/1212 | 25/56 | 1014/159 | 16/8 | 2621/627 | 24/29 |
| 8GSS | 6111/3243 | 53/95 | 4702/1918 | 41/57 | 4698/1603 | 34/48 | 2704/951 | 35/28 |
| 256B | 7834/3102 | 40/89 | 3982/1410 | 35/41 | 664/100 | 15/3 | 798/221 | 28/7 |
| 8ICK | 8984/3758 | 42/97 | 8165/1848 | 23/48 | 9398/1526 | 16/40 | 2208/372 | 17/10 |
| 4VHB | 7122/2299 | 32/78 | 3750/855 | 23/30 | 1500/167 | 11/6 | 1014/251 | 25/9 |
| 2BPV | 6210/1309 | 21/85 | 4689/717 | 15/47 | 842/66 | 8/5 | 1230/151 | 12/10 |
| 2RTO | 5540/2463 | 44/69 | 3612/1350 | 37/38 | 2542/871 | 34/24 | 1744/173 | 10/5 |
| 2TRM | 4528/1268 | 28/53 | 6984/1107 | 16/46 | 10126/919 | 9/38 | 2348/331 | 14/14 |
| 2XAT | 6041/2783 | 46/72 | 4506/1046 | 23/27 | 4721/856 | 18/22 | 1963/230 | 12/6 |
| 1JJU | 5074/936 | 18/79 | 5685/616 | 11/53 | 9785/381 | 4/33 | 5328/429 | 8/37 |
| 4FX2 | 5603/2667 | 48/68 | 3318/1064 | 32/28 | 1878/583 | 31/15 | 1833/439 | 24/12 |
| 5P21 | 7179/3401 | 47/87 | 6017/1998 | 33/52 | 7556/1702 | 23/44 | 2097/659 | 31/17 |
| 2DUB | 8681/2764 | 32/89 | 7226/1734 | 24/57 | 2641/473 | 18/16 | 2673/531 | 20/18 |
| 3MAN | 7469/3536 | 47/91 | 8974/2102 | 23/55 | 9487/1627 | 17/43 | 2371/983 | 42/26 |
| 6DFR | 7541/3621 | 48/93 | 8054/2479 | 31/64 | 3682/877 | 24/23 | 2318/670 | 29/18 |
| 1J6W | 8543/2361 | 28/88 | 4812/1324 | 28/54 | 2762/314 | 12/13 | 1133/276 | 25/11 |
| 3PYP | 5733/3347 | 58/87 | 3043/932 | 31/25 | 1841/529 | 29/14 | 1713/358 | 21/9 |
| 1E1V | 8719/2148 | 24/85 | 6704/1064 | 16/48 | 8505/882 | 11/39 | 1943/195 | 10/9 |
| 1OIY | 8452/2981 | 35/92 | 8104/1884 | 23/59 | 8441/1121 | 13/35 | 1844/280 | 15/9 |
| 3BU4 | 1407/874 | 62/84 | 3916/948 | 24/38 | 3945/599 | 15/24 | 1089/48 | 4/2 |
| 1T9G | 7092/2526 | 36/84 | 8927/1714 | 19/58 | 9590/1073 | 11/36 | 2243/318 | 14/11 |
| 7CAT | 6813/1564 | 23/87 | 7241/1483 | 21/83 | 14407/875 | 6/49 | 2375/376 | 16/21 |
| 1JX4 | 5294/497 | 9/94 | 5576/314 | 6/60 | 5637/198 | 4/38 | 1843/65 | 4/12 |
| 1CY6 | 5791/477 | 8/95 | 8485/326 | 4/66 | 11855/220 | 2/44 | 2793/85 | 3/17 |
| 1SK6 | 3267/457 | 14/82 | 9713/368 | 4/75 | 17100/345 | 2/70 | 2094/79 | 4/16 |
| 1H2S | 8437/2263 | 27/95 | 3567/967 | 27/41 | 3079/497 | 16/21 | 2912/211 | 8/9 |
| 1DDT | 8071/1921 | 24/89 | 7446/1324 | 18/65 | 11301/904 | 8/45 | 3428/162 | 5/8 |
| 1U19 | 8186/3523 | 43/92 | 9795/2057 | 21/54 | 11298/1629 | 14/43 | 2619/508 | 19/13 |
| 1PPJ | 6638/377 | 6/94 | 9657/332 | 4/83 | 10634/146 | 2/37 | 3509/59 | 2/15 |
