,Espinosa Angarica,V. et al.(2008) Prediction of TF target sites based on atomistic models of protein-DNA complexes. BMC Bioinformatics, 9:436. ,Fri Jul 18 16:21:05 2025 entries=635 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , AMINOACIDS THYMINE CYTOSINE ADENINE GUANINE AMINOACIDS ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , C2 C4 C5 C5M/C7 C6 C2 C4 C5 C6 C8 C5 C6 C2 C4 C8 C5 C6 C2 C4 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , , ARG R ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ARG R CB 0 0 0 4 0 - - - - - - - - - - - - - - CB CG 0 0 0 4 0 - - - - - - - - - - - - - - CG CZ 0 0 0 13 0 - - - - - - - - - - - - - - CZ , LYS K ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- LYS K CB 0 0 0 7 0 - - - - - - - - - - - - - - CB CG 0 0 0 5 0 - - - - - - - - - - - - - - CG CE 0 0 0 7 0 - - - - - - - - - - - - - - CE , SER S ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SER S CB 0 0 0 20 0 - - - - - - - - - - - - - - CB , THR T ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- THR T CB 0 0 0 9 0 - - - - - - - - - - - - - - CB CG2 0 0 0 14 0 - - - - - - - - - - - - - - CG2 , ASN N ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASN N CB 0 0 0 4 0 - - - - - - - - - - - - - - CB CG 0 0 0 8 0 - - - - - - - - - - - - - - CG , GLN Q ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLN Q CB 0 0 0 2 0 - - - - - - - - - - - - - - CB CG 0 0 0 8 0 - - - - - - - - - - - - - - CG , HIS H ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIS H CB 0 0 0 4 0 - - - - - - - - - - - - - - CB CG 0 0 0 1 0 - - - - - - - - - - - - - - CG CD2 0 0 0 0 0 - - - - - - - - - - - - - - CD2 , TYR Y ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TYR Y CB 0 0 0 6 0 - - - - - - - - - - - - - - CB CG 0 0 0 2 0 - - - - - - - - - - - - - - CG CD1 0 0 0 4 0 - - - - - - - - - - - - - - CD1 CD2 0 0 0 2 0 - - - - - - - - - - - - - - CD2 CZ 0 0 0 11 0 - - - - - - - - - - - - - - CZ , ALA A ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ALA A CB 0 0 0 32 0 - - - - - - - - - - - - - - CB , GLU E ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GLU E CB 0 0 0 3 0 - - - - - - - - - - - - - - CB CG 0 0 0 5 0 - - - - - - - - - - - - - - CG , ILE I ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ILE I CB 0 0 0 0 0 - - - - - - - - - - - - - - CB CG1 0 0 0 1 0 - - - - - - - - - - - - - - CG1 CG2 0 0 0 17 0 - - - - - - - - - - - - - - CG2 CD1 0 0 0 0 0 - - - - - - - - - - - - - - CD1 , ASP D ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ASP D CB 0 0 0 4 0 - - - - - - - - - - - - - - CB CG 0 0 0 6 0 - - - - - - - - - - - - - - CG , VAL V ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- VAL V CB 0 0 0 2 0 - - - - - - - - - - - - - - CB CG1 0 0 0 15 0 - - - - - - - - - - - - - - CG1 CG2 0 0 0 21 0 - - - - - - - - - - - - - - CG2 , CYS C ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CYS C CB 0 0 0 2 0 - - - - - - - - - - - - - - CB , PHE F ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PHE F CB 0 0 0 5 0 - - - - - - - - - - - - - - CB CG 0 0 0 3 0 - - - - - - - - - - - - - - CG CD1 0 0 0 1 0 - - - - - - - - - - - - - - CD1 CD2 0 0 0 10 0 - - - - - - - - - - - - - - CD2 CZ 0 0 0 20 0 - - - - - - - - - - - - - - CZ , LEU L ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- LEU L CB 0 0 0 3 0 - - - - - - - - - - - - - - CB CG 0 0 0 3 0 - - - - - - - - - - - - - - CG CD1 0 0 0 10 0 - - - - - - - - - - - - - - CD1 CD2 0 0 0 12 0 - - - - - - - - - - - - - - CD2 , MET M ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MET M CB 0 0 0 2 0 - - - - - - - - - - - - - - CB CG 0 0 0 2 0 - - - - - - - - - - - - - - CG CE 0 0 0 5 0 - - - - - - - - - - - - - - CE , TRP W ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TRP W CB 0 0 0 1 0 - - - - - - - - - - - - - - CB CG 0 0 0 2 0 - - - - - - - - - - - - - - CG CD1 0 0 0 8 0 - - - - - - - - - - - - - - CD1 CD2 0 0 0 1 0 - - - - - - - - - - - - - - CD2 , PRO P ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PRO P CB 0 0 0 6 0 - - - - - - - - - - - - - - CB CG 0 0 0 9 0 - - - - - - - - - - - - - - CG ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ,----------------------------------------------------- , AMINOACID CODE TOTAL AA TOTAL CONTACTS ,----------------------------------------------------- , ARG R 11638 1252 , LYS K 12813 493 , SER S 10758 250 , THR T 8907 143 , ASN N 7594 404 , GLN Q 7513 284 , GLY G 10850 0 , HIS H 4482 113 , TYR Y 6151 137 , ALA A 12828 32 , GLU E 12767 203 , ILE I 10815 18 , ASP D 9619 186 , VAL V 11398 38 , CYS C 2590 15 , PHE F 7286 39 , LEU L 18073 28 , MET M 3620 15 , TRP W 2388 28 , PRO P 7650 15 , ,----------------------------- ,BASE TOTAL ,----------------------------- , DT 7780 , DC 6123 , DA 7042 , DG 6156 ,----------------------------------------------------- ,Total aminoacids = 179740 ,Total bases = 27101