data_YOY # _chem_comp.id YOY _chem_comp.name "[[(2S,3aS,5S,6R,6aS)-2-dodecyl-6-oxidanyl-3a,5,6,6a-tetrahydrofuro[2,3-d][1,3]dioxol-5-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H47 N5 O14 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2019-11-08 _chem_comp.pdbx_modified_date 2021-03-26 _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 739.645 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YOY _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 6L71 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # # 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 YOY N N1 N 0 1 N N N -19.909 19.052 -1.677 6.772 4.927 4.687 N YOY 1 YOY C C1 C 0 1 Y N N -19.569 17.654 -1.532 6.355 5.080 3.376 C YOY 2 YOY O O1 O 0 1 N N N -17.965 13.616 -4.425 4.468 1.334 -0.753 O YOY 3 YOY C1 C2 C 0 1 Y N N -18.778 15.887 -0.250 5.789 6.445 1.603 C1 YOY 4 YOY C10 C3 C 0 1 N N S -12.835 12.554 -15.166 -3.624 -4.648 2.096 C10 YOY 5 YOY C11 C4 C 0 1 N N S -11.643 13.895 -16.542 -5.678 -4.036 1.210 C11 YOY 6 YOY C12 C5 C 0 1 N N N -11.909 15.010 -17.496 -5.868 -2.925 0.176 C12 YOY 7 YOY C13 C6 C 0 1 N N N -12.441 16.304 -16.822 -6.444 -1.684 0.861 C13 YOY 8 YOY C14 C7 C 0 1 N N N -13.251 17.141 -17.851 -6.634 -0.572 -0.173 C14 YOY 9 YOY C15 C8 C 0 1 N N S -12.023 13.428 -14.369 -4.342 -5.877 1.459 C15 YOY 10 YOY C16 C9 C 0 1 N N R -12.925 14.086 -13.391 -3.198 -6.518 0.638 C16 YOY 11 YOY C17 C10 C 0 1 N N S -19.492 11.984 -5.422 5.735 1.655 -2.766 C17 YOY 12 YOY C18 C11 C 0 1 N N R -20.301 12.917 -4.694 6.285 2.546 -1.626 C18 YOY 13 YOY C19 C12 C 0 1 N N N -13.347 18.620 -17.378 -7.210 0.669 0.512 C19 YOY 14 YOY C2 C13 C 0 1 Y N N -19.371 15.437 -2.423 5.675 4.178 1.246 C2 YOY 15 YOY C20 C14 C 0 1 N N N -14.701 19.243 -17.802 -7.399 1.780 -0.523 C20 YOY 16 YOY C21 C15 C 0 1 N N N -15.054 20.454 -16.886 -7.976 3.021 0.162 C21 YOY 17 YOY C22 C16 C 0 1 N N N -14.603 21.782 -17.548 -8.165 4.133 -0.872 C22 YOY 18 YOY C23 C17 C 0 1 N N N -15.365 22.989 -16.919 -8.741 5.373 -0.187 C23 YOY 19 YOY C24 C18 C 0 1 N N N -14.445 23.773 -15.961 -8.931 6.485 -1.221 C24 YOY 20 YOY C25 C19 C 0 1 N N N -14.275 25.225 -16.470 -9.507 7.726 -0.536 C25 YOY 21 YOY C26 C20 C 0 1 N N N -13.653 26.087 -15.368 -9.696 8.837 -1.571 C26 YOY 22 YOY C27 C21 C 0 1 N N N -12.126 25.930 -15.367 -10.273 10.078 -0.886 C27 YOY 23 YOY C3 C22 C 0 1 Y N N -20.108 15.697 -4.554 5.800 2.015 1.655 C3 YOY 24 YOY C4 C23 C 0 1 Y N N -19.725 16.808 -2.602 6.096 3.959 2.568 C4 YOY 25 YOY C5 C24 C 0 1 N N R -19.391 13.618 -3.792 5.065 2.646 -0.675 C5 YOY 26 YOY C6 C25 C 0 1 N N R -18.186 12.604 -5.590 4.537 0.923 -2.129 C6 YOY 27 YOY C7 C26 C 0 1 N N N -18.142 13.300 -6.893 4.749 -0.590 -2.210 C7 YOY 28 YOY C8 C27 C 0 1 N N N -13.976 12.206 -12.235 -0.856 -5.661 0.319 C8 YOY 29 YOY C9 C28 C 0 1 N N S -14.129 13.261 -13.304 -2.341 -5.302 0.232 C9 YOY 30 YOY N1 N2 N 0 1 Y N N -19.098 17.186 -0.386 