data_7BG # _chem_comp.id 7BG _chem_comp.name "2-amino-7-benzyl-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-6-oxo-6,9-dihydro-1H-purin-7-ium" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C17 H20 F N5 O7 P" _chem_comp.mon_nstd_parent_comp_id DG _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2015-03-16 _chem_comp.pdbx_modified_date 2016-03-04 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 456.342 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 7BG _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 4YMM _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal 7BG OP2 O1 O 0 1 N N N 20.188 3.014 -0.383 5.556 -2.403 -1.587 OP2 7BG 1 7BG P P1 P 0 1 N N N 20.493 1.953 0.491 5.477 -1.370 -0.354 P 7BG 2 7BG OP1 O2 O 0 1 N N N 20.324 0.614 0.072 6.877 -0.587 -0.220 OP1 7BG 3 7BG "O5'" O3 O 0 1 N N N 19.690 2.163 1.706 4.292 -0.312 -0.616 "O5'" 7BG 4 7BG "C5'" C1 C 0 1 N N N 19.468 3.477 2.110 3.900 0.671 0.345 "C5'" 7BG 5 7BG "C4'" C2 C 0 1 N N R 17.970 3.768 2.190 2.752 1.508 -0.221 "C4'" 7BG 6 7BG "O4'" O4 O 0 1 N N N 17.610 3.079 3.290 1.548 0.715 -0.312 "O4'" 7BG 7 7BG "C3'" C3 C 0 1 N N R 17.779 5.202 2.559 2.395 2.657 0.748 "C3'" 7BG 8 7BG "O3'" O5 O 0 1 N N N 17.299 5.837 1.476 3.011 3.876 0.328 "O3'" 7BG 9 7BG "C2'" C4 C 0 1 N N S 16.669 5.230 3.498 0.857 2.766 0.651 "C2'" 7BG 10 7BG "F1'" F1 F 0 1 N N N 17.111 5.736 4.309 0.269 2.513 1.895 "F1'" 7BG 11 7BG "C1'" C5 C 0 1 N N R 16.524 3.780 3.815 0.466 1.670 -0.365 "C1'" 7BG 12 7BG N9 N1 N 0 1 Y N N 16.797 3.280 5.156 -0.794 1.035 0.029 N9 7BG 13 7BG C8 C6 C 0 1 Y N N 17.971 2.819 5.543 -0.928 -0.080 0.806 C8 7BG 14 7BG C4 C7 C 0 1 Y N N 15.932 3.064 6.133 -2.052 1.454 -0.309 C4 7BG 15 7BG N3 N2 N 0 1 N N N 14.638 3.324 6.214 -2.533 2.471 -1.034 N3 7BG 16 7BG C2 C8 C 0 1 N N N 14.000 3.024 7.316 -3.827 2.637 -1.197 C2 7BG 17 7BG N2 N3 N 0 1 N N N 12.715 3.284 7.381 -4.273 3.695 -1.948 N2 7BG 18 7BG N1 N4 N 0 1 N N N 14.659 2.457 8.371 -4.737 1.788 -0.641 N1 7BG 19 7BG C6 C9 C 0 1 N N N 15.982 2.203 8.256 -4.326 0.738 0.104 C6 7BG 20 7BG O6 O6 O 0 1 N N N 16.592 1.688 9.168 -5.133 -0.026 0.604 O6 7BG 21 7BG C5 C10 C 0 1 Y N N 16.584 2.510 7.143 -2.937 0.548 0.287 C5 7BG 22 7BG N7 N5 N 1 1 Y N N 17.845 2.377 6.784 -2.189 -0.364 0.954 N7 7BG 23 7BG C10 C11 C 0 1 N N N 18.872 1.786 7.638 -2.717 -1.493 1.725 C10 7BG 24 7BG C11 