data_VZ6 # _chem_comp.id VZ6 _chem_comp.name "9-[(1~{S},6~{R},8~{R},9~{R},10~{R},15~{R},17~{R},18~{R})-8-(6-aminopurin-9-yl)-9,18-bis(fluoranyl)-3,12-bis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H23 F2 N9 O10 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-04-17 _chem_comp.pdbx_modified_date 2023-12-15 _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 661.406 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VZ6 _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 8ORW _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 VZ6 C18 C1 C 0 1 Y N N N N N 40.869 30.165 0.682 -6.796 -0.333 0.164 C18 VZ6 1 VZ6 C13 C2 C 0 1 N N R N N N 40.981 27.652 0.992 -4.449 0.289 -0.550 C13 VZ6 2 VZ6 C10 C3 C 0 1 N N N N N N 43.644 25.557 2.162 -1.293 -1.164 -0.433 C10 VZ6 3 VZ6 C15 C4 C 0 1 Y N N N N N 42.581 29.432 1.829 -5.346 -1.990 0.056 C15 VZ6 4 VZ6 C17 C5 C 0 1 Y N N N N N 41.683 31.207 1.093 -7.416 -1.541 0.523 C17 VZ6 5 VZ6 C2 C6 C 0 1 N N R N N N 46.672 25.121 -0.540 2.174 0.447 0.615 C2 VZ6 6 VZ6 C20 C7 C 0 1 Y N N N N N 39.467 31.536 -0.321 -8.788 0.766 0.495 C20 VZ6 7 VZ6 C22 C8 C 0 1 Y N N N N N 41.287 32.508 0.724 -8.776 -1.511 0.873 C22 VZ6 8 VZ6 C24 C9 C 0 1 N N R N N N 41.328 27.034 -0.359 -3.788 0.918 0.686 C24 VZ6 9 VZ6 C28 C10 C 0 1 N N N N N N 47.913 26.376 -2.019 3.886 1.699 -0.580 C28 VZ6 10 VZ6 C29 C11 C 0 1 N N R N N N 47.868 27.173 -0.711 4.330 0.223 -0.525 C29 VZ6 11 VZ6 C3 C12 C 0 1 N N R N N N 46.650 25.507 -2.024 2.376 1.678 -0.295 C3 VZ6 12 VZ6 C31 C13 C 0 1 Y N N N N N 46.620 29.263 -1.513 5.530 0.433 1.682 C31 VZ6 13 VZ6 C33 C14 C 0 1 Y N N N N N 47.926 30.815 -0.857 7.490 -0.342 1.185 C33 VZ6 14 VZ6 C34 C15 C 0 1 Y N N N N N 48.521 29.625 -0.482 6.713 -0.404 0.024 C34 VZ6 15 VZ6 C36 C16 C 0 1 N N N N N N 50.269 30.606 0.449 8.484 -1.301 -1.146 C36 VZ6 16 VZ6 C38 C17 C 0 1 N N N N N N 48.589 32.051 -0.535 8.831 -0.796 1.123 C38 VZ6 17 VZ6 C4 C18 C 0 1 N N N N N N 45.409 26.251 -2.465 1.904 2.937 0.412 C4 VZ6 18 VZ6 C40 C19 C 0 1 N N S N N N 46.722 26.519 0.062 3.149 -0.595 0.027 C40 VZ6 19 VZ6 C8 C20 C 0 1 N N R N N N 42.630 26.301 -0.076 -2.296 1.020 0.301 C8 VZ6 20 VZ6 C9 C21 C 0 1 N N R N N N 42.399 25.802 1.346 -2.136 0.041 -0.868 C9 VZ6 21 VZ6 F1 F1 F 