6.186 6.290 2.853 N1 YOY 31 YOY N2 N3 N 0 1 Y N N -18.909 15.021 -1.254 5.539 5.426 0.809 N2 YOY 32 YOY N3 N4 N 0 1 Y N N -19.665 14.969 -3.595 5.500 2.934 0.694 N3 YOY 33 YOY N4 N5 N 0 1 Y N N -20.211 16.946 -4.027 6.152 2.618 2.753 N4 YOY 34 YOY O1 O2 O 0 1 N N N -18.517 12.359 -7.887 3.585 -1.261 -1.724 O1 YOY 35 YOY O13 O3 O 0 1 N N N -11.438 14.400 -15.237 -5.268 -5.245 0.550 O13 YOY 36 YOY O14 O4 O 0 1 N N N -12.257 14.196 -12.100 -2.441 -7.422 1.445 O14 YOY 37 YOY O15 O5 O 0 1 N N N -19.306 10.736 -4.640 5.303 2.459 -3.865 O15 YOY 38 YOY O16 O6 O 0 1 N N N -21.288 12.166 -3.894 6.654 3.835 -2.119 O16 YOY 39 YOY O2 O7 O 0 1 N N N -17.819 11.276 -10.144 3.479 -3.461 -3.159 O2 YOY 40 YOY O3 O8 O 0 1 N N N -18.794 13.351 -10.244 4.593 -3.421 -0.894 O3 YOY 41 YOY O4 O9 O 0 1 N N N -16.400 13.231 -9.297 2.075 -3.267 -0.945 O4 YOY 42 YOY O5 O10 O 0 1 N N N -13.882 13.272 -9.495 1.981 -5.789 -0.986 O5 YOY 43 YOY O6 O11 O 0 1 N N N -14.791 11.220 -9.010 2.122 -4.675 1.275 O6 YOY 44 YOY O7 O12 O 0 1 N N N -15.146 12.130 -11.443 -0.073 -4.570 -0.168 O7 YOY 45 YOY O8 O13 O 0 1 N N N -14.262 12.561 -14.613 -2.637 -4.240 1.142 O8 YOY 46 YOY O9 O14 O 0 1 N N N -12.823 13.046 -16.445 -4.665 -3.654 2.147 O9 YOY 47 YOY P P1 P 0 1 N N N -17.910 12.543 -9.416 3.458 -2.865 -1.664 P YOY 48 YOY P1 P2 P 0 1 N N N -15.035 12.434 -9.797 1.536 -4.601 -0.223 P1 YOY 49 YOY H1 H1 H 0 1 N N N -19.729 19.530 -0.817 6.944 5.708 5.235 H1 YOY 50 YOY H2 H2 H 0 1 N N N -19.355 19.456 -2.405 6.888 4.038 5.058 H2 YOY 51 YOY H3 H3 H 0 1 N N N -18.404 15.536 0.700 5.663 7.447 1.219 H3 YOY 52 YOY H4 H4 H 0 1 N N N -12.442 11.527 -15.129 -3.195 -4.871 3.073 H4 YOY 53 YOY H5 H5 H 0 1 N N N -10.775 13.310 -16.881 -6.617 -4.207 1.737 H5 YOY 54 YOY H6 H6 H 0 1 N N N -12.656 14.669 -18.228 -4.906 -2.678 -0.273 H6 YOY 55 YOY H7 H7 H 0 1 N N N -10.970 15.252 -18.016 -6.555 -3.264 -0.600 H7 YOY 56 YOY H8 H8 H 0 1 N N N -11.592 16.900 -16.455 -7.406 -1.930 1.310 H8 YOY 57 YOY H9 H9 H 0 1 N N N -13.092 16.034 -15.978 -5.757 -1.345 1.637 H9 YOY 58 YOY H10 H10 H 0 1 N N N -14.264 16.722 -17.944 -5.672 -0.326 -0.622 H10 YOY 59 YOY H11 H11 H 0 1 N N N -12.747 17.103 -18.828 -7.320 -0.911 -0.949 H11 YOY 60 YOY H12 H12 H 0 1 N N N -11.245 12.859 -13.839 -4.801 -6.553 2.180 H12 YOY 61 YOY H13 H13 H 0 1 N N N -13.190 15.089 -13.758 -3.592 -7.023 -0.244 H13 YOY 62 YOY H14 H14 H 0 1 N N N -19.940 11.755 -6.400 6.492 0.941 -3.091 H14 YOY 63 YOY H15 H15 H 0 1 N N N -20.805 13.623 -5.370 7.128 2.066 -1.129 H15 YOY 64 YOY H16 H16 H 0 1 N N N -13.261 18.655 -16.282 -8.172 0.422 0.961 H16 YOY 65 YOY H17 H17 H 0 1 N N N -12.527 19.197 -17.829 -6.523 1.007 1.287 H17 YOY 66 YOY H18 H18 H 0 1 N N N -14.631 19.586 -18.845 -6.437 2.026 -0.972 H18 YOY 67 YOY H19 H19 H 0 1 N N N -15.492 18.483 -17.718 -8.086 1.441 -1.298 H19 YOY 68 YOY H20 H20 H 0 1 N N N -16.142 20.481 -16.724 -8.938 2.774 0.611 H20 YOY 69 YOY H21 