data_1QD # _chem_comp.id 1QD _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] [(2~{R},3~{S},4~{R},5~{R})-5-(5-iodanylisoquinolin-2-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H28 I N6 O13 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2021-06-23 _chem_comp.pdbx_modified_date 2022-03-18 _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 797.364 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 1QD _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 7NAG _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 1QD O10 O1 O 0 1 N N N -34.576 28.703 8.334 1.363 -1.964 2.307 O10 1QD 1 1QD C13 C1 C 0 1 N N R -35.761 29.999 11.614 5.322 -2.212 -0.074 C13 1QD 2 1QD C15 C2 C 0 1 N N R -36.218 29.606 13.884 7.723 -2.623 -0.025 C15 1QD 3 1QD C16 C3 C 0 1 N N R -34.865 30.302 13.677 7.335 -1.365 -0.842 C16 1QD 4 1QD C19 C4 C 0 1 Y N N -35.718 32.495 14.670 8.215 0.723 0.269 C19 1QD 5 1QD C01 C5 C 0 1 N N R -31.209 34.363 5.922 -4.315 2.793 -1.038 C01 1QD 6 1QD C02 C6 C 0 1 N N R -30.062 33.488 5.405 -4.773 3.916 -0.072 C02 1QD 7 1QD C03 C7 C 0 1 N N S -30.677 32.861 4.155 -3.426 4.563 0.334 C03 1QD 8 1QD C04 C8 C 0 1 N N R -32.183 33.038 4.354 -2.378 3.475 0.032 C04 1QD 9 1QD C05 C9 C 0 1 N N N -32.810 31.883 5.094 -1.610 3.125 1.308 C05 1QD 10 1QD C12 C10 C 0 1 N N N -36.161 30.934 10.507 4.436 -2.068 1.165 C12 1QD 11 1QD C14 C11 C 0 1 N N S -36.930 29.845 12.564 6.358 -3.331 0.149 C14 1QD 12 1QD C21 C12 C 0 1 Y N N -33.898 33.079 15.700 10.094 1.021 -0.773 C21 1QD 13 1QD C22 C13 C 0 1 Y N N -33.645 31.903 15.081 9.493 -0.128 -1.314 C22 1QD 14 1QD C24 C14 C 0 1 Y N N -31.457 31.867 15.870 11.277 -0.366 -2.743 C24 1QD 15 1QD C26 C15 C 0 1 Y N N -32.838 33.655 16.452 11.334 1.428 -1.293 C26 1QD 16 1QD C37 C16 C 0 1 Y N N -32.763 34.173 7.882 -6.117 1.660 -2.123 C37 1QD 17 1QD C38 C17 C 0 1 Y N N -33.005 34.120 9.304 -7.081 0.642 -2.200 C38 1QD 18 1QD C39 C18 C 0 1 Y N N -31.934 34.130 10.205 -7.159 -0.301 -1.142 C39 1QD 19 1QD C40 C19 C 0 1 Y N N -30.598 34.169 9.712 -6.263 -0.168 -0.065 C40 1QD 20 1QD C41 C20 C 0 1 Y N N -30.437 34.205 8.313 -5.365 0.856 -0.085 C41 1QD 21 1QD C42 C21 C 0 1 Y N N -32.192 34.089 11.616 -8.114 -1.326 -1.198 C42 1QD 22 1QD C43 C22 C 0 1 Y N N -33.512 34.038 12.077 -8.955 -1.402 -2.268 C43 1QD 23 1QD C44 C23 C 0 1 Y N N -34.599 34.056 11.185 -8.879 -0.477 -3.307 C44 1QD 24 1QD C45 C24 C 0 1 Y N N -34.355 34.081 