data_VPT # _chem_comp.id VPT _chem_comp.name "[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-(3-prop-2-ynoxyphenyl)carbonylsulfamate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H20 N6 O8 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-08-02 _chem_comp.pdbx_modified_date 2024-07-26 _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 504.473 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VPT _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 8K5S _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.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 VPT C2 C1 C 0 1 Y N N N N N 11.596 8.079 20.584 5.683 3.132 -0.415 C2 VPT 1 VPT C4 C2 C 0 1 Y N N N N N 13.168 6.367 20.240 3.748 1.901 -0.267 C4 VPT 2 VPT CBI C3 C 0 1 N N N N N N 21.351 0.156 17.610 -6.188 5.685 -1.087 CBI VPT 3 VPT CBH C4 C 0 1 N N N N N N 21.121 0.680 16.630 -5.943 4.758 -0.410 CBH VPT 4 VPT CBG C5 C 0 1 N N N N N N 20.933 1.208 15.510 -5.635 3.595 0.438 CBG VPT 5 VPT OBF O1 O 0 1 N N N N N N 20.689 2.656 15.597 -4.890 2.638 -0.318 OBF VPT 6 VPT CBB C6 C 0 1 Y N N N N N 20.023 3.375 16.562 -4.523 1.497 0.322 CBB VPT 7 VPT CBA C7 C 0 1 Y N N N N N 19.363 2.739 17.595 -3.799 0.527 -0.352 CBA VPT 8 VPT CBC C8 C 0 1 Y N N N N N 20.042 4.789 16.472 -4.869 1.305 1.653 CBC VPT 9 VPT CBD C9 C 0 1 Y N N N N N 19.430 5.584 17.423 -4.498 0.146 2.309 CBD VPT 10 VPT CBE C10 C 0 1 Y N N N N N 18.784 4.912 18.462 -3.781 -0.828 1.646 CBE VPT 11 VPT CAY C11 C 0 1 Y N N N N N 18.720 3.500 18.566 -3.424 -0.643 0.310 CAY VPT 12 VPT CAX C12 C 0 1 N N N N N N 18.082 2.864 19.652 -2.651 -1.683 -0.403 CAX VPT 13 VPT OAZ O2 O 0 1 N N N N N N 17.608 3.532 20.582 -2.342 -1.519 -1.567 OAZ VPT 14 VPT NAU N1 N 0 1 N N N N N N 18.132 1.504 19.630 -2.290 -2.812 0.238 NAU VPT 15 VPT SAT S1 S 0 1 N N N N N N 17.580 0.602 20.854 -1.425 -3.977 -0.560 SAT VPT 16 VPT OAV O3 O 0 1 N N N N N N 18.385 0.960 22.079 -1.176 -5.009 0.384 OAV VPT 17 VPT OAW O4 O 0 1 N N N N N N 17.753 -0.875 20.444 -2.093 -4.198 -1.795 OAW VPT 18 VPT O15 O5 O 0 1 N N N N N N 16.094 0.909 21.164 -0.071 -3.374 -0.906 O15 VPT 19 VPT C15 C13 C 0 1 N N N N N N 15.118 0.981 20.144 0.817 -3.263 0.207 C15 VPT 20 VPT C14 C14 C 0 1 N N R N N N 14.027 1.830 20.762 2.140 -2.648 -0.255 C14 VPT 21 VPT O14 O6 O 0 1 N N N N N N 14.481 3.178 21.247 1.929 -1.287 -0.666 O14 VPT 22 VPT C13 C15 C 0 1 N N S N N N 12.906 2.118 19.732 3.143 -2.623 0.915 C13 VPT 23 VPT O13 O7 O 0 1 N N N N N N 12.100 0.925 19.605 4.307 -3.386 0.592 O13 VPT 