H21 H 0 1 N N N -14.542 20.339 -15.919 -7.289 3.360 0.938 H21 YOY 70 YOY H22 H22 H 0 1 N N N -14.817 21.740 -18.626 -7.203 4.379 -1.321 H22 YOY 71 YOY H23 H23 H 0 1 N N N -13.522 21.915 -17.393 -8.852 3.794 -1.648 H23 YOY 72 YOY H24 H24 H 0 1 N N N -15.706 23.659 -17.722 -9.703 5.127 0.262 H24 YOY 73 YOY H25 H25 H 0 1 N N N -16.235 22.615 -16.359 -8.054 5.712 0.589 H25 YOY 74 YOY H26 H26 H 0 1 N N N -14.892 23.788 -14.956 -7.969 6.732 -1.670 H26 YOY 75 YOY H27 H27 H 0 1 N N N -13.461 23.284 -15.917 -9.618 6.146 -1.997 H27 YOY 76 YOY H28 H28 H 0 1 N N N -13.618 25.229 -17.352 -10.469 7.479 -0.087 H28 YOY 77 YOY H29 H29 H 0 1 N N N -15.259 25.634 -16.743 -8.820 8.065 0.239 H29 YOY 78 YOY H30 H30 H 0 1 N N N -13.909 27.142 -15.544 -8.734 9.084 -2.020 H30 YOY 79 YOY H31 H31 H 0 1 N N N -14.051 25.771 -14.392 -10.383 8.499 -2.346 H31 YOY 80 YOY H32 H32 H 0 1 N N N -11.693 26.554 -14.571 -11.235 9.832 -0.437 H32 YOY 81 YOY H33 H33 H 0 1 N N N -11.866 24.876 -15.189 -9.586 10.417 -0.110 H33 YOY 82 YOY H34 H34 H 0 1 N N N -11.724 26.247 -16.341 -10.408 10.870 -1.623 H34 YOY 83 YOY H35 H35 H 0 1 N N N -20.347 15.386 -5.560 5.756 0.944 1.523 H35 YOY 84 YOY H36 H36 H 0 1 N N N -19.343 13.088 -2.829 4.367 3.407 -1.025 H36 YOY 85 YOY H37 H37 H 0 1 N N N -17.396 11.840 -5.549 3.618 1.198 -2.645 H37 YOY 86 YOY H38 H38 H 0 1 N N N -17.124 13.669 -7.089 4.928 -0.877 -3.246 H38 YOY 87 YOY H39 H39 H 0 1 N N N -18.845 14.146 -6.892 5.610 -0.869 -1.602 H39 YOY 88 YOY H40 H40 H 0 1 N N N -13.798 11.231 -12.712 -0.592 -5.863 1.357 H40 YOY 89 YOY H41 H41 H 0 1 N N N -13.120 12.462 -11.593 -0.661 -6.547 -0.284 H41 YOY 90 YOY H42 H42 H 0 1 N N N -15.017 13.880 -13.105 -2.588 -4.998 -0.785 H42 YOY 91 YOY H43 H43 H 0 1 N N N -12.838 14.618 -11.477 -1.711 -7.851 0.978 H43 YOY 92 YOY H44 H44 H 0 1 N N N -20.147 10.311 -4.516 6.006 2.986 -4.267 H44 YOY 93 YOY H45 H45 H 0 1 N N N -21.830 12.775 -3.407 7.354 3.815 -2.786 H45 YOY 94 YOY H46 H46 H 0 1 N N N -18.345 11.325 -10.933 2.761 -3.139 -3.721 H46 YOY 95 YOY H47 H47 H 0 1 N N N -13.974 11.310 -8.534 1.870 -3.927 1.833 H47 YOY 96 # # 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 YOY C14 C19 SING N N 1 YOY C14 C13 SING N N 2 YOY C20 C19 SING N N 3 YOY C20 C21 SING N N 4 YOY C22 C23 SING N N 5 YOY C22 C21 SING N N 6 YOY C12 C13 SING N N 7 YOY C12 C11 SING N N 8 YOY C23 C24 SING N N 9 YOY C11 O9 SING N N 10 YOY C11 O13 SING N N 11 YOY C25 C24 SING N N 12 YOY C25 C26 SING N N 13 YOY O9 C10 SING N N 14 YOY C26 C27 SING N N 15 YOY O13 C15 SING N N 16 YOY C10 O8 SING N N 17 YOY C10 C15 SING N N 18 YOY O8 C9 SING N N 19 YOY C15 C16 SING N N 20 YOY C16 C9 SING N N 21 YOY C16 O14 SING N N 22 YOY C9 C8 SING N N 23 YOY C8 O7 SING N N 24 YOY O7 P1 SING N N 25 YOY O3 P DOUB N N 26 YOY O2 P SING N N 27 YOY P1 O5 DOUB N N 28 YOY P1 O4 SING N N 29 YOY P1 O6 SING N N 30 YOY P O4 SING N N 31 YOY P O1 SING N N 32 YOY O1 C7 SING N N 33 YOY C7 