,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 0 3 0 4 0 2 1 1 0 1 3 0 1 0 3 2 0 0 3 NE NH1 0 9 0 15 0 6 0 9 0 1 5 0 15 0 6 13 0 3 5 NH1 NH2 0 13 0 15 0 7 1 3 0 7 7 0 8 0 5 17 0 5 3 NH2 , LYS K ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- LYS K NZ 0 4 2 19 0 6 2 3 0 9 15 0 10 0 15 20 0 2 8 NZ , SER S ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SER S OG 0 5 1 9 0 5 0 6 0 8 7 0 1 0 9 8 0 1 6 OG , THR T ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- THR T OG1 0 6 4 5 0 1 1 5 0 3 9 0 5 0 8 5 0 2 2 OG1 , ASN N ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASN N OD1 0 5 4 12 0 4 0 8 0 4 5 0 0 0 1 3 0 3 8 OD1 ND2 0 5 4 11 0 3 0 3 0 4 8 0 4 0 7 8 0 0 4 ND2 , GLN Q ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLN Q OE1 0 6 0 7 0 0 0 5 0 2 6 0 0 0 4 5 0 1 1 OE1 NE2 0 2 1 2 0 7 0 0 0 2 6 0 1 0 2 3 0 1 1 NE2 , HIS H ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIS H ND1 0 0 0 0 0 0 0 1 0 0 1 0 0 0 0 3 0 0 0 ND1 NE2 0 4 0 0 0 2 0 2 0 0 1 0 1 0 2 0 0 1 0 NE2 , TYR Y ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TYR Y OH 0 5 2 6 0 2 0 1 0 6 3 0 2 0 6 6 0 3 5 OH , GLU E ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLU E OE1 0 6 4 5 0 5 1 12 0 1 8 0 1 0 1 3 0 0 4 OE1 OE2 0 5 0 7 0 2 0 12 0 1 6 0 0 0 2 3 0 2 0 OE2 , ASP D ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASP D OD1 0 3 2 4 0 2 2 4 0 2 7 0 0 0 0 5 0 2 3 OD1 OD2 0 1 4 3 0 2 0 9 0 1 7 0 1 0 2 5 0 1 2 OD2 , CYS C ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CYS C SG - - - - 0 0 0 1 0 2 1 0 0 0 1 2 0 0 0 SG , MET M ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MET M SD 0 2 0 0 - - - - 0 0 1 0 1 - - - - - - SD , TRP W ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TRP W NE1 0 3 0 0 - - - - 0 0 1 0 0 0 1 1 0 0 2 NE1 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ,----------------------------------------------------- , AMINOACID CODE TOTAL AA TOTAL CONTACTS ,----------------------------------------------------- , ARG R 10692 1129 , LYS K 11778 460 , SER S 9894 232 , THR T 8075 136 , ASN N 6947 373 , GLN Q 6792 259 , GLY G 9915 0 , HIS H 4058 110 , TYR Y 5680 127 , ALA A 11721 34 , GLU E 11663 186 , ILE I 9953 16 , ASP D 8835 167 , VAL V 10429 36 , CYS C 2380 17 , PHE F 6673 33 , LEU L 16396 26 , MET M 3289 15 , TRP W 2187 27 , PRO P 6955 15 , ,----------------------------- ,BASE TOTAL ,----------------------------- , DT 6692 , DC 5015 , DA 6013 , DG 5086 ,----------------------------------------------------- ,Total aminoacids = 164312 ,Total bases = 22806