9.787 -7.963 0.531 -3.286 C45 1QD 25 1QD I46 I1 I 0 1 N N N -30.572 34.090 12.965 -8.248 -2.730 0.351 I46 1QD 26 1QD N18 N1 N 0 1 Y N N -34.776 31.549 14.450 8.312 -0.293 -0.635 N18 1QD 27 1QD N20 N2 N 0 1 Y N N -35.202 33.461 15.432 9.260 1.495 0.184 N20 1QD 28 1QD N23 N3 N 0 1 Y N N -32.409 31.274 15.158 10.115 -0.784 -2.288 N23 1QD 29 1QD N25 N4 N 0 1 Y N N -31.662 33.015 16.504 11.879 0.709 -2.268 N25 1QD 30 1QD N27 N5 N 0 1 N N N -33.084 34.893 17.131 11.973 2.553 -0.800 N27 1QD 31 1QD N36 N6 N 1 1 Y N N -31.496 34.192 7.464 -5.310 1.720 -1.089 N36 1QD 32 1QD O06 O2 O 0 1 N N N -34.223 32.186 5.237 -0.564 2.202 0.997 O06 1QD 33 1QD O08 O3 O 0 1 N N N -34.860 30.969 7.117 1.404 0.513 1.427 O08 1QD 34 1QD O11 O4 O 0 1 N N N -35.033 30.906 9.628 3.417 -1.099 0.912 O11 1QD 35 1QD O17 O5 O 0 1 N N N -34.659 30.606 12.318 6.050 -0.993 -0.299 O17 1QD 36 1QD O28 O6 O 0 1 N N N -36.031 28.207 14.095 8.634 -3.446 -0.758 O28 1QD 37 1QD O29 O7 O 0 1 N N N -37.703 28.713 12.176 6.199 -4.361 -0.828 O29 1QD 38 1QD O30 O8 O 0 1 N N N -36.772 29.868 8.069 2.969 -0.260 3.250 O30 1QD 39 1QD O31 O9 O 0 1 N N N -36.627 31.554 5.360 1.344 2.813 2.699 O31 1QD 40 1QD O32 O10 O 0 1 N N N -34.949 29.796 4.858 -0.329 0.990 3.198 O32 1QD 41 1QD O33 O11 O 0 1 N N N -32.375 34.222 5.166 -3.085 2.319 -0.449 O33 1QD 42 1QD O34 O12 O 0 1 N N N -30.202 33.475 2.957 -3.174 5.732 -0.449 O34 1QD 43 1QD O35 O13 O 0 1 N N N -28.968 34.387 5.165 -5.610 4.858 -0.746 O35 1QD 44 1QD P07 P1 P 0 1 N N N -35.253 31.025 5.592 0.447 1.616 2.104 P07 1QD 45 1QD P09 P2 P 0 1 N N N -35.318 30.036 8.268 2.303 -0.693 2.001 P09 1QD 46 1QD H1 H1 H 0 1 N N N -35.196 27.990 8.233 0.894 -2.302 1.532 H1 1QD 47 1QD H131 H2 H 0 0 N N N -35.477 29.020 11.201 4.709 -2.443 -0.945 H131 1QD 48 1QD H151 H3 H 0 0 N N N -36.768 30.077 14.712 8.145 -2.345 0.941 H151 1QD 49 1QD H161 H4 H 0 0 N N N -34.077 29.617 14.023 7.251 -1.606 -1.902 H161 1QD 50 1QD H2 H5 H 0 1 N N N -36.728 32.472 14.289 7.391 0.868 0.952 H2 1QD 51 1QD H011 H6 H 0 0 N N N -30.867 35.402 5.805 -4.133 3.195 -2.035 H011 1QD 52 1QD H021 H7 H 0 0 N N N -29.805 32.713 6.142 -5.281 3.498 0.797 H021 1QD 53 1QD H031 H8 H 0 0 N N N -30.445 31.786 4.147 -3.428 4.808 1.396 H031 1QD 54 1QD H041 H9 H 0 0 N N N -32.669 33.159 3.375 -1.685 3.830 -0.731 H041 1QD 55 1QD H3 H10 H 0 1 N N N -32.679 30.953 4.522 -1.180 4.031 1.735 H3 1QD 56 1QD H4 H11 H 0 1 N N N -32.345 