0 1 N N N N N N 47.793 24.398 -0.116 0.861 0.003 0.551 F1 VZ6 22 VZ6 F25 F2 F 0 1 N N N N N N 40.342 26.102 -0.703 -4.304 2.187 0.944 F25 VZ6 23 VZ6 N14 N1 N 0 1 Y N N N N N 41.456 29.020 1.163 -5.493 -0.647 -0.125 N14 VZ6 24 VZ6 N16 N2 N 0 1 Y N N N N N 42.764 30.730 1.818 -6.476 -2.513 0.437 N16 VZ6 25 VZ6 N19 N3 N 0 1 Y N N N N N 39.742 30.262 -0.030 -7.514 0.786 0.164 N19 VZ6 26 VZ6 N21 N4 N 0 1 Y N N N N N 40.152 32.637 0.003 -9.411 -0.344 0.848 N21 VZ6 27 VZ6 N23 N5 N 0 1 N N N N N N 41.969 33.613 1.043 -9.440 -2.670 1.236 N23 VZ6 28 VZ6 N30 N6 N 0 1 Y N N N N N 47.674 28.628 -0.908 5.483 0.089 0.364 N30 VZ6 29 VZ6 N32 N7 N 0 1 Y N N N N N 46.728 30.572 -1.507 6.713 0.178 2.162 N32 VZ6 30 VZ6 N35 N8 N 0 1 N N N N N N 49.694 29.465 0.173 7.249 -0.887 -1.106 N35 VZ6 31 VZ6 N37 N9 N 0 1 N N N N N N 49.779 31.827 0.132 9.293 -1.267 -0.056 N37 VZ6 32 VZ6 O11 O1 O 0 1 N N N N N N 44.678 26.475 1.751 -0.119 -1.236 -1.242 O11 VZ6 33 VZ6 O12 O2 O 0 1 N N N N N N 41.605 26.835 1.970 -3.431 -0.415 -1.263 O12 VZ6 34 VZ6 O26 O3 O 0 1 N N N N N N 42.619 27.034 -2.884 -0.704 4.383 -1.144 O26 VZ6 35 VZ6 O27 O4 O 0 1 N N N N N N 42.091 24.582 -3.371 -0.100 2.002 -1.702 O27 VZ6 36 VZ6 O39 O5 O 0 1 N N N N N N 48.207 33.195 -0.781 9.550 -0.762 2.108 O39 VZ6 37 VZ6 O41 O6 O 0 1 N N N N N N 47.107 26.432 1.450 2.505 -1.288 -1.038 O41 VZ6 38 VZ6 O43 O7 O 0 1 N N N N N N 46.104 27.962 3.214 1.031 -2.633 0.515 O43 VZ6 39 VZ6 O44 O8 O 0 1 N N N N N N 46.086 25.421 3.516 1.205 -3.413 -1.879 O44 VZ6 40 VZ6 O5 O9 O 0 1 N N N N N N 44.421 25.300 -2.911 0.486 2.839 0.615 O5 VZ6 41 VZ6 O7 O10 O 0 1 N N N N N N 42.813 25.245 -1.042 -2.005 2.360 -0.090 O7 VZ6 42 VZ6 P42 P1 P 0 1 N N N N N N 46.003 26.603 2.631 1.157 -2.149 -0.878 P42 VZ6 43 VZ6 P6 P2 P 0 1 N N N N N N 42.879 25.596 -2.638 -0.570 2.871 -0.601 P6 VZ6 44 VZ6 H1 H1 H 0 1 N N N N N N 39.889 27.625 1.120 -4.874 1.057 -1.193 H1 VZ6 45 VZ6 H2 H2 H 0 1 N N N N N N 43.420 25.711 3.228 -1.021 -1.063 0.615 H2 VZ6 46 VZ6 H3 H3 H 0 1 N N N N N N 43.988 24.524 2.005 -1.886 -2.072 -0.564 H3 VZ6 47 VZ6 H4 H4 H 0 1 N N N N N N 43.257 28.747 2.320 -4.428 -2.539 -0.094 H4 VZ6 48 VZ6 H5 H5 H 0 1 N N N N N N 45.731 24.623 -0.266 2.460 0.689 1.635 H5 VZ6 49 VZ6 H6 H6 H 0 1 N N N N N