data_QCB # _chem_comp.id QCB _chem_comp.name "(2~{S},3~{R})-2-[2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]ethanoylamino]-3-oxidanyl-butanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H23 N6 O10 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-06-04 _chem_comp.pdbx_modified_date 2021-02-05 _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 490.362 _chem_comp.one_letter_code ? _chem_comp.three_letter_code QCB _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 6Z81 _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.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 QCB N1 N1 N 0 1 Y N N 40.668 -18.089 -15.297 -8.292 1.383 0.667 N1 QCB 1 QCB C2 C1 C 0 1 Y N N 39.369 -17.932 -15.611 -7.905 0.242 1.208 C2 QCB 2 QCB N3 N2 N 0 1 Y N N 38.794 -18.173 -16.793 -6.676 -0.214 1.091 N3 QCB 3 QCB C4 C2 C 0 1 Y N N 39.687 -18.589 -17.717 -5.761 0.469 0.410 C4 QCB 4 QCB C5 C3 C 0 1 Y N N 41.060 -18.806 -17.495 -6.124 1.689 -0.185 C5 QCB 5 QCB C6 C4 C 0 1 Y N N 41.506 -18.523 -16.228 -7.448 2.135 -0.032 C6 QCB 6 QCB CX C5 C 0 1 N N N 33.492 -24.758 -25.096 7.634 -0.683 -0.058 CX QCB 7 QCB OX O1 O 0 1 N N N 34.382 -25.525 -24.658 7.180 -1.690 0.433 OX QCB 8 QCB CAX C6 C 0 1 N N S 33.710 -23.887 -26.337 6.780 0.554 -0.164 CAX QCB 9 QCB CBX C7 C 0 1 N N R 33.114 -24.498 -27.612 7.435 1.695 0.617 CBX QCB 10 QCB CGX C8 C 0 1 N N N 33.914 -24.113 -28.843 6.510 2.913 0.614 CGX QCB 11 QCB OGX O2 O 0 1 N N N 32.845 -25.873 -27.574 7.669 1.278 1.964 OGX QCB 12 QCB NX N3 N 0 1 N N N 35.115 -23.552 -26.437 5.453 0.281 0.393 NX QCB 13 QCB CCA C9 C 0 1 N N N 35.557 -22.491 -25.549 4.389 1.000 -0.017 CCA QCB 14 QCB CP2 C10 C 0 1 N N N 36.992 -22.046 -25.512 3.023 0.718 0.555 CP2 QCB 15 QCB OCA O3 O 0 1 N N N 34.799 -21.946 -24.827 4.530 1.873 -0.847 OCA QCB 16 QCB P1 P1 P 0 1 N N N 37.773 -22.686 -23.941 2.072 -0.303 -0.617 P1 QCB 17 QCB OP3 O4 O 0 1 N N N 39.239 -22.648 -24.233 2.839 -1.526 -0.941 OP3 QCB 18 QCB OP1 O5 O 0 1 N N N 37.344 -24.076 -23.582 1.804 0.535 -1.965 OP1 QCB 19 QCB "O5'" O6 O 0 1 N N N 37.427 -21.759 -22.642 0.664 -0.714 0.049 "O5'" QCB 20 QCB "C5'" C11 C 0 1 N N N 37.686 -20.392 -22.725 -0.264 -1.600 -0.579 "C5'" QCB 21 QCB "C4'" C12 C 0 1 N N R 37.166 -19.758 -21.492 -1.490 -1.774 0.319 "C4'" QCB 22 QCB "C3'" C13 C 0 1 N N S 37.191 -18.280 -21.640 -2.449 -2.810 -0.297 "C3'" QCB 23 QCB "O3'" O7 O 0 1 N N N 35.845 -17.799 -21.397 -2.635 -3.912 0.594 "O3'" QCB 24 QCB "C2'" C14 C 0 1 N N R 38.166 -17.787 -20.641 -3.776 -2.035 -0.485 "C2'" QCB 25 QCB "O2'" O8 O 0 1 N N N 37.755 -16.536 -20.059 -4.896 -2.849 -0.131 "O2'" QCB 26 QCB "C1'" C15 C 0 1 N N R 38.274 -18.869 -19.613 -3.610 -0.860 0.512 "C1'" QCB 27 QCB "O4'" O9 O 0 1 N N N 38.032 -20.117 -20.362 -2.207 -0.531 0.413 "O4'" QCB 28 QCB N9 N4 N 0 1 Y N N 39.545 -18.899 -18.948 -4.436 0.280 0.108 N9 QCB 29 QCB C8 C16 C 0 1 Y N N 40.610 -19.303 -19.499 -4.031 1.347 -0.638 C8 QCB 30 QCB N7 N5 N 0 1 Y N N 41.638 -19.324 -18.654 -5.022 2.172 -0.808 N7 QCB 31 QCB N6 N6 N 0 1 N N N 42.903 -18.698 -15.890 -7.863 3.328 -0.596 N6 QCB 32 QCB OXT O10 O 0 1 N N N 32.426 -24.648 -24.455 8.898 -0.666 -0.508 OXT QCB 33 QCB H1 H1 H 0 1 N N N 38.722 -17.573 -14.824 -8.623 -0.338 1.768 H1 QCB 34 QCB H2 H2 H 0 1 N N N 33.162 -22.950 -26.158 6.683 0.840 -1.211 H2 QCB 35 QCB H3 H3 H 0 1 N N N 32.142 -23.997 -27.736 8.384 1.958 0.149 H3 QCB 36 QCB H4 H4 H 0 1 N N N 34.103 -23.029 -28.834 6.976 3.726 1.171 H4 QCB 37 QCB H5 H5 H 0 1 N N N 34.873 -24.652 -28.840 6.332 3.231 -0.413 H5 QCB 38 QCB H6 H6 H 0 1 N N N 33.346 -24.379 -29.747 5.561 2.650 1.082 H6 QCB 39 QCB H7 H7 H 0 1 N N N 32.345 -26.077 -26.793 6.866 1.028 2.443 H7 QCB 40 QCB H8 H8 H 0 1 N N N 35.735 -24.016 -27.070 5.339 -0.418 1.056 H8 QCB 41 QCB H9 H9 H 0 1 N N N 37.528 -22.450 -26.384 3.128 0.185 1.500 H9 QCB 42 QCB H10 H10 H 0 1 N N N 37.040 -20.947 -25.529 2.500 1.659 0.725 H10 QCB 43 QCB H11 H11 H 0 1 N N N 38.095 -24.657 -23.612 1.305 1.352 -1.828 H11 QCB 44 QCB H12 H12 H 0 1 N N N 38.770 -20.221 -22.806 -0.572 -1.184 -1.538 H12 QCB 45 QCB H13 H13 H 0 1 N N N 37.181 -19.968 -23.606 0.209 -2.569 -0.738 H13 QCB 46 QCB H14 H14 H 0 1 N N N 36.137 -20.097 -21.302 -1.179 -2.098 1.312 H14 QCB 47 QCB H15 H15 H 0 1 N N N 37.520 -18.009 -22.654 -2.069 -3.158 -1.258 H15 QCB 48 QCB H16 H16 H 0 1 N N N 35.826 -16.853 -21.484 -3.230 -4.595 0.256 H16 QCB 49 QCB H17 H17 H 0 1 N N N 39.145 -17.662 -21.128 -3.871 -1.669 -1.507 H17 QCB 50 QCB H18 H18 H 0 1 N N N 38.404 -16.253 -19.425 -4.989 -3.646 -0.671 H18 QCB 51 QCB H19 H19 H 0 1 N N N 37.473 -18.734 -18.872 -3.862 -1.176 1.524 H19 QCB 52 QCB H20 H20 H 0 1 N N N 40.677 -19.597 -20.536 -3.034 1.486 -1.028 H20 QCB 53 QCB H21 H21 H 0 1 N N N 43.049 -18.449 -14.933 -7.238 3.868 -1.104 H21 QCB 54 QCB H22 H22 H 0 1 N N N 43.162 -19.654 -16.028 -8.780 3.625 -0.483 H22 QCB 55 QCB H23 H23 H 0 1 N N N 32.461 -25.201 -23.684 9.407 -1.484 -0.418 H23 QCB 56 # # 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 QCB CGX CBX SING N N 1 QCB CBX OGX SING N N 2 