#1: The prediction results of blind tests on the independent PDB186 dataset performed by six methods, including the proposed DBPPred, iDNA-Prot, DNA-Prot, DNABinder, DNABind, and DBD-Threader. The actual classes for all 0rotein chains are also listed. '1' denotes DNA-binding protein, and '0' means non DNA-binding protein. id actual DBPPred iDNA-Prot DNA-Prot DNAbinder DNABIND DBD-Threader 2MA1A 1 1 0 0 1 0 0 4LC2A 1 1 1 1 1 1 0 4BLFA 1 1 0 1 1 1 0 4BJ1A 1 1 1 1 1 0 0 4BHXA 1 1 1 1 0 1 0 4JQFA 1 1 1 1 1 0 1 4JOIC 1 1 1 0 1 0 0 4JOIA 1 1 1 1 1 1 0 4JOLA 1 1 1 1 0 1 0 4JLXA 1 1 1 1 0 1 0 4IDUA 1 0 0 0 0 0 0 4ICGC 1 1 1 1 1 1 0 4I99C 1 1 1 1 0 1 0 4I99A 1 0 0 0 1 1 0 4I1KA 1 1 1 1 0 1 0 4HPZA 1 1 1 0 0 0 0 3W03C 1 1 1 0 0 0 0 3W03A 1 1 1 0 1 0 0 4HLXA 1 1 0 1 0 1 1 3VZIA 1 1 0 1 0 1 0 3VZHA 1 0 1 1 1 1 0 4HIDA 1 1 1 1 0 1 0 4HD0A 1 0 0 1 0 1 0 4H7AA 1 1 1 1 0 1 0 4H79A 1 0 1 1 1 1 0 2LYJA 1 1 1 1 1 1 1 2LYHA 1 1 1 0 1 0 0 4GS3A 1 1 1 1 0 1 0 2LW1A 1 1 1 1 0 1 0 4G6DB 1 1 1 1 1 1 0 4G6DA 1 1 1 1 1 1 1 4G4KA 1 1 1 1 1 1 1 2LVSA 1 1 1 1 1 1 1 4G12A 1 1 1 1 1 1 0 4FW2A 1 0 1 1 0 1 0 2LUYA 1 1 1 1 0 1 0 4FE7A 1 1 1 1 1 1 1 4ATHA 1 1 1 1 1 1 1 4EXWA 1 1 0 1 1 1 0 4EQ6A 1 1 1 1 1 1 0 4EQ6B 1 0 1 1 1 1 0 4EOGA 1 1 0 1 0 1 0 3VPRA 1 1 1 1 1 1 0 4E1RA 1 1 0 0 0 0 0 4DRAE 1 1 1 0 0 0 1 4DKYA 1 1 1 1 0 1 1 4DG7A 1 1 1 1 1 1 0 4DAMA 1 0 0 1 0 1 0 4D8JA 1 1 1 1 1 1 0 3V9RB 1 1 1 1 0 0 0 3V9RA 1 1 1 1 1 1 1 4AD8A 1 0 1 0 1 0 0 3V68A 1 1 0 1 1 1 0 4ACOA 1 1 1 1 1 1 0 3V4GA 1 1 0 0 1 0 1 4ABXA 1 1 1 0 0 0 0 3UX8A 1 0 0 0 1 0 0 3UWXB 1 0 1 1 1 1 0 3UQZA 1 1 0 0 0 0 0 3ULXA 1 1 0 1 0 1 0 3ULJA 1 1 0 0 0 0 0 3VK0A 1 1 1 1 1 1 1 3U50C 1 1 1 1 1 0 0 3U4VA 1 1 0 1 1 0 0 3U4ZA 1 1 1 1 0 1 0 3VIBA 1 1 1 1 0 1 1 3TUOA 1 0 0 0 0 0 0 4A11A 1 0 0 0 0 0 0 4A11B 1 0 0 0 0 0 0 3TRBA 1 1 0 0 0 1 1 2LJ6A 1 1 1 1 0 1 0 3TOCA 1 0 1 1 0 0 0 2LI6A 1 1 1 1 1 1 1 3VH5A 1 1 1 1 1 1 1 3VH5W 1 1 1 1 1 1 1 3TEKA 1 1 0 1 0 1 0 3TB6A 1 0 0 0 1 0 0 3SIAA 1 0 0 1 0 0 0 3ZQJA 1 0 0 0 1 