C6 SING N N 34 YOY C6 C17 SING N N 35 YOY C6 O SING N N 36 YOY C17 C18 SING N N 37 YOY C17 O15 SING N N 38 YOY C18 O16 SING N N 39 YOY C18 C5 SING N N 40 YOY C3 N4 DOUB Y N 41 YOY C3 N3 SING Y N 42 YOY O C5 SING N N 43 YOY N4 C4 SING Y N 44 YOY C5 N3 SING N N 45 YOY N3 C2 SING Y N 46 YOY C4 C2 DOUB Y N 47 YOY C4 C SING Y N 48 YOY C2 N2 SING Y N 49 YOY N C SING N N 50 YOY C N1 DOUB Y N 51 YOY N2 C1 DOUB Y N 52 YOY N1 C1 SING Y N 53 YOY N H1 SING N N 54 YOY N H2 SING N N 55 YOY C1 H3 SING N N 56 YOY C10 H4 SING N N 57 YOY C11 H5 SING N N 58 YOY C12 H6 SING N N 59 YOY C12 H7 SING N N 60 YOY C13 H8 SING N N 61 YOY C13 H9 SING N N 62 YOY C14 H10 SING N N 63 YOY C14 H11 SING N N 64 YOY C15 H12 SING N N 65 YOY C16 H13 SING N N 66 YOY C17 H14 SING N N 67 YOY C18 H15 SING N N 68 YOY C19 H16 SING N N 69 YOY C19 H17 SING N N 70 YOY C20 H18 SING N N 71 YOY C20 H19 SING N N 72 YOY C21 H20 SING N N 73 YOY C21 H21 SING N N 74 YOY C22 H22 SING N N 75 YOY C22 H23 SING N N 76 YOY C23 H24 SING N N 77 YOY C23 H25 SING N N 78 YOY C24 H26 SING N N 79 YOY C24 H27 SING N N 80 YOY C25 H28 SING N N 81 YOY C25 H29 SING N N 82 YOY C26 H30 SING N N 83 YOY C26 H31 SING N N 84 YOY C27 H32 SING N N 85 YOY C27 H33 SING N N 86 YOY C27 H34 SING N N 87 YOY C3 H35 SING N N 88 YOY C5 H36 SING N N 89 YOY C6 H37 SING N N 90 YOY C7 H38 SING N N 91 YOY C7 H39 SING N N 92 YOY C8 H40 SING N N 93 YOY C8 H41 SING N N 94 YOY C9 H42 SING N N 95 YOY O14 H43 SING N N 96 YOY O15 H44 SING N N 97 YOY O16 H45 SING N N 98 YOY O2 H46 SING N N 99 YOY O6 H47 SING N N 100 # # 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 YOY InChI InChI 1.03 "InChI=1S/C28H47N5O14P2/c1-2-3-4-5-6-7-8-9-10-11-12-19-45-24-22(35)18(44-28(24)46-19)14-42-49(39,40)47-48(37,38)41-13-17-21(34)23(36)27(43-17)33-16-32-20-25(29)30-15-31-26(20)33/h15-19,21-24,27-28,34-36H,2-14H2,1H3,(H,37,38)(H,39,40)(H2,29,30,31)/t17-,18+,19+,21-,22-,23-,24+,27-,28+/m1/s1" YOY InChIKey InChI 1.03 KJBRVZZXXRAVKC-XBVYZWAMSA-N YOY SMILES_CANONICAL CACTVS 3.385 "CCCCCCCCCCCC[C@@H]1O[C@@H]2O[C@@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@@H]2O1" YOY SMILES CACTVS 3.385 "CCCCCCCCCCCC[CH]1O[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O1" YOY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCCCCCCCCC[C@H]1O[C@H]2[C@@H]([C@@H](O[C@H]2O1)COP(=O)(O)OP(=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)O" YOY SMILES "OpenEye OEToolkits" 2.0.7 "CCCCCCCCCCCCC1OC2C(C(OC2O1)COP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)O" # _pdbx_chem_comp_identifier.comp_id YOY _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[[(2~{S},3~{a}~{S},5~{S},6~{R},6~{a}~{S})-2-dodecyl-6-oxidanyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]dioxol-5-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen 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 YOY "Create component" 2019-11-08 PDBJ YOY "Initial release" 2021-03-31 RCSB ##