QCB CBX CAX SING N N 3 QCB NX CAX SING N N 4 QCB NX CCA SING N N 5 QCB CAX CX SING N N 6 QCB CCA CP2 SING N N 7 QCB CCA OCA DOUB N N 8 QCB CP2 P1 SING N N 9 QCB CX OX DOUB N N 10 QCB CX OXT SING N N 11 QCB OP3 P1 DOUB N N 12 QCB P1 OP1 SING N N 13 QCB P1 "O5'" SING N N 14 QCB "C5'" "O5'" SING N N 15 QCB "C5'" "C4'" SING N N 16 QCB "C3'" "C4'" SING N N 17 QCB "C3'" "O3'" SING N N 18 QCB "C3'" "C2'" SING N N 19 QCB "C4'" "O4'" SING N N 20 QCB "C2'" "O2'" SING N N 21 QCB "C2'" "C1'" SING N N 22 QCB "O4'" "C1'" SING N N 23 QCB "C1'" N9 SING N N 24 QCB C8 N9 SING Y N 25 QCB C8 N7 DOUB Y N 26 QCB N9 C4 SING Y N 27 QCB N7 C5 SING Y N 28 QCB C4 C5 DOUB Y N 29 QCB C4 N3 SING Y N 30 QCB C5 C6 SING Y N 31 QCB N3 C2 DOUB Y N 32 QCB C6 N6 SING N N 33 QCB C6 N1 DOUB Y N 34 QCB C2 N1 SING Y N 35 QCB C2 H1 SING N N 36 QCB CAX H2 SING N N 37 QCB CBX H3 SING N N 38 QCB CGX H4 SING N N 39 QCB CGX H5 SING N N 40 QCB CGX H6 SING N N 41 QCB OGX H7 SING N N 42 QCB NX H8 SING N N 43 QCB CP2 H9 SING N N 44 QCB CP2 H10 SING N N 45 QCB OP1 H11 SING N N 46 QCB "C5'" H12 SING N N 47 QCB "C5'" H13 SING N N 48 QCB "C4'" H14 SING N N 49 QCB "C3'" H15 SING N N 50 QCB "O3'" H16 SING N N 51 QCB "C2'" H17 SING N N 52 QCB "O2'" H18 SING N N 53 QCB "C1'" H19 SING N N 54 QCB C8 H20 SING N N 55 QCB N6 H21 SING N N 56 QCB N6 H22 SING N N 57 QCB OXT H23 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 QCB InChI InChI 1.03 "InChI=1S/C16H23N6O10P/c1-6(23)9(16(27)28)21-8(24)3-33(29,30)31-2-7-11(25)12(26)15(32-7)22-5-20-10-13(17)18-4-19-14(10)22/h4-7,9,11-12,15,23,25-26H,2-3H2,1H3,(H,21,24)(H,27,28)(H,29,30)(H2,17,18,19)/t6-,7-,9+,11-,12-,15-/m1/s1" QCB InChIKey InChI 1.03 DWVLLSYZUNNOOL-JOHRSRDASA-N QCB SMILES_CANONICAL CACTVS 3.385 "C[C@@H](O)[C@H](NC(=O)C[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)C(O)=O" QCB SMILES CACTVS 3.385 "C[CH](O)[CH](NC(=O)C[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)C(O)=O" QCB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]([C@@H](C(=O)O)NC(=O)CP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)O" QCB SMILES "OpenEye OEToolkits" 2.0.7 "CC(C(C(=O)O)NC(=O)CP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)O)O" # _pdbx_chem_comp_identifier.comp_id QCB _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~{R})-2-[2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]ethanoylamino]-3-oxidanyl-butanoic 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 QCB "Create component" 2020-06-04 PDBE QCB "Initial release" 2021-02-10 RCSB ##