0 0 3B0CT 1 1 1 1 1 1 1 3S5RA 1 1 0 0 1 0 0 3S4WB 1 1 1 1 1 0 0 3S4WA 1 1 1 0 1 0 0 3RLOA 1 1 0 0 0 1 0 3RH2A 1 1 1 1 1 1 1 3AXJB 1 0 1 1 1 1 0 3RCOA 1 1 1 0 1 1 0 3R4KA 1 1 1 0 1 1 0 3R0JA 1 1 0 1 1 1 1 3QU3A 1 1 0 1 0 1 1 3QODA 1 1 1 1 1 1 0 2L8DA 1 1 1 0 0 0 0 3Q8DA 1 1 1 1 1 1 0 4IAOC 0 0 0 0 0 0 0 4I8DA 0 0 0 0 0 0 0 3ZDWA 0 0 0 1 0 0 0 3W1SC 0 1 0 1 1 0 0 4I1DA 0 0 0 0 0 0 0 4HY3A 0 0 0 0 0 0 0 4HWXA 0 0 0 0 0 0 0 2M0YA 0 1 0 1 0 1 0 4HVTA 0 0 0 1 0 0 0 4HWGA 0 0 1 1 1 1 0 4HQFA 0 0 1 1 0 1 0 4HPQC 0 1 1 1 1 1 0 2YO3A 0 0 0 0 0 0 0 4HN8A 0 0 0 0 1 0 0 4HN9A 0 0 0 0 0 0 0 2YNQA 0 1 1 1 0 1 0 2YMVA 0 0 1 0 1 1 0 2YMBA 0 1 1 1 1 1 0 4HGAB 0 1 1 1 1 1 1 4HESA 0 0 0 1 0 0 0 3VYWA 0 0 1 1 0 1 0 3VYSC 0 0 0 0 0 0 0 2LZEA 0 1 0 0 0 0 1 4HD1A 0 1 0 1 1 1 0 4HCEA 0 1 0 0 0 0 0 4HC6A 0 1 0 0 0 0 0 4HAMA 0 1 0 1 1 0 1 4HAOA 0 0 0 0 0 0 0 3J27A 0 0 0 0 0 0 0 4BBKA 0 1 0 1 0 0 0 4H63F 0 0 0 1 1 0 0 2LYVA 0 0 0 1 1 1 0 4H5XA 0 0 1 1 0 1 0 4H3HB 0 1 1 1 1 1 0 2LY4B 0 0 0 0 1 0 0 4B9KC 0 1 1 1 0 1 0 4B9JA 0 0 0 0 0 0 0 4GWGA 0 0 0 0 0 0 0 4GWPF 0 0 1 0 0 0 0 4GWPG 0 0 0 0 0 0 0 4GVWA 0 0 1 0 0 0 0 2LXUA 0 0 0 1 0 0 0 4GOSA 0 0 0 0 0 0 0 4GNVA 0 0 0 0 1 0 0 3J21k 0 0 0 0 0 0 0 3J21l 0 1 1 1 0 1 0 3J21P 0 0 1 1 1 1 0 3J21R 0 1 1 1 0 1 0 3J20A 0 1 1 1 1 1 0 3J21a 0 1 1 1 0 1 0 4GIJA 0 0 0 0 0 0 0 4GICA 0 0 0 0 1 0 0 4GIQA 0 0 0 0 0 0 0 4B6AM 0 1 1 1 1 1 0 4GGDA 0 0 0 0 0 0 0 4GF2A 0 0 1 1 0 1 0 4B4TI 0 1 0 1 1 0 0 4B4TO 0 1 1 1 1 0 0 4GCWA 0 0 0 0 1 0 0 4GAKA 0 0 1 1 0 0 0 4G9JA 0 0 0 0 0 0 0 4G9QA 0 0 0 0 1 0 0 4G7HC 0 0 0 1 1 1 0 4G7LA 0 0 1 1 1 1 0 4G7XB 0 0 1 0 1 0 0 4G6XA 0 0 0 0 0 0 0 4B2XA 0 0 1 0 1 0 0 4G56B 0 0 0 0 0 0 0 4G59A 0 0 0 1 1 0 0 4G4SP 0 0 0 1 0 0 0 4B29A 0 0 1 0 0 0 0 4G1EB 0 0 0 0 1 0 0 4FZQA 0 1 0 1 1 1 0 2LVFA 0 0 1 1 0 1 0 4FY11 0 0 0 1 1 1 0 4B0EA 0 0 0 0 0 0 0 2LV9A 0 0 1 1 0 0 0 2LV4A 0 0 0 0 0 0 0 4FQDA 0 0 0 0 0 0 0 4AZ1A 0 0 0 0 1 0 0 4AYFB 0 0 0 0 0 0 0 4AY9B 0 0 0 0 0 0 0 4FNHA 0 1 0 1 1 0 0 4FMWA 0 1 1 1 0 1 0 4FMZA 