,Espinosa Angarica,V. et al.(2008) Prediction of TF target sites based on atomistic models of protein-DNA complexes. BMC Bioinformatics, 9:436. ,Sun Jan 4 10:13:56 2026 entries=588 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , AMINOACIDS THYMINE CYTOSINE ADENINE GUANINE AMINOACIDS ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , N1 O2 N3 O4 N1 O2 N3 N4 N9 N7 N6 N1 N3 N9 N7 O6 N1 N2 N3 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , , ARG R ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ARG R NE -7.030 0.512 -7.030 0.800 -7.030 0.396 -0.297 -0.297 -7.030 -0.255 0.842 -7.030 -0.255 -7.030 1.192 0.787 -7.030 -7.030 1.192 NE NH1 -7.030 1.611 -7.030 2.121 -7.030 1.494 -7.030 1.899 -7.030 -0.255 1.353 -7.030 2.452 -7.030 1.885 2.658 -7.030 1.192 1.703 NH1 NH2 -7.030 1.978 -7.030 2.121 -7.030 1.648 -0.297 0.801 -7.030 1.690 1.690 -7.030 1.823 -7.030 1.703 2.926 -7.030 1.703 1.192 NH2 , LYS K ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- LYS K NZ -6.133 0.502 -0.190 2.059 -6.133 1.195 0.098 0.503 -6.133 1.642 2.153 -6.133 1.748 -6.133 2.503 2.790 -6.133 0.489 1.874 NZ , SER S ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SER S OG -5.451 1.582 -0.024 2.169 -5.451 1.870 -5.451 2.052 -5.451 2.381 2.248 -5.451 0.305 -5.451 2.849 2.731 -5.451 0.653 2.443 OG , THR T ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- THR T OG1 -4.920 2.498 2.093 2.316 -4.920 0.997 0.997 2.604 -4.920 2.135 3.233 -4.920 2.646 -4.920 3.465 2.995 -4.920 2.079 2.079 OG1 , ASN N ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASN N OD1 -5.924 2.155 1.931 3.030 -5.924 2.220 -5.924 2.913 -5.924 2.261 2.485 -5.924 -5.924 -5.924 1.225 2.324 -5.924 2.324 3.304 OD1 ND2 -5.924 2.155 1.931 2.943 -5.924 1.932 -5.924 1.932 -5.924 2.261 2.954 -5.924 2.261 -5.924 3.171 3.304 -5.924 -5.924 2.611 ND2 , GLN Q ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLN Q OE1 -5.561 2.723 -5.561 2.877 -5.561 -5.561 -5.561 2.829 -5.561 1.955 3.053 -5.561 -5.561 -5.561 2.997 3.220 -5.561 1.612 1.612 OE1 NE2 -5.561 1.625 0.932 1.625 -5.561 3.165 -5.561 -5.561 -5.561 1.955 3.053 -5.561 1.262 -5.561 2.304 2.710 -5.561 1.612 1.612 NE2 , HIS H ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIS H ND1 -4.710 -4.710 -4.710 -4.710 -4.710 -4.710 -4.710 2.586 -4.710 -4.710 2.628 -4.710 -4.710 -4.710 -4.710 4.076 -4.710 -4.710 -4.710 ND1 NE2 -4.710 3.684 -4.710 -4.710 -4.710 3.279 -4.710 3.279 -4.710 -4.710 2.628 -4.710 2.628 -4.710 3.670 -4.710 -4.710 2.977 -4.710 NE2 , TYR Y ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TYR Y OH -4.852 2.735 1.820 2.917 -4.852 2.108 -4.852 1.416 -4.852 3.247 2.555 -4.852 2.149 -4.852 3.597 3.597 -4.852 2.904 3.415 OH , GLU E ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLU E OE1 -5.231 2.512 2.107 2.330 -5.231 2.618 1.010 3.493 -5.231 1.052 3.130 -5.231 1.052 -5.231 1.401 2.499 -5.231 -5.231 2.786 OE1 OE2 -5.231 2.330 -5.231 2.666 -5.231 1.702 -5.231 3.493 -5.231 1.052 2.842 -5.231 -5.231 -5.231 2.093 2.499 -5.231 2.093 -5.231 OE2 , ASP D ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASP D OD1 -5.124 2.204 1.799 2.491 -5.124 2.087 2.087 2.780 -5.124 2.129 3.381 -5.124 -5.124 -5.124 -5.124 3.394 -5.124 2.478 2.883 OD1 OD2 -5.124 1.107 2.491 2.204 -5.124 2.087 -5.124 3.591 -5.124 1.436 3.381 -5.124 1.436 -5.124 2.478 3.394 -5.124 1.786 2.478 OD2 , CYS C ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CYS C SG - - - - -2.890 -2.890 -2.890 4.246 -2.890 4.980 4.288 -2.890 -2.890 -2.890 4.637 5.330 -2.890 -2.890 -2.890 SG , MET M ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MET M SD -2.773 4.445 -2.773 -2.773 - - - - -2.773 -2.773 4.082 -2.773 4.082 - - - - - - SD , TRP W ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TRP W NE1 -3.332 4.698 -3.332 -3.332 - - - - -3.332 -3.332 3.930 -3.332 -3.332 -3.332 4.280 4.280 -3.332 -3.332 4.973 NE1