data_CZC # _chem_comp.id CZC _chem_comp.name "[(2~{R},3~{S},4~{R},5~{R})-5-[2,6-bis(oxidanylidene)-3~{H}-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C10 H14 N4 O12 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "xanthosine diphosphate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2019-05-24 _chem_comp.pdbx_modified_date 2022-03-25 _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 444.185 _chem_comp.one_letter_code ? _chem_comp.three_letter_code CZC _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 6K4A _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 CZC C1 C2 C 0 1 N N N 44.571 58.375 -1.709 6.143 -0.530 1.221 C1 CZC 1 CZC C2 C4 C 0 1 Y N N 43.542 60.348 -2.663 4.060 -0.512 0.100 C2 CZC 2 CZC C3 C5 C 0 1 Y N N 42.525 60.235 -1.802 4.482 -1.567 -0.699 C3 CZC 3 CZC C4 C1* C 0 1 N N R 44.095 62.023 -4.537 1.940 0.839 0.259 C4 CZC 4 CZC C5 C2* C 0 1 N N R 43.537 61.678 -5.900 2.187 2.178 -0.472 C5 CZC 5 CZC C6 C3* C 0 1 N N S 44.320 62.684 -6.683 0.786 2.824 -0.555 C6 CZC 6 CZC C7 C4* C 0 1 N N R 43.888 63.909 -5.896 -0.142 1.800 0.135 C7 CZC 7 CZC C8 C5* C 0 1 N N N 42.415 64.217 -6.188 -1.492 1.738 -0.581 C8 CZC 8 CZC C9 C6 C 0 1 N N N 42.473 59.249 -0.903 5.826 -2.107 -0.484 C9 CZC 9 CZC C10 C8 C 0 1 Y N N 42.161 61.962 -3.039 2.468 -1.066 -1.310 C10 CZC 10 CZC N1 N1 N 0 1 N N N 43.492 58.290 -0.828 6.596 -1.553 0.478 N1 CZC 11 CZC N2 N3 N 0 1 N N N 44.596 59.420 -2.640 4.914 -0.011 1.056 N2 CZC 12 CZC N3 N7 N 0 1 Y N N 41.677 61.233 -2.039 3.467 -1.866 -1.545 N3 CZC 13 CZC N4 N9 N 0 1 Y N N 43.311 61.422 -3.423 2.796 -0.212 -0.298 N4 CZC 14 CZC O1 O2 O 0 1 N N N 45.479 57.546 -1.665 6.868 -0.061 2.077 O1 CZC 15 CZC O2 O2* O 0 1 N N N 43.877 60.333 -6.277 3.078 3.002 0.282 O2 CZC 16 CZC O3 O3* O 0 1 N N N 45.719 62.447 -6.493 0.767 4.069 0.145 O3 CZC 17 CZC O4 O4* O 0 1 N N N 44.009 63.481 -4.506 0.549 0.537 0.015 O4 CZC 18 CZC O5 O5* O 0 1 N N N 42.026 65.412 -5.500 -2.374 0.874 0.140 O5 CZC 19 CZC O6 O6 O 0 1 N N N 41.524 59.171 -0.125 6.241 -3.031 -1.159 O6 CZC 20 CZC O7 OAS O 0 1 N N N 40.204 65.614 -7.343 -4.537 -0.535 0.638 O7 CZC 21 CZC O8 OAT O 0 1 N N N 39.513 65.742 -4.883 -4.750 1.930 -0.249 O8 CZC 22 CZC O9 OAV O 0 1 N N N 40.855 67.669 -5.958 -3.880 0.074 -1.722 O9 CZC 23 CZC O10 OAX O 0 1 N N N 42.096 67.029 -8.431 -5.692 -2.671 1.647 O10 CZC 24 CZC O11 OAY O 0 1 N N N 39.620 67.579 -8.926 -7.159 -0.719 0.672 O11 CZC 25 CZC O12 OAZ O 0 1 N N N 40.691 65.437 -9.874 -5.758 -2.187 -0.829 O12 CZC 26 CZC P1 PBD P 0 1 N N N 40.679 66.196 -5.913 -3.885 0.575 -0.329 P1 CZC 27 CZC P2 PBE P 0 1 N N N 40.650 66.348 -8.703 -5.786 -1.542 0.503 P2 CZC 28 CZC H1 H1 H 0 1 N N N 45.145 61.700 -4.475 2.122 0.949 1.328 H1 CZC 29 CZC H2 H2 H 0 1 N N N 42.456 61.873 -5.953 2.586 1.999 -1.470 H2 CZC 30 CZC H3 H3 H 0 1 N N N 44.016 62.734 -7.739 0.493 2.967 -1.595 H3 CZC 31 CZC H4 H4 H 0 1 N N N 44.527 64.776 -6.122 -0.279 2.059 1.185 