0 0 1 0 0 0 0 4FM4B 0 0 0 0 0 0 0 4FLTA 0 0 0 1 1 1 1 4FM4A 0 0 0 0 0 0 0 4FL4C 0 0 0 0 0 0 0 4AXNA 0 0 0 0 0 0 0 4AXQA 0 0 1 1 0 1 0 4FJ6A 0 0 0 0 0 0 0 4FIPA 0 0 0 0 0 0 0 ###################################################################### #2: The real-value outputs of DBPPred, DNAbinder and DNABIND by performing blind tests on the independent PDB186 dataset are listed as follows. id actual DBPPred DNAbinder DNABIND 2MA1A 1 1 0.276915 -0.704 4LC2A 1 0.9336 0.84023 2.051 4BLFA 1 0.973 1.108416 2.672 4BJ1A 1 0.7663 0.442242 0.311 4BHXA 1 0.9949 -1.10729 4.071 4JQFA 1 0.9809 1.457138 -0.116 4JOIC 1 0.9403 0.672246 -0.227 4JOIA 1 0.9451 0.467589 1.804 4JOLA 1 1 -2.95019 6.726 4JLXA 1 0.8541 -0.11309 2.262 4IDUA 1 0.0149 -2.18512 -0.86 4ICGC 1 1 1.10231 3.973 4I99C 1 0.966 -3.15742 0.557 4I99A 1 0.4848 0.614413 0.596 4I1KA 1 0.8873 -1.12355 3.932 4HPZA 1 0.7634 -0.61661 -3.104 3W03C 1 0.6921 -0.15218 0.077 3W03A 1 0.8616 0.227333 -0.452 4HLXA 1 0.9849 -1.23817 3.03 3VZIA 1 0.8969 -0.02613 1.416 3VZHA 1 0.4744 0.108679 0.531 4HIDA 1 0.7986 -0.70805 2.106 4HD0A 1 0.0003 -1.09385 1.22 4H7AA 1 0.9964 -0.58432 3.757 4H79A 1 0.0236 1.509526 3.152 2LYJA 1 1 0.452675 2.307 2LYHA 1 0.9978 1.541248 0.238 4GS3A 1 0.9951 -1.75561 1.204 2LW1A 1 0.9993 -1.45358 0.67 4G6DB 1 0.6207 0.448783 1.234 4G6DA 1 1 0.227481 7.851 4G4KA 1 0.9822 0.620048 3.477 2LVSA 1 0.9998 2.206221 6.036 4G12A 1 0.9996 0.962024 3.203 4FW2A 1 0.004 -0.04575 1.928 2LUYA 1 0.981 -0.15015 3.614 4FE7A 1 0.7326 0.397968 1.115 4ATHA 1 0.9505 1.747189 6.199 4EXWA 1 0.9517 0.524018 1.163 4EQ6A 1 0.9222 0.78674 2.849 4EQ6B 1 0.2342 0.102278 0.728 4EOGA 1 0.7851 -0.70474 2.09 3VPRA 1 0.9955 0.310221 3.431 4E1RA 1 0.9995 -3.04605 -3.182 4DRAE 1 1 -1.3232 -0.63 4DKYA 1 0.9996 -0.14193 3.501 4DG7A 1 0.9045 0.804487 0.394 4DAMA 1 0.0014 -1.42497 1.806 4D8JA 1 0.9997 0.769264 4.068 3V9RB 1 1 -0.51059 -1.763 3V9RA 1 1 0.8291 3.024 4AD8A 1 0.3367 0.519699 0.212 3V68A 1 0.9409 0.312895 