,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 13 01:49:46 2024 entries=634 ,----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- , 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 34 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 19 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 11680 1243 , LYS K 12775 494 , SER S 10746 248 , THR T 8928 143 , ASN N 7580 404 , GLN Q 7534 284 , GLY G 10883 0 , HIS H 4483 114 , TYR Y 6161 136 , ALA A 12886 34 , GLU E 12778 205 , ILE I 10804 18 , ASP D 9634 183 , VAL V 11410 38 , CYS C 2590 15 , PHE F 7289 38 , LEU L 18142 28 , MET M 3631 15 , TRP W 2399 28 , PRO P 7699 15 , ,----------------------------- ,BASE TOTAL ,----------------------------- , DT 7577 , DC 5925 , DA 6843 , DG 5956 ,----------------------------------------------------- ,Total aminoacids = 180032 ,Total bases = 26301