| 1NTM | 6263/916 | 15/87 | 6640/421 | 6/43 | 13164/362 | 3/37 | 3357/48 | 2/5 |
| 7INS | 6327/3155 | 50/82 | 5827/1750 | 30/46 | 682/38 | 6/1 | 169/47 | 28/2 |
| 1KI0 | 8011/3356 | 42/91 | 7502/2014 | 27/55 | 8999/1601 | 18/43 | 876/240 | 27/7 |
| 1PTR | 5386/1696 | 31/67 | 5503/1349 | 25/54 | 1849/296 | 16/12 | 743/94 | 13/4 |
| 1GMN | 7970/3474 | 44/88 | 7706/2014 | 26/53 | 5955/1053 | 18/27 | 733/261 | 36/7 |
| 1F4L | 8445/1964 | 23/94 | 8683/1459 | 17/71 | 13102/1078 | 8/52 | 3199/435 | 14/21 |
| 1G9B | 8738/2779 | 32/89 | 5786/1959 | 34/68 | 3542/382 | 11/13 | 4354/837 | 19/29 |
| 1JSH | 3183/1365 | 43/45 | 4251/726 | 17/24 | 8483/1246 | 15/41 | 1735/537 | 31/18 |
| 1MG1 | 8162/1220 | 15/91 | 9897/952 | 10/74 | 11225/573 | 5/44 | 2559/191 | 7/15 |
| 1S1C | 7999/3827 | 48/97 | 7460/2382 | 32/62 | 6037/1299 | 22/34 | 1898/532 | 28/14 |
| 1KWX | 7995/2236 | 28/95 | 6022/1765 | 30/75 | 5255/452 | 9/19 | 1831/201 | 11/9 |
| 1IZL | 8155/3676 | 45/96 | 7196/1637 | 23/43 | 2632/477 | 18/15 | 928/244 | 26/7 |
| 1DWL | 6558/3201 | 49/83 | 3695/1269 | 35/33 | 246/45 | 18/1 | 317/100 | 32/3 |
| 1FFX | 6770/902 | 13/87 | 7392/422 | 6/41 | 16061/469 | 3/45 | 2699/76 | 3/7 |
| 3LDH | 6086/2762 | 45/75 | 6013/1890 | 32/52 | 11994/1464 | 12/40 | 1924/321 | 17/9 |
| 2YHX | 8213/2737 | 33/91 | 8279/1642 | 20/54 | 9127/1186 | 13/39 | 2250/169 | 8/6 |
| 1GO9 | 5165/2661 | 52/67 | 3571/1210 | 34/31 | 30/1 | 3/1 | 359/135 | 38/4 |
| 1HTH | 3321/1636 | 49/42 | 2147/896 | 42/23 | 55/7 | 13/1 | 58/20 | 34/1 |
| 1LXF | 6121/1034 | 17/78 | 4831/731 | 15/55 | 2945/145 | 5/11 | 733/25 | 4/2 |
| 2PRG | 6147/832 | 14/86 | 6298/718 | 12/74 | 6151/190 | 3/20 | 1873/71 | 4/8 |
| 1H2K | 964/43 | 4/94 | 2779/26 | 2/58 | 8038/108 | 1/40 | 2017/18 | 1/40 |
| 1G8X | 6989/3605 | 52/91 | 8935/2029 | 23/54 | 16085/2318 | 14/62 | 5733/797 | 14/21 |
| 1JY4 | 4207/2171 | 52/56 | 2678/756 | 28/20 | 129/35 | 27/1 | 105/49 | 5/1 |
| 1K09 | 3123/638 | 20/82 | 1201/291 | 24/38 | 123/4 | 3/1 | 97/16 | 16/2 |
| 1ABZ | 2825/2432 | 86/63 | 1354/717 | 53/19 | 44/1 | 2/1 | 255/93 | 36/3 |
| 1L6X | 8142/3627 | 45/96 | 7036/2059 | 29/55 | 5128/1005 | 20/27 | 858/355 | 41/10 |
†The first number is the number of output sites reported by the program, the second number is the number of confirmed sites reported by the program;
‡The first number is the precision value (%) for the program, the second number is the recall value (%) for the program;