1.768 4ACOA 1 0.7774 1.257506 0.79 3V4GA 1 0.9285 0.225391 -0.99 4ABXA 1 0.9999 -0.59482 -2.014 3UX8A 1 0.0022 0.519787 -0.029 3UWXB 1 0.4657 1.012695 2.265 3UQZA 1 0.6613 -0.55259 -2.173 3ULXA 1 0.8705 -0.55008 3.397 3ULJA 1 0.9984 -0.56885 -1.635 3VK0A 1 0.9978 0.521173 2.562 3U50C 1 0.8852 2.086088 0.164 3U4VA 1 0.9766 0.198298 -0.949 3U4ZA 1 0.9371 -0.32399 1.172 3VIBA 1 0.9998 -0.13727 1.407 3TUOA 1 0.0942 -2.315 -3.278 4A11A 1 0.0016 -0.22224 -1.307 4A11B 1 0.0008 -0.84019 -1.207 3TRBA 1 0.9997 -0.85184 1.041 2LJ6A 1 0.9959 -0.00195 1.831 3TOCA 1 0.4869 -0.7855 -1.578 2LI6A 1 1 2.54197 2.954 3VH5A 1 0.9994 1.38811 3.393 3VH5W 1 1 1.279837 7.402 3TEKA 1 0.9992 -1.73014 2.905 3TB6A 1 0.1112 0.806375 -0.776 3SIAA 1 0.2485 -2.5538 -0.115 3ZQJA 1 0.0305 0.433609 0.291 3B0CT 1 0.9987 0.966939 3.606 3S5RA 1 0.9984 0.002159 -0.69 3S4WB 1 0.5848 0.412903 0.163 3S4WA 1 0.8461 0.091321 -0.179 3RLOA 1 0.9015 -0.50047 0.91 3RH2A 1 0.9622 1.3265 0.508 3AXJB 1 0.1133 1.368951 1.52 3RCOA 1 0.5798 0.731486 1.369 3R4KA 1 0.8904 1.318417 0.575 3R0JA 1 0.9147 0.098725 0.962 3QU3A 1 0.9979 -1.01135 2.439 3QODA 1 0.9487 0.962513 2.23 2L8DA 1 1 -0.95058 -1.577 3Q8DA 1 0.5357 0.393487 2.787 4IAOC 0 0.3706 -0.42569 -2.098 4I8DA 0 0 -2.05259 -3.324 3ZDWA 0 0 -0.9805 -0.334 3W1SC 0 0.9501 0.710276 -0.637 4I1DA 0 0.0036 -1.16692 -1.405 4HY3A 0 0.0065 -0.58168 0.207 4HWXA 0 0.0002 -2.09538 -2.261 2M0YA 0 0.859 -0.34185 1.246 4HVTA 0 0 -0.65214 -0.241 4HWGA 0 0.0656 0.289079 1.135 4HQFA 0 0.0864 -0.15121 0.775 4HPQC 0 0.5685 1.11201 2.284 2YO3A 0 0 -0.22734 -1.284 4HN8A 0 0.0045 0.19954 0.046 4HN9A 0 0 -2.54685 -2.614 2YNQA 0 0.9612 -0.66383 0.403 2YMVA 0 0.1982 1.089232 2.006 2YMBA 0 0.9131 1.342161 2.244 4HGAB 0 0.9999 3.808839 7.383 4HESA 0 0.0131 -0.45405 -0.12 3VYWA 0 0.4177 -0.30989 3.761 3VYSC 0 0.0004 -0.68422 -2.404 2LZEA 0 1 -2.70346 -4.089 4HD1A 0 0.9998 1.254546 3.145 4HCEA 0 0.9606 -0.29969 -0.089 4HC6A 0 0.5544 -0.8657 -0.075 4HAMA 0 0.9998 1.068716 -0.123 4HAOA 0 0.0112 -0.45683 -0.895 3J27A 0 0 -0.92902 -2.17 4BBKA 0 0.9697 -0.15448 0.355 4H63F 0 0.2172 0.361899 -0.155 2LYVA 0 0.3667 0.651391 1.525 4H5XA 0 0.0637 -0.03859 1.726 4H3HB 0 0.9976 0.803238 0.533 2LY4B 0 0.0073 0.585262 -3.304 4B9KC 0 0.9864 -0.40104 2.811 4B9JA 0 0.0461 -0.86112 -2.021 4GWGA 0 0.0049 -0.67886 -2.174 4GWPF 0 0.0013 -0.09034 -1.059 4GWPG 0 0 -0.33747 -1.637 4GVWA 0 0.0105 -1.09288 -1.159 2LXUA 0 0.4414 -0.17264 -0.604 4GOSA 0 0.0014 -1.08307 -2.888 4GNVA 0 0.0006 0.102193 0.094 3J21k 0 0.2494 -0.06861 -0.43 3J21l 0 0.9999 -0.41661 6.842 3J21P 0 0.481 1.13139 6.029 3J21R 0 0.9826 -0.31198 6.691 3J20A 0 0.813 2.345839 4.294 3J21a 0 0.9988 -0.64934 7.837 4GIJA 0 0.0106 -0.55517 -2.22 4GICA 0 0.036 0.012827 -0.757 4GIQA 0 0.0018 -0.90646 -1.96 4B6AM 0 0.9862 2.016426 4.669 4GGDA 0 0.019 -0.54404 -0.169 4GF2A 0 0.2823 -0.696 2.02 4B4TI 0 0.9016 1.524317 0.037 4B4TO 0 0.9904 0.215651 -0.032 4GCWA 0 0.0002 0.030765 -0.696 4GAKA 0 0.0121 -0.12256 0.339 4G9JA 0 0.0668 -0.43612 -0.814 4G9QA 0 0.1865 0.250077 -0.457 4G7HC 0 0.0207 0.636464 1.404 4G7LA 0 0.1434 1.193684 1.596 4G7XB 0 0.342 0.908868 -0.384 4G6XA 0 0.073 -1.83343 -3.867 4B2XA 0 0.3771 0.073371 -2.116 4G56B 0 0.0001 -1.51756 -2.612 4G59A 0 0.0611 0.422792 -0.41 4G4SP 0 0.0073 -1.00605 -1.337 4B29A 0 0.1149 -1.94504 -0.657 4G1EB 0 0.0009 0.4812 -1.384 4FZQA 0 0.9924 0.280177 0.388 2LVFA 0 0.0017 -2.63588 5.416 4FY11 0 0 0.613961 2.091 4B0EA 0 0.0428 -1.70993 -3.77 2LV9A 0 0.2163 -0.78939 -0.057 2LV4A 0 0.1602 -0.34181 -1.148 4FQDA 0 0 -0.95305 -0.877 4AZ1A 0 0.1151 0.287239 0.273 4AYFB 0 0 -4.06785 -4.85 4AY9B 0 0.0004 -2.15216 -0.129 4FNHA 0 0.975 0.91778 -0.386 4FMWA 0 0.8694 -0.03362 0.954 4FMZA 0 0.045 -1.66354 -2.592 4FM4B 0 0.1248 -1.47906 -2.225 4FLTA 0 0.0273 0.397644 1.923 4FM4A 0 0.1156 -0.52347 -0.905 4FL4C 0 0 -2.70567 -3.727 4AXNA 0 0 -2.98274 -2.91 4AXQA 0 0.0573 -1.02707 1.951 4FJ6A 0 0 -0.33637 -1.418 4FIPA 0 0.0036 -0.05702 -1.33