31.773 6.085 -2.291 2.672 2.029 H4 1QD 57 1QD H5 H12 H 0 1 N N N -36.335 31.949 10.893 3.975 -3.028 1.396 H5 1QD 58 1QD H6 H13 H 0 1 N N N -37.067 30.575 9.997 5.044 -1.744 2.010 H6 1QD 59 1QD H141 H14 H 0 0 N N N -37.529 30.767 12.603 6.266 -3.740 1.155 H141 1QD 60 1QD H7 H15 H 0 1 N N N -30.485 31.400 15.935 11.755 -0.922 -3.536 H7 1QD 61 1QD H8 H16 H 0 1 N N N -33.582 34.197 7.178 -6.037 2.390 -2.915 H8 1QD 62 1QD H9 H17 H 0 1 N N N -29.749 34.171 10.379 -6.288 -0.863 0.761 H9 1QD 63 1QD H10 H18 H 0 1 N N N -29.439 34.244 7.903 -4.675 0.964 0.738 H10 1QD 64 1QD H11 H19 H 0 1 N N N -33.700 33.984 13.139 -9.690 -2.192 -2.312 H11 1QD 65 1QD H12 H20 H 0 1 N N N -35.612 34.051 11.561 -9.557 -0.561 -4.144 H12 1QD 66 1QD H13 H21 H 0 1 N N N -35.181 34.071 9.091 -7.917 1.241 -4.099 H13 1QD 67 1QD H14 H22 H 0 1 N N N -32.260 35.173 17.623 11.565 3.070 -0.089 H14 1QD 68 1QD H15 H23 H 0 1 N N N -33.329 35.596 16.464 12.830 2.823 -1.167 H15 1QD 69 1QD H16 H24 H 0 1 N N N -35.585 28.068 14.922 8.871 -4.268 -0.307 H16 1QD 70 1QD H17 H25 H 0 1 N N N -38.438 28.612 12.769 6.826 -5.091 -0.734 H17 1QD 71 1QD H18 H26 H 0 1 N N N -37.088 30.985 4.755 1.880 3.269 2.036 H18 1QD 72 1QD H19 H27 H 0 1 N N N -29.265 33.337 2.880 -3.805 6.450 -0.299 H19 1QD 73 1QD H20 H28 H 0 1 N N N -28.650 34.727 5.993 -5.922 5.580 -0.183 H20 1QD 74 # # 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 1QD O34 C03 SING N N 1 1QD C03 C04 SING N N 2 1QD C03 C02 SING N N 3 1QD C04 C05 SING N N 4 1QD C04 O33 SING N N 5 1QD O32 P07 DOUB N N 6 1QD C05 O06 SING N N 7 1QD O35 C02 SING N N 8 1QD O33 C01 SING N N 9 1QD O06 P07 SING N N 10 1QD O31 P07 SING N N 11 1QD C02 C01 SING N N 12 1QD P07 O08 SING N N 13 1QD C01 N36 SING N N 14 1QD O08 P09 SING N N 15 1QD N36 C37 DOUB Y N 16 1QD N36 C41 SING Y N 17 1QD C37 C38 SING Y N 18 1QD O30 P09 DOUB N N 19 1QD P09 O10 SING N N 20 1QD P09 O11 SING N N 21 1QD C41 C40 DOUB Y N 22 1QD C38 C45 SING Y N 23 1QD C38 C39 DOUB Y N 24 1QD O11 C12 SING N N 25 1QD C40 C39 SING Y N 26 1QD C45 C44 DOUB Y N 27 1QD C39 C42 SING Y N 28 1QD C12 C13 SING N N 29 1QD C44 C43 SING Y N 30 1QD C13 O17 SING N N 31 1QD C13 C14 SING N N 32 1QD C42 C43 DOUB Y N 33 1QD C42 I46 SING N N 34 1QD O29 C14 SING N N 35 1QD O17 C16 SING N N 36 1QD C14 C15 SING N N 37 1QD C16 C15 SING N N 38 1QD C16 N18 SING N N 39 1QD C15 O28 SING N N 40 1QD N18 C19 SING Y N 41 1QD N18 C22 SING Y N 42 1QD C19 N20 