N 38.568 31.699 -0.897 -9.343 1.692 0.484 H6 VZ6 50 VZ6 H7 H7 H 0 1 N N N N N N 41.470 27.812 -1.124 -3.908 0.268 1.551 H7 VZ6 51 VZ6 H8 H8 H 0 1 N N N N N N 48.813 25.744 -2.051 4.403 2.275 0.182 H8 VZ6 52 VZ6 H9 H9 H 0 1 N N N N N N 47.912 27.057 -2.883 4.074 2.102 -1.571 H9 VZ6 53 VZ6 H10 H10 H 0 1 N N N N N N 48.806 27.002 -0.162 4.577 -0.119 -1.526 H10 VZ6 54 VZ6 H11 H11 H 0 1 N N N N N N 46.806 24.616 -2.650 1.840 1.522 -1.227 H11 VZ6 55 VZ6 H12 H12 H 0 1 N N N N N N 45.784 28.739 -1.951 4.710 0.857 2.242 H12 VZ6 56 VZ6 H13 H13 H 0 1 N N N N N N 51.213 30.571 0.973 8.877 -1.683 -2.076 H13 VZ6 57 VZ6 H14 H14 H 0 1 N N N N N N 45.662 26.933 -3.290 2.402 3.033 1.376 H14 VZ6 58 VZ6 H15 H15 H 0 1 N N N N N N 45.007 26.830 -1.621 2.114 3.813 -0.201 H15 VZ6 59 VZ6 H16 H16 H 0 1 N N N N N N 45.775 27.059 -0.086 3.485 -1.273 0.796 H16 VZ6 60 VZ6 H17 H17 H 0 1 N N N N N N 43.473 27.008 -0.095 -1.677 0.719 1.147 H17 VZ6 61 VZ6 H18 H18 H 0 1 N N N N N N 41.819 24.869 1.299 -1.654 0.534 -1.711 H18 VZ6 62 VZ6 H19 H19 H 0 1 N N N N N N 41.499 34.414 0.672 -8.966 -3.516 1.250 H19 VZ6 63 VZ6 H20 H20 H 0 1 N N N N N N 42.028 33.692 2.038 -10.380 -2.637 1.475 H20 VZ6 64 VZ6 H21 H21 H 0 1 N N N N N N 50.317 32.626 0.400 10.207 -1.585 -0.125 H21 VZ6 65 VZ6 H22 H22 H 0 1 N N N N N N 41.928 27.125 -3.529 0.124 4.757 -1.474 H22 VZ6 66 VZ6 H23 H23 H 0 1 N N N N N N 46.202 25.705 4.415 0.423 -3.980 -1.835 H23 VZ6 67 # 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 VZ6 O27 P6 DOUB N N 1 VZ6 O5 P6 SING N N 2 VZ6 O5 C4 SING N N 3 VZ6 O26 P6 SING N N 4 VZ6 P6 O7 SING N N 5 VZ6 C4 C3 SING N N 6 VZ6 C3 C28 SING N N 7 VZ6 C3 C2 SING N N 8 VZ6 C28 C29 SING N N 9 VZ6 C31 N32 DOUB Y N 10 VZ6 C31 N30 SING Y N 11 VZ6 N32 C33 SING Y N 12 VZ6 O7 C8 SING N N 13 VZ6 N30 C29 SING N N 14 VZ6 N30 C34 SING Y N 15 VZ6 C33 C38 SING N N 16 VZ6 C33 C34 DOUB Y N 17 VZ6 O39 C38 DOUB N N 18 VZ6 C29 C40 SING N N 19 VZ6 F25 C24 SING N N 20 VZ6 C2 F1 SING N N 21 VZ6 C2 C40 SING N N 22 VZ6 C38 N37 SING N N 23 VZ6 C34 N35 SING N N 24 VZ6 C24 C8 SING N N 25 VZ6 C24 C13 SING N N 26 VZ6 C20 N19 DOUB Y N 27 VZ6 C20 N21 SING Y N 28 VZ6 C8 C9 SING N N 29 VZ6 N19 C18 SING Y N 30 VZ6 N21 C22 DOUB Y N 31 VZ6 C40 O41 SING N N 32 VZ6 N37 C36 SING N N 33 