C12 C 0 1 Y N N 18.360 0.532 7.897 -2.967 -2.658 0.802 C11 7BG 25 7BG C12 C13 C 0 1 Y N N 18.232 0.077 9.196 -1.966 -3.583 0.572 C12 7BG 26 7BG C13 C14 C 0 1 Y N N 17.689 -1.177 9.415 -2.194 -4.652 -0.275 C13 7BG 27 7BG C14 C15 C 0 1 Y N N 17.250 -1.940 8.347 -3.424 -4.796 -0.891 C14 7BG 28 7BG C15 C16 C 0 1 Y N N 17.351 -1.484 7.051 -4.424 -3.870 -0.660 C15 7BG 29 7BG C16 C17 C 0 1 Y N N 17.925 -0.245 6.832 -4.198 -2.805 0.191 C16 7BG 30 7BG H1 H1 H 0 1 N N N 20.964 3.544 -0.522 6.249 -3.071 -1.497 H1 7BG 31 7BG H2 H2 H 0 1 N N N 21.156 0.158 0.125 7.118 -0.076 -1.005 H2 7BG 32 7BG H3 H3 H 0 1 N N N 19.920 3.632 3.101 3.573 0.175 1.259 H3 7BG 33 7BG H4 H4 H 0 1 N N N 19.931 4.162 1.384 4.748 1.319 0.567 H4 7BG 34 7BG H5 H5 H 0 1 N N N 17.442 3.492 1.265 3.020 1.907 -1.200 H5 7BG 35 7BG H6 H6 H 0 1 N N N 18.696 5.644 2.977 2.697 2.406 1.765 H6 7BG 36 7BG H7 H7 H 0 1 N N N 17.166 6.755 1.680 2.820 4.631 0.901 H7 7BG 37 7BG H8 H8 H 0 1 N N N 15.755 5.623 3.029 0.566 3.749 0.283 H8 7BG 38 7BG H9 H9 H 0 1 N N N 15.564 3.397 3.438 0.382 2.093 -1.366 H9 7BG 39 7BG H10 H10 H 0 1 N N N 18.875 2.805 4.952 -0.110 -0.641 1.232 H10 7BG 40 7BG H11 H11 H 0 1 N N N 12.249 3.701 6.600 -3.637 4.307 -2.350 H11 7BG 41 7BG H12 H12 H 0 1 N N N 12.202 3.065 8.211 -5.225 3.830 -2.077 H12 7BG 42 7BG H13 H13 H 0 1 N N N 14.170 2.234 9.214 -5.685 1.939 -0.781 H13 7BG 43 7BG H14 H14 H 0 1 N N N 19.836 1.721 7.113 -1.995 -1.782 2.488 H14 7BG 44 7BG H15 H15 H 0 1 N N N 18.998 2.363 8.566 -3.653 -1.200 2.202 H15 7BG 45 7BG H16 H16 H 0 1 N N N 18.550 0.690 10.026 -1.005 -3.471 1.052 H16 7BG 46 7BG H17 H17 H 0 1 N N N 17.608 -1.561 10.421 -1.412 -5.375 -0.455 H17 7BG 47 7BG H18 H18 H 0 1 N N N 16.819 -2.913 8.533 -3.602 -5.631 -1.552 H18 7BG 48 7BG H19 H19 H 0 1 N N N 16.990 -2.080 6.226 -5.385 -3.982 -1.141 H19 7BG 49 7BG H20 H20 H 0 1 N N N 18.036 0.122 5.822 -4.979 -2.082 0.371 H20 7BG 50 7BG O1 O7 O 0 1 N Y N 22.005 2.102 0.866 5.206 -2.115 0.896 O1 7BG 51 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 7BG OP2 P SING N N 1 7BG OP1 P SING N N 2 7BG P "O5'" SING N N 3 7BG "O3'" "C3'" SING N N 4 7BG "O5'" "C5'" SING N N 5 7BG "C5'" "C4'" SING N N 6 7BG "C4'" "C3'" SING N N 7 7BG "C4'" "O4'" SING N N 8 7BG "C3'" "C2'" SING N N 9 7BG "O4'" "C1'" SING N N 10 7BG "C2'" "C1'" SING N N 11 7BG "C2'" "F1'" SING N N 12 7BG "C1'" N9 SING N