data_6YZ # _chem_comp.id 6YZ _chem_comp.name "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-[[oxidanyl-[oxidanyl(phosphonooxy)phosphoryl]oxy-phosphoryl]methyl]phosphinic acid" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C11 H20 N5 O18 P5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2016-07-27 _chem_comp.pdbx_modified_date 2018-09-26 _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 665.168 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 6YZ _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 5LLB _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 6YZ C11 C1 C 0 1 N N N 19.317 -22.211 15.096 -2.762 0.567 -0.266 C11 6YZ 1 6YZ C19 C2 C 0 1 N N R 22.621 -19.732 18.912 4.475 1.492 1.395 C19 6YZ 2 6YZ C18 C3 C 0 1 N N N 22.694 -21.204 18.438 3.606 2.452 0.580 C18 6YZ 3 6YZ O01 O1 O 0 1 N N N 19.490 -26.405 17.620 -7.349 -1.081 -1.921 O01 6YZ 4 6YZ P02 P1 P 0 1 N N N 18.138 -26.116 16.992 -6.965 -0.748 -0.394 P02 6YZ 5 6YZ O03 O2 O 0 1 N N N 17.142 -26.579 18.158 -7.290 -2.024 0.532 O03 6YZ 6 6YZ P04 P2 P 0 1 N N N 15.551 -26.986 18.116 -8.647 -2.670 1.110 P04 6YZ 7 6YZ O05 O3 O 0 1 N N N 14.817 -25.942 17.290 -9.662 -2.728 0.034 O05 6YZ 8 6YZ O06 O4 O 0 1 N N N 15.015 -26.938 19.506 -8.347 -4.158 1.646 O06 6YZ 9 6YZ O07 O5 O 0 1 N N N 15.241 -28.391 17.627 -9.200 -1.765 2.321 O07 6YZ 10 6YZ O08 O6 O 0 1 N N N 18.049 -24.640 16.304 -5.395 -0.401 -0.298 O08 6YZ 11 6YZ P09 P3 P 0 1 N N N 18.898 -23.246 16.538 -4.518 0.912 -0.612 P09 6YZ 12 6YZ O10 O7 O 0 1 N N N 17.899 -22.336 17.190 -4.677 1.282 -2.036 O10 6YZ 13 6YZ P12 P4 P 0 1 N N N 21.017 -22.329 14.443 -1.769 2.054 -0.621 P12 6YZ 14 6YZ O13 O8 O 0 1 N N N 21.355 -23.798 14.377 -1.942 2.457 -2.170 O13 6YZ 15 6YZ O14 O9 O 0 1 N N N 22.080 -21.619 15.422 -0.218 1.750 -0.315 O14 6YZ 16 6YZ P15 P5 P 0 1 N N N 23.365 -22.274 16.092 1.134 2.618 -0.420 P15 6YZ 17 6YZ O16 O10 O 0 1 N N N 23.125 -23.670 16.604 1.561 2.762 -1.965 O16 6YZ 18 6YZ O17 O11 O 0 1 N N N 23.696 -21.321 17.392 2.310 1.880 0.395 O17 6YZ 19 6YZ O20 O12 O 0 1 N N N 23.766 -19.213 19.151 4.728 0.298 0.637 O20 6YZ 20 6YZ C21 C4 C 0 1 N N R 23.934 -17.893 18.244 6.056 -0.150 0.987 C21 6YZ 21 6YZ N22 N1 N 0 1 Y N N 25.305 -17.769 17.966 6.597 -1.025 -0.056 N22 6YZ 22 6YZ C23 C5 C 0 1 Y N N 26.020 -18.631 17.215 6.220 -1.046 -1.366 C23 6YZ 23 6YZ N24 N2 N 0 1 Y N N 27.317 -18.201 17.160 6.905 -1.945 -2.011 N24 6YZ 24 6YZ C25 C6 C 0 1 Y N N 27.432 -17.067 17.908 7.763 -2.556 -1.159 C25 6YZ 25 6YZ C26 C7 C 0 1 Y N N 26.171 -16.774 18.429 7.579 -1.969 0.105 C26 6YZ 26 6YZ N27 N3 N 0 1 Y N N 26.022 -15.638 19.243 