VZ6 N35 C36 DOUB N N 34 VZ6 C18 C17 DOUB Y N 35 VZ6 C18 N14 SING Y N 36 VZ6 C22 N23 SING N N 37 VZ6 C22 C17 SING Y N 38 VZ6 C13 N14 SING N N 39 VZ6 C13 O12 SING N N 40 VZ6 C17 N16 SING Y N 41 VZ6 N14 C15 SING Y N 42 VZ6 C9 O12 SING N N 43 VZ6 C9 C10 SING N N 44 VZ6 O41 P42 SING N N 45 VZ6 O11 C10 SING N N 46 VZ6 O11 P42 SING N N 47 VZ6 N16 C15 DOUB Y N 48 VZ6 P42 O43 DOUB N N 49 VZ6 P42 O44 SING N N 50 VZ6 C13 H1 SING N N 51 VZ6 C10 H2 SING N N 52 VZ6 C10 H3 SING N N 53 VZ6 C15 H4 SING N N 54 VZ6 C2 H5 SING N N 55 VZ6 C20 H6 SING N N 56 VZ6 C24 H7 SING N N 57 VZ6 C28 H8 SING N N 58 VZ6 C28 H9 SING N N 59 VZ6 C29 H10 SING N N 60 VZ6 C3 H11 SING N N 61 VZ6 C31 H12 SING N N 62 VZ6 C36 H13 SING N N 63 VZ6 C4 H14 SING N N 64 VZ6 C4 H15 SING N N 65 VZ6 C40 H16 SING N N 66 VZ6 C8 H17 SING N N 67 VZ6 C9 H18 SING N N 68 VZ6 N23 H19 SING N N 69 VZ6 N23 H20 SING N N 70 VZ6 N37 H21 SING N N 71 VZ6 O26 H22 SING N N 72 VZ6 O44 H23 SING N N 73 # 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 VZ6 InChI InChI 1.06 "InChI=1S/C21H23F2N9O10P2/c22-11-8-1-9(31-6-30-14-19(31)27-5-28-20(14)33)15(11)41-44(36,37)39-3-10-16(42-43(34,35)38-2-8)12(23)21(40-10)32-7-29-13-17(24)25-4-26-18(13)32/h4-12,15-16,21H,1-3H2,(H,34,35)(H,36,37)(H2,24,25,26)(H,27,28,33)/t8-,9-,10-,11-,12-,15+,16-,21-/m1/s1" VZ6 InChIKey InChI 1.06 QBIOYLVMQXGNNG-PKISWWTFSA-N VZ6 SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@@H]4CO[P](O)(=O)O[C@@H]5[C@H](F)[C@@H](CO[P](O)(=O)O[C@H]4[C@H]3F)C[C@H]5n6cnc7C(=O)NC=Nc67" VZ6 SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH]4CO[P](O)(=O)O[CH]5[CH](F)[CH](CO[P](O)(=O)O[CH]4[CH]3F)C[CH]5n6cnc7C(=O)NC=Nc67" VZ6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H]4[C@H](O3)COP(=O)(O[C@H]5[C@@H](C[C@@H]([C@H]5F)COP(=O)(O4)O)n6cnc7c6N=CNC7=O)O)F)N" VZ6 SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C4C(O3)COP(=O)(OC5C(CC(C5F)COP(=O)(O4)O)n6cnc7c6N=CNC7=O)O)F)N" # _pdbx_chem_comp_identifier.comp_id VZ6 _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 "9-[(1~{S},6~{R},8~{R},9~{R},10~{R},15~{R},17~{R},18~{R})-8-(6-aminopurin-9-yl)-9,18-bis(fluoranyl)-3,12-bis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VZ6 "Create component" 2023-04-17 PDBE VZ6 "Initial release" 2023-12-20 RCSB #