DOUB Y N 43 1QD C22 N23 DOUB Y N 44 1QD C22 C21 SING Y N 45 1QD N23 C24 SING Y N 46 1QD N20 C21 SING Y N 47 1QD C21 C26 DOUB Y N 48 1QD C24 N25 DOUB Y N 49 1QD C26 N25 SING Y N 50 1QD C26 N27 SING N N 51 1QD O10 H1 SING N N 52 1QD C13 H131 SING N N 53 1QD C15 H151 SING N N 54 1QD C16 H161 SING N N 55 1QD C19 H2 SING N N 56 1QD C01 H011 SING N N 57 1QD C02 H021 SING N N 58 1QD C03 H031 SING N N 59 1QD C04 H041 SING N N 60 1QD C05 H3 SING N N 61 1QD C05 H4 SING N N 62 1QD C12 H5 SING N N 63 1QD C12 H6 SING N N 64 1QD C14 H141 SING N N 65 1QD C24 H7 SING N N 66 1QD C37 H8 SING N N 67 1QD C40 H9 SING N N 68 1QD C41 H10 SING N N 69 1QD C43 H11 SING N N 70 1QD C44 H12 SING N N 71 1QD C45 H13 SING N N 72 1QD N27 H14 SING N N 73 1QD N27 H15 SING N N 74 1QD O28 H16 SING N N 75 1QD O29 H17 SING N N 76 1QD O31 H18 SING N N 77 1QD O34 H19 SING N N 78 1QD O35 H20 SING N N 79 # # 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 1QD SMILES ACDLabs 12.01 "Ic1cccc2c[n+](ccc21)C1OC(COP(=O)(O)OP(=O)(O)OCC2OC(n3cnc4c(N)ncnc43)C(O)C2O)C(O)C1O" 1QD InChI InChI 1.03 "InChI=1S/C24H27IN6O13P2/c25-13-3-1-2-11-6-30(5-4-12(11)13)23-19(34)17(32)14(42-23)7-40-45(36,37)44-46(38,39)41-8-15-18(33)20(35)24(43-15)31-10-29-16-21(26)27-9-28-22(16)31/h1-6,9-10,14-15,17-20,23-24,32-35H,7-8H2,(H3-,26,27,28,36,37,38,39)/p+1/t14-,15-,17-,18-,19-,20-,23-,24-/m1/s1" 1QD InChIKey InChI 1.03 XFPQIWOCIZLCML-PAXFUWABSA-O 1QD SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)[n+]5ccc6c(I)cccc6c5)[C@@H](O)[C@H]3O" 1QD SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)[n+]5ccc6c(I)cccc6c5)[CH](O)[CH]3O" 1QD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc2c[n+](ccc2c(c1)I)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)O)O)O" 1QD SMILES "OpenEye OEToolkits" 2.0.7 "c1cc2c[n+](ccc2c(c1)I)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)O)O)O" # # 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 1QD "SYSTEMATIC NAME" ACDLabs 12.01 "2-[(2R,3R,4S,5R)-5-({[(S)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-3,4-dihydroxyoxolan-2-yl]-5-iodoisoquinolin-2-ium (non-preferred name)" 1QD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(5-iodanylisoquinolin-2-ium-2-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 1QD "Create component" 2021-06-23 RCSB 1QD "Modify aromatic_flag" 2022-02-15 RCSB 1QD "Modify aromatic_flag" 2022-03-03 RCSB 1QD "Initial release" 2022-03-23 RCSB ##