24 VPT C12 C16 C 0 1 N N R N N N 12.190 3.208 20.467 3.503 -1.125 1.073 C12 VPT 25 VPT O12 O8 O 0 1 N N N N N N 11.496 2.539 21.540 4.900 -0.961 1.325 O12 VPT 26 VPT C11 C17 C 0 1 N N R N N N 13.328 4.049 21.090 3.120 -0.551 -0.314 C11 VPT 27 VPT N9 N2 N 0 1 Y N N N N N 13.800 5.195 20.312 2.831 0.882 -0.217 N9 VPT 28 VPT C8 C18 C 0 1 Y N N N N N 14.922 5.266 19.587 1.600 1.448 -0.059 C8 VPT 29 VPT N7 N3 N 0 1 Y N N N N N 15.003 6.464 19.052 1.710 2.744 -0.010 N7 VPT 30 VPT C5 C19 C 0 1 Y N N N N N 13.912 7.170 19.435 3.015 3.090 -0.123 C5 VPT 31 VPT N3 N4 N 0 1 Y N N N N N 12.014 6.782 20.817 5.069 1.969 -0.405 N3 VPT 32 VPT N1 N5 N 0 1 Y N N N N N 12.375 8.921 19.750 5.036 4.277 -0.287 N1 VPT 33 VPT C6 C20 C 0 1 Y N N N N N 13.517 8.446 19.185 3.716 4.308 -0.140 C6 VPT 34 VPT N6 N6 N 0 1 N N N N N N 14.302 9.224 18.386 3.047 5.512 -0.003 N6 VPT 35 VPT H1 H1 H 0 1 N N N N N N 10.685 8.447 21.033 6.757 3.152 -0.528 H1 VPT 36 VPT H2 H2 H 0 1 N N N N N N 21.566 -0.333 18.525 -6.407 6.515 -1.692 H2 VPT 37 VPT H3 H3 H 0 1 N N N N N N 20.060 0.732 15.039 -5.047 3.917 1.297 H3 VPT 38 VPT H4 H4 H 0 1 N N N N N N 21.824 1.038 14.887 -6.564 3.141 0.783 H4 VPT 39 VPT H5 H5 H 0 1 N N N N N N 19.346 1.660 17.649 -3.526 0.676 -1.386 H5 VPT 40 VPT H6 H6 H 0 1 N N N N N N 20.547 5.257 15.640 -5.430 2.065 2.177 H6 VPT 41 VPT H7 H7 H 0 1 N N N N N N 19.450 6.662 17.365 -4.770 0.004 3.345 H7 VPT 42 VPT H8 H8 H 0 1 N N N N N N 18.306 5.502 19.230 -3.493 -1.732 2.162 H8 VPT 43 VPT H9 H9 H 0 1 N N N N N N 18.523 1.047 18.831 -2.538 -2.942 1.167 H9 VPT 44 VPT H10 H10 H 0 1 N N N N N N 14.741 -0.020 19.889 0.367 -2.626 0.969 H10 VPT 45 VPT H11 H11 H 0 1 N N N N N N 15.526 1.460 19.242 1.003 -4.253 0.624 H11 VPT 46 VPT H12 H12 H 0 1 N N N N N N 13.586 1.279 21.606 2.548 -3.227 -1.083 H12 VPT 47 VPT H13 H13 H 0 1 N N N N N N 13.319 2.464 18.773 2.677 -3.001 1.825 H13 VPT 48 VPT H14 H14 H 0 1 N N N N N N 12.589 0.260 19.134 4.997 -3.357 1.270 H14 VPT 49 VPT H15 H15 H 0 1 N N N N N N 11.536 3.808 19.817 2.911 -0.664 1.863 H15 VPT 50 VPT H16 H16 H 0 1 N N N N N N 11.015 3.178 22.053 5.206 -1.383 2.140 H16 VPT 51 VPT H17 H17 H 0 1 N N N N N N 12.996 4.396 22.080 3.913 -0.735 -1.038 H17 VPT 52 VPT H18 H18 H 0 1 N N N N N N 15.642 4.471 19.462 0.672 0.901 0.014 H18 VPT 53 VPT H19 H19 H 0 1 N N N N N N 13.899 10.136 18.309 2.084 5.522 0.107 H19 VPT 54 VPT H20 H20 H 0 1 N N N N N N 15.216 9.296 18.785 3.542 6.346 -0.016 H20 VPT 55 # 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 