,Espinosa Angarica,V. et al.(2008) Prediction of TF target sites based on atomistic models of protein-DNA complexes. BMC Bioinformatics, 9:436. ,Fri Dec 15 06:53:48 2023 entries=611 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , 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 4 0 7 0 1 1 1 0 0 4 0 1 0 5 4 0 0 3 NE NH1 0 12 1 11 0 6 0 10 0 2 6 0 18 0 8 16 0 3 5 NH1 NH2 0 18 1 20 0 8 1 4 0 6 10 0 11 0 9 12 0 5 2 NH2 , LYS K ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- LYS K NZ 0 4 2 13 0 7 2 2 0 9 14 0 8 0 16 26 0 3 12 NZ , SER S ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SER S OG 0 5 1 11 0 5 0 7 0 8 7 0 2 0 9 9 0 3 6 OG , THR T ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- THR T OG1 0 6 4 8 0 3 1 5 0 3 9 0 6 0 8 4 0 2 2 OG1 , ASN N ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASN N OD1 0 4 3 13 0 4 0 7 0 4 7 0 0 0 2 7 0 4 9 OD1 ND2 0 3 3 15 0 3 0 5 0 3 5 0 4 0 8 6 0 0 4 ND2 , GLN Q ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLN Q OE1 0 5 0 9 0 1 0 11 0 1 9 0 1 0 4 4 0 2 1 OE1 NE2 0 2 1 4 0 5 0 0 0 2 5 0 2 0 3 4 0 1 1 NE2 , HIS H ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIS H ND1 0 0 0 0 0 0 0 1 0 1 1 0 0 0 0 3 0 0 0 ND1 NE2 0 4 0 1 0 2 0 2 0 0 1 0 1 0 2 0 0 1 0 NE2 , TYR Y ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TYR Y OH 0 7 2 6 0 1 0 1 0 6 3 0 1 0 6 5 0 3 5 OH , GLU E ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLU E OE1 0 6 4 8 0 6 1 14 0 0 7 0 1 0 2 4 0 1 4 OE1 OE2 0 5 0 5 0 3 0 15 0 2 6 0 0 0 4 5 0 2 0 OE2 , ASP D ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASP D OD1 0 3 3 5 0 2 2 5 0 3 6 0 1 0 0 6 0 2 3 OD1 OD2 0 1 4 6 0 2 0 11 0 2 8 0 1 0 3 5 0 1 2 OD2 , CYS C ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CYS C SG 0 0 0 1 0 0 0 1 0 0 1 0 0 0 1 0 0 0 0 SG , MET M ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MET M SD 0 1 0 0 - - - - 0 0 1 0 1 0 1 0 0 0 0 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 11010 1219 , LYS K 11888 476 , SER S 10262 246 , THR T 8397 136 , ASN N 7031 384 , GLN Q 7159 278 , GLY G 10321 0 , HIS H 4292 111 , TYR Y 5711 135 , ALA A 12310 32 , GLU E 11974 203 , ILE I 9986 18 , ASP D 8993 193 , VAL V 10792 35 , CYS C 2504 14 , PHE F 6858 37 , LEU L 16935 28 , MET M 3468 17 , TRP W 2246 24 , PRO P 7261 19 , ,----------------------------- ,BASE TOTAL ,----------------------------- , DT 7330 , DC 5889 , DA 6629 , DG 5959 ,----------------------------------------------------- ,Total aminoacids = 169398 ,Total bases = 25807