H4 CZC 32 CZC H5 H5 H 0 1 N N N 42.278 64.357 -7.270 -1.924 2.738 -0.630 H5 CZC 33 CZC H6 H6 H 0 1 N N N 41.791 63.378 -5.845 -1.352 1.353 -1.591 H6 CZC 34 CZC H7 H7 H 0 1 N N N 41.699 62.841 -3.465 1.525 -1.076 -1.836 H7 CZC 35 CZC H8 H8 H 0 1 N N N 43.447 57.554 -0.152 7.489 -1.899 0.633 H8 CZC 36 CZC H9 H9 H 0 1 N N N 45.357 59.505 -3.283 4.625 0.726 1.617 H9 CZC 37 CZC H10 H10 H 0 1 N N N 43.364 59.720 -5.763 3.268 3.856 -0.131 H10 CZC 38 CZC H11 H11 H 0 1 N N N 46.219 63.085 -6.989 1.377 4.730 -0.210 H11 CZC 39 CZC H12 H12 H 0 1 N N N 39.133 66.511 -4.475 -4.797 2.316 0.636 H12 CZC 40 CZC H13 H13 H 0 1 N N N 42.719 66.719 -9.078 -6.414 -3.313 1.626 H13 CZC 41 CZC H14 H14 H 0 1 N N N 39.215 67.502 -9.782 -7.246 -0.270 1.524 H14 CZC 42 # # 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 CZC O12 P2 DOUB N N 1 CZC O11 P2 SING N N 2 CZC P2 O10 SING N N 3 CZC P2 O7 SING N N 4 CZC O7 P1 SING N N 5 CZC C6 O3 SING N N 6 CZC C6 C5 SING N N 7 CZC C6 C7 SING N N 8 CZC O2 C5 SING N N 9 CZC C8 C7 SING N N 10 CZC C8 O5 SING N N 11 CZC O9 P1 DOUB N N 12 CZC P1 O5 SING N N 13 CZC P1 O8 SING N N 14 CZC C5 C4 SING N N 15 CZC C7 O4 SING N N 16 CZC C4 O4 SING N N 17 CZC C4 N4 SING N N 18 CZC N4 C10 SING Y N 19 CZC N4 C2 SING Y N 20 CZC C10 N3 DOUB Y N 21 CZC C2 N2 SING N N 22 CZC C2 C3 DOUB Y N 23 CZC N2 C1 SING N N 24 CZC N3 C3 SING Y N 25 CZC C3 C9 SING N N 26 CZC C1 O1 DOUB N N 27 CZC C1 N1 SING N N 28 CZC C9 N1 SING N N 29 CZC C9 O6 DOUB N N 30 CZC C4 H1 SING N N 31 CZC C5 H2 SING N N 32 CZC C6 H3 SING N N 33 CZC C7 H4 SING N N 34 CZC C8 H5 SING N N 35 CZC C8 H6 SING N N 36 CZC C10 H7 SING N N 37 CZC N1 H8 SING N N 38 CZC N2 H9 SING N N 39 CZC O2 H10 SING N N 40 CZC O3 H11 SING N N 41 CZC O8 H12 SING N N 42 CZC O10 H13 SING N N 43 CZC O11 H14 SING N N 44 # # 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 CZC InChI InChI 1.03 "InChI=1S/C10H14N4O12P2/c15-5-3(1-24-28(22,23)26-27(19,20)21)25-9(6(5)16)14-2-11-4-7(14)12-10(18)13-8(4)17/h2-3,5-6,9,15-16H,1H2,(H,22,23)(H2,19,20,21)(H2,12,13,17,18)/t3-,5-,6-,9-/m1/s1" CZC InChIKey InChI 1.03 YMOPVQQBWLGDOD-UUOKFMHZSA-N CZC SMILES_CANONICAL CACTVS 3.385 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(=O)O[P](O)(O)=O)n2cnc3C(=O)NC(=O)Nc23" CZC SMILES CACTVS 3.385 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(=O)O[P](O)(O)=O)n2cnc3C(=O)NC(=O)Nc23" CZC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)O)O)O)NC(=O)NC2=O" CZC SMILES "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)NC(=O)NC2=O" # _pdbx_chem_comp_identifier.comp_id CZC _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-[2,6-bis(oxidanylidene)-3~{H}-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id CZC _pdbx_chem_comp_synonyms.name "xanthosine diphosphate" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site CZC "Create component" 2019-05-24 PDBJ CZC "Modify synonyms" 2022-03-23 PDBJ CZC "Initial release" 2022-03-30 RCSB ##