VPT CBG OBF SING N N 1 VPT CBG CBH SING N N 2 VPT OBF CBB SING N N 3 VPT CBC CBB DOUB Y N 4 VPT CBC CBD SING Y N 5 VPT CBB CBA SING Y N 6 VPT CBH CBI TRIP N N 7 VPT CBD CBE DOUB Y N 8 VPT CBA CAY DOUB Y N 9 VPT N6 C6 SING N N 10 VPT CBE CAY SING Y N 11 VPT CAY CAX SING N N 12 VPT N7 C5 SING Y N 13 VPT N7 C8 DOUB Y N 14 VPT C6 C5 SING Y N 15 VPT C6 N1 DOUB Y N 16 VPT C5 C4 DOUB Y N 17 VPT C8 N9 SING Y N 18 VPT O13 C13 SING N N 19 VPT NAU CAX SING N N 20 VPT NAU SAT SING N N 21 VPT CAX OAZ DOUB N N 22 VPT C13 C12 SING N N 23 VPT C13 C14 SING N N 24 VPT N1 C2 SING Y N 25 VPT C15 C14 SING N N 26 VPT C15 O15 SING N N 27 VPT C4 N9 SING Y N 28 VPT C4 N3 SING Y N 29 VPT N9 C11 SING N N 30 VPT OAW SAT DOUB N N 31 VPT C12 C11 SING N N 32 VPT C12 O12 SING N N 33 VPT C2 N3 DOUB Y N 34 VPT C14 O14 SING N N 35 VPT SAT O15 SING N N 36 VPT SAT OAV DOUB N N 37 VPT C11 O14 SING N N 38 VPT C2 H1 SING N N 39 VPT CBI H2 SING N N 40 VPT CBG H3 SING N N 41 VPT CBG H4 SING N N 42 VPT CBA H5 SING N N 43 VPT CBC H6 SING N N 44 VPT CBD H7 SING N N 45 VPT CBE H8 SING N N 46 VPT NAU H9 SING N N 47 VPT C15 H10 SING N N 48 VPT C15 H11 SING N N 49 VPT C14 H12 SING N N 50 VPT C13 H13 SING N N 51 VPT O13 H14 SING N N 52 VPT C12 H15 SING N N 53 VPT O12 H16 SING N N 54 VPT C11 H17 SING N N 55 VPT C8 H18 SING N N 56 VPT N6 H19 SING N N 57 VPT N6 H20 SING N N 58 # 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 VPT InChI InChI 1.06 "InChI=1S/C20H20N6O8S/c1-2-6-32-12-5-3-4-11(7-12)19(29)25-35(30,31)33-8-13-15(27)16(28)20(34-13)26-10-24-14-17(21)22-9-23-18(14)26/h1,3-5,7,9-10,13,15-16,20,27-28H,6,8H2,(H,25,29)(H2,21,22,23)/t13-,15-,16-,20-/m1/s1" VPT InChIKey InChI 1.06 CEBNTACPQUEIBR-KHTYJDQRSA-N VPT SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[S](=O)(=O)NC(=O)c4cccc(OCC#C)c4)[C@@H](O)[C@H]3O" VPT SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[S](=O)(=O)NC(=O)c4cccc(OCC#C)c4)[CH](O)[CH]3O" VPT SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C#CCOc1cccc(c1)C(=O)NS(=O)(=O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" VPT SMILES "OpenEye OEToolkits" 2.0.7 "C#CCOc1cccc(c1)C(=O)NS(=O)(=O)OCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O" # _pdbx_chem_comp_identifier.comp_id VPT _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~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-(3-prop-2-ynoxyphenyl)carbonylsulfamate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VPT "Create component" 2023-08-02 PDBJ VPT "Initial release" 2024-07-31 RCSB #