8.314 -2.393 1.127 N27 6YZ 27 6YZ C28 C8 C 0 1 Y N N 27.076 -14.842 19.501 9.206 -3.348 0.962 C28 6YZ 28 6YZ N29 N4 N 0 1 Y N N 28.295 -15.082 19.039 9.417 -3.927 -0.206 N29 6YZ 29 6YZ C30 C9 C 0 1 Y N N 28.524 -16.181 18.242 8.723 -3.575 -1.284 C30 6YZ 30 6YZ N31 N5 N 0 1 N N N 29.847 -16.444 17.703 8.951 -4.186 -2.504 N31 6YZ 31 6YZ C32 C10 C 0 1 N N R 23.149 -18.094 17.195 6.870 1.166 1.076 C32 6YZ 32 6YZ O33 O13 O 0 1 N N N 22.536 -16.850 16.644 8.002 1.008 1.933 O33 6YZ 33 6YZ C34 C11 C 0 1 N N S 22.017 -18.897 17.742 5.840 2.143 1.694 C34 6YZ 34 6YZ O35 O14 O 0 1 N N N 21.039 -18.118 18.237 6.042 2.255 3.105 O35 6YZ 35 6YZ O36 O15 O 0 1 N N N 24.561 -22.194 15.146 0.903 3.962 0.156 O36 6YZ 36 6YZ O37 O16 O 0 1 N N N 21.099 -21.673 13.073 -2.231 3.171 0.233 O37 6YZ 37 6YZ O38 O17 O 0 1 N N N 20.119 -23.557 17.423 -5.020 2.127 0.317 O38 6YZ 38 6YZ O39 O18 O 0 1 N N N 17.876 -27.011 15.837 -7.755 0.414 0.072 O39 6YZ 39 6YZ H111 H1 H 0 0 N N N 19.145 -21.163 15.381 -2.645 0.294 0.783 H111 6YZ 40 6YZ H112 H2 H 0 0 N N N 18.631 -22.487 14.282 -2.422 -0.255 -0.895 H112 6YZ 41 6YZ H191 H3 H 0 0 N N N 21.938 -19.673 19.773 3.973 1.240 2.329 H191 6YZ 42 6YZ H181 H4 H 0 0 N N N 21.714 -21.513 18.045 3.513 3.399 1.111 H181 6YZ 43 6YZ H182 H5 H 0 0 N N N 22.969 -21.850 19.285 4.069 2.624 -0.392 H182 6YZ 44 6YZ H1 H6 H 0 1 N N N 19.914 -27.112 17.148 -6.868 -1.833 -2.293 H1 6YZ 45 6YZ H2 H7 H 0 1 N N N 14.341 -26.271 19.563 -9.122 -4.609 2.009 H2 6YZ 46 6YZ H3 H8 H 0 1 N N N 14.642 -28.346 16.891 -8.585 -1.682 3.062 H3 6YZ 47 6YZ H4 H9 H 0 1 N N N 21.557 -24.037 13.480 -1.658 1.770 -2.789 H4 6YZ 48 6YZ H5 H10 H 0 1 N N N 23.775 -24.258 16.238 1.728 1.918 -2.407 H5 6YZ 49 6YZ H211 H11 H 0 0 N N N 23.591 -17.036 18.842 6.048 -0.662 1.949 H211 6YZ 50 6YZ H231 H12 H 0 0 N N N 25.631 -19.517 16.735 5.464 -0.412 -1.804 H231 6YZ 51 6YZ H281 H13 H 0 0 N N N 26.921 -13.966 20.114 9.787 -3.669 1.814 H281 6YZ 52 6YZ H311 H14 H 0 0 N N N 30.479 -15.731 18.006 8.446 -3.913 -3.286 H311 6YZ 53 6YZ H312 H15 H 0 0 N N N 30.168 -17.334 18.028 9.617 -4.889 -2.578 H312 6YZ 54 6YZ H321 H16 H 0 0 N N N 23.652 -18.652 16.392 7.177 1.501 0.085 H321 6YZ 55 6YZ H331 H17 H 0 0 N N N 23.216 -16.296 16.279 8.492 1.827 2.092 H331 6YZ 56 6YZ H341 H18 H 0 0 N N N 21.644 -19.586 16.970 5.911 3.122 1.221 H341 6YZ 57 6YZ H351 H19 H 0 0 N N N 20.339 -18.664 18.575 6.909 2.604 3.351 H351 6YZ 58 6YZ H6 H20 H 0 1 N N N 20.030 -23.107 18.255 -4.945 1.954 1.266 H6 6YZ 59 # 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 6YZ O37 P12 DOUB N N 1 6YZ O13 P12 SING N N 2 6YZ P12 C11 SING N N 3 6YZ P12 O14 