data_DLZ # _chem_comp.id DLZ _chem_comp.name "1-deoxy-1-(6,7-dimethyl-2,4-dioxo-3,4-dihydropteridin-8(2H)-yl)-D-ribitol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H18 N4 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "6,7-dimethyl-8-(1'-D-ribityl) lumazine" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-06-16 _chem_comp.pdbx_modified_date 2020-06-17 _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 326.305 _chem_comp.one_letter_code ? _chem_comp.three_letter_code DLZ _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 3A3G _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 DLZ C7 C7 C 0 1 N N N 16.928 -7.168 -18.903 0.007 3.141 -0.454 C7 DLZ 1 DLZ C7A C7A C 0 1 N N N 17.234 -5.985 -19.577 1.018 2.046 -0.232 C7A DLZ 2 DLZ C5A C5A C 0 1 N N N 18.391 -5.939 -20.359 2.245 2.349 0.315 C5A DLZ 3 DLZ C6 C6 C 0 1 N N N 19.251 -7.053 -20.406 2.559 3.776 0.686 C6 DLZ 4 DLZ N5 N5 N 0 1 N N N 18.672 -4.766 -21.092 3.153 1.410 0.523 N5 DLZ 5 DLZ C4A C4A C 0 1 N N N 17.833 -3.616 -21.020 2.898 0.155 0.206 C4A DLZ 6 DLZ C4 C4 C 0 1 N N N 18.100 -2.390 -21.668 3.885 -0.920 0.422 C4 DLZ 7 DLZ O4 O4 O 0 1 N N N 19.093 -2.168 -22.363 4.978 -0.687 0.904 O4 DLZ 8 DLZ N3 N3 N 0 1 N N N 17.195 -1.346 -21.578 3.528 -2.174 0.063 N3 DLZ 9 DLZ C2 C2 C 0 1 N N N 16.054 -1.475 -20.832 2.318 -2.415 -0.467 C2 DLZ 10 DLZ O2 O2 O 0 1 N N N 15.251 -0.555 -20.737 2.038 -3.561 -0.775 O2 DLZ 11 DLZ N1 N1 N 0 1 N N N 15.806 -2.645 -20.174 1.411 -1.467 -0.672 N1 DLZ 12 DLZ C8 C8 C 0 1 N N N 16.683 -3.703 -20.244 1.645 -0.199 -0.361 C8 DLZ 13 DLZ N8 N8 N 0 1 N N N 16.354 -4.855 -19.560 0.713 0.776 -0.566 N8 DLZ 14 DLZ "C1'" "C1'" C 0 1 N N N 15.088 -4.843 -18.779 -0.593 0.449 -1.144 "C1'" DLZ 15 DLZ "C2'" "C2'" C 0 1 N N S 15.204 -4.089 -17.435 -1.605 0.219 -0.020 "C2'" DLZ 16 DLZ "O2'" "O2'" O 0 1 N N N 16.244 -4.650 -16.601 -1.237 -0.946 0.721 "O2'" DLZ 17 DLZ "C3'" "C3'" C 0 1 N N S 13.876 -4.262 -16.697 -2.999 0.024 -0.620 "C3'" DLZ 18 DLZ "O3'" "O3'" O 0 1 N N N 12.905 -3.737 -17.577 -3.366 1.190 -1.360 "O3'" DLZ 19 DLZ "C4'" "C4'" C 0 1 N N R 13.791 -3.487 -15.393 -4.010 -0.206 0.504 "C4'" DLZ 20 DLZ "O4'" "O4'" O 0 1 N N N 14.674 -4.004 -14.377 -3.643 -1.372 1.245 "O4'" DLZ 21 DLZ "C5'" "C5'" C 0 1 N N N 12.359 -3.549 -14.846 -5.404 -0.401 -0.096 "C5'" DLZ 22 DLZ "O5'" "O5'" O 0 1 N N N 12.289 -2.538 -13.839 -6.366 -0.500 0.956 "O5'" DLZ 23 DLZ H7 H7 H 0 1 N N N 16.847 -7.993 -19.627 0.202 3.627 -1.411 H7 DLZ 24 DLZ H7A H7A H 0 1 N N N 17.724 -7.393 -18.178 -0.996 2.714 -0.461 H7A DLZ 25 DLZ H7B H7B H 0 1 N N N 15.971 -7.051 -18.373 0.084 3.875 0.348 H7B DLZ 26 DLZ H6 H6 H 0 1 N N N 19.475 -7.300 -21.454 2.302 3.945 1.731 H6 DLZ 27 DLZ H6A H6A H 0 1 N N N 20.186 -6.817 -19.877 3.622 3.964 0.538 H6A DLZ 28 DLZ H6B H6B H 0 1 N N N 18.763 -7.913 -19.923 1.979 4.450 0.055 H6B DLZ 29 DLZ HN3 HN3 H 0 1 N N N 17.376 -0.490 -22.062 4.151 -2.907 0.190 HN3 DLZ 30 DLZ "H1'" "H1'" H 0 1 N N N 14.315 -4.348 -19.385 -0.929 1.275 -1.772 "H1'" DLZ 31 DLZ "H1'A" "H1'A" H 0 0 N N N 14.837 -5.888 -18.547 -0.508 -0.455 -1.747 "H1'A" DLZ 32 DLZ "H2'" "H2'" H 0 1 N N N 15.443 -3.035 -17.637 -1.613 1.084 0.644 "H2'" DLZ 33 DLZ "HO2'" "HO2'" H 0 0 N N N 17.032 -4.773 -17.117 -1.138 -1.741 0.179 "HO2'" DLZ 34 DLZ "H3'" "H3'" H 0 1 N N N 13.743 -5.322 -16.433 -2.990 -0.840 -1.284 "H3'" DLZ 35 DLZ "HO3'" "HO3'" H 0 0 N N N 12.086 -3.619 -17.111 -3.394 1.999 -0.832 "HO3'" DLZ 36 DLZ "H4'" "H4'" H 0 1 N N N 14.092 -2.454 -15.623 -4.019 0.659 1.168 "H4'" DLZ 37 DLZ "HO4'" "HO4'" H 0 0 N N N 15.544 -4.118 -14.741 -3.615 -2.181 0.716 "HO4'" DLZ 38 DLZ "H5'" "H5'" H 0 1 N N N 11.627 -3.356 -15.644 -5.648 0.449 -0.733 "H5'" DLZ 39 DLZ "H5'A" "H5'A" H 0 0 N N N 12.123 -4.543 -14.439 -5.419 -1.316 -0.689 "H5'A" DLZ 40 DLZ "HO5'" "HO5'" H 0 0 N N N 12.273 -2.946 -12.981 -7.274 -0.625 0.648 "HO5'" DLZ 41 # # 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 DLZ C7 C7A SING N N 1 DLZ C7A C5A DOUB N N 2 DLZ C7A N8 SING N N 3 DLZ C5A C6 SING N N 4 DLZ C5A N5 SING N N 5 DLZ N5 C4A DOUB N N 6 DLZ C4A C4 SING N N 7 DLZ C4A C8 SING N N 8 DLZ C4 O4 DOUB N N 9 DLZ C4 N3 SING N N 10 DLZ N3 C2 SING N N 11 DLZ C2 O2 DOUB N N 12 DLZ C2 N1 SING N N 13 DLZ N1 C8 DOUB N N 14 DLZ C8 N8 SING N N 15 DLZ N8 "C1'" SING N N 16 DLZ "C1'" "C2'" SING N N 17 DLZ "C2'" "O2'" SING N N 18 DLZ "C2'" "C3'" SING N N 19 DLZ "C3'" "O3'" SING N N 20 DLZ "C3'" "C4'" SING N N 21 DLZ "C4'" "O4'" SING N N 22 DLZ "C4'" "C5'" SING N N 23 DLZ "C5'" "O5'" SING N N 24 DLZ C7 H7 SING N N 25 DLZ C7 H7A SING N N 26 DLZ C7 H7B SING N N 27 DLZ C6 H6 SING N N 28 DLZ C6 H6A SING N N 29 DLZ C6 H6B SING N N 30 DLZ N3