N 13 7BG N9 C8 SING Y N 14 7BG N9 C4 SING Y N 15 7BG C8 N7 DOUB Y N 16 7BG C4 N3 SING N N 17 7BG C4 C5 DOUB Y N 18 7BG N3 C2 DOUB N N 19 7BG N7 C5 SING Y N 20 7BG N7 C10 SING N N 21 7BG C16 C15 DOUB Y N 22 7BG C16 C11 SING Y N 23 7BG C15 C14 SING Y N 24 7BG C5 C6 SING N N 25 7BG C2 N2 SING N N 26 7BG C2 N1 SING N N 27 7BG C10 C11 SING N N 28 7BG C11 C12 DOUB Y N 29 7BG C6 N1 SING N N 30 7BG C6 O6 DOUB N N 31 7BG C14 C13 DOUB Y N 32 7BG C12 C13 SING Y N 33 7BG OP2 H1 SING N N 34 7BG OP1 H2 SING N N 35 7BG "C5'" H3 SING N N 36 7BG "C5'" H4 SING N N 37 7BG "C4'" H5 SING N N 38 7BG "C3'" H6 SING N N 39 7BG "O3'" H7 SING N N 40 7BG "C2'" H8 SING N N 41 7BG "C1'" H9 SING N N 42 7BG C8 H10 SING N N 43 7BG N2 H11 SING N N 44 7BG N2 H12 SING N N 45 7BG N1 H13 SING N N 46 7BG C10 H14 SING N N 47 7BG C10 H15 SING N N 48 7BG C12 H16 SING N N 49 7BG C13 H17 SING N N 50 7BG C14 H18 SING N N 51 7BG C15 H19 SING N N 52 7BG C16 H20 SING N N 53 7BG P O1 DOUB N N 54 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor 7BG SMILES ACDLabs 12.01 "OP(OCC1C(C(C(O1)n2c[n+](c3c2N=C(N)NC3=O)Cc4ccccc4)F)O)(=O)O" 7BG InChI InChI 1.03 "InChI=1S/C17H19FN5O7P/c18-11-13(24)10(7-29-31(26,27)28)30-16(11)23-8-22(6-9-4-2-1-3-5-9)12-14(23)20-17(19)21-15(12)25/h1-5,8,10-11,13,16,24H,6-7H2,(H4-,19,20,21,25,26,27,28)/p+1/t10-,11+,13-,16-/m1/s1" 7BG InChIKey InChI 1.03 DTTUAYCVFOVSDP-DDFXLWFNSA-O 7BG SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2n(c[n+](Cc3ccccc3)c2C(=O)N1)[C@@H]4O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]4F" 7BG SMILES CACTVS 3.385 "NC1=Nc2n(c[n+](Cc3ccccc3)c2C(=O)N1)[CH]4O[CH](CO[P](O)(O)=O)[CH](O)[CH]4F" 7BG SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "c1ccc(cc1)C[n+]2cn(c3c2C(=O)NC(=N3)N)[C@H]4[C@H]([C@@H]([C@H](O4)COP(=O)(O)O)O)F" 7BG SMILES "OpenEye OEToolkits" 1.9.2 "c1ccc(cc1)C[n+]2cn(c3c2C(=O)NC(=N3)N)C4C(C(C(O4)COP(=O)(O)O)O)F" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier 7BG "SYSTEMATIC NAME" ACDLabs 12.01 "2-amino-7-benzyl-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-6-oxo-6,9-dihydro-1H-purin-7-ium" 7BG "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "[(2R,3R,4S,5R)-5-[2-azanyl-6-oxidanylidene-7-(phenylmethyl)-1H-purin-7-ium-9-yl]-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 7BG "Create component" 2015-03-16 RCSB 7BG "Initial release" 2016-03-09 RCSB #