SING N N 4 6YZ C11 P09 SING N N 5 6YZ O36 P15 DOUB N N 6 6YZ O14 P15 SING N N 7 6YZ O39 P02 DOUB N N 8 6YZ P15 O16 SING N N 9 6YZ P15 O17 SING N N 10 6YZ O08 P09 SING N N 11 6YZ O08 P02 SING N N 12 6YZ P09 O10 DOUB N N 13 6YZ P09 O38 SING N N 14 6YZ O33 C32 SING N N 15 6YZ P02 O01 SING N N 16 6YZ P02 O03 SING N N 17 6YZ N24 C23 DOUB Y N 18 6YZ N24 C25 SING Y N 19 6YZ C32 C34 SING N N 20 6YZ C32 C21 SING N N 21 6YZ C23 N22 SING Y N 22 6YZ O05 P04 DOUB N N 23 6YZ O17 C18 SING N N 24 6YZ O07 P04 SING N N 25 6YZ N31 C30 SING N N 26 6YZ C34 O35 SING N N 27 6YZ C34 C19 SING N N 28 6YZ C25 C30 DOUB Y N 29 6YZ C25 C26 SING Y N 30 6YZ N22 C21 SING N N 31 6YZ N22 C26 SING Y N 32 6YZ P04 O03 SING N N 33 6YZ P04 O06 SING N N 34 6YZ C30 N29 SING Y N 35 6YZ C21 O20 SING N N 36 6YZ C26 N27 DOUB Y N 37 6YZ C18 C19 SING N N 38 6YZ C19 O20 SING N N 39 6YZ N29 C28 DOUB Y N 40 6YZ N27 C28 SING Y N 41 6YZ C11 H111 SING N N 42 6YZ C11 H112 SING N N 43 6YZ C19 H191 SING N N 44 6YZ C18 H181 SING N N 45 6YZ C18 H182 SING N N 46 6YZ O01 H1 SING N N 47 6YZ O06 H2 SING N N 48 6YZ O07 H3 SING N N 49 6YZ O13 H4 SING N N 50 6YZ O16 H5 SING N N 51 6YZ C21 H211 SING N N 52 6YZ C23 H231 SING N N 53 6YZ C28 H281 SING N N 54 6YZ N31 H311 SING N N 55 6YZ N31 H312 SING N N 56 6YZ C32 H321 SING N N 57 6YZ O33 H331 SING N N 58 6YZ C34 H341 SING N N 59 6YZ O35 H351 SING N N 60 6YZ O38 H6 SING N N 61 # 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 6YZ InChI InChI 1.03 "InChI=1S/C11H20N5O18P5/c12-9-6-10(14-2-13-9)16(3-15-6)11-8(18)7(17)5(31-11)1-30-38(26,27)32-35(19,20)4-36(21,22)33-39(28,29)34-37(23,24)25/h2-3,5,7-8,11,17-18H,1,4H2,(H,19,20)(H,21,22)(H,26,27)(H,28,29)(H2,12,13,14)(H2,23,24,25)/t5-,7-,8-,11-/m1/s1" 6YZ InChIKey InChI 1.03 LJGIQVJCHMLGQW-IOSLPCCCSA-N 6YZ SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)C[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O" 6YZ SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)C[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O" 6YZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(CP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)O)N" 6YZ SMILES "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(CP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)O)N" # 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 6YZ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-[[oxidanyl-[oxidanyl(phosphonooxy)phosphoryl]oxy-phosphoryl]methyl]phosphinic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 6YZ "Create component" 2016-07-27 EBI 6YZ "Initial release" 2017-10-11 RCSB 6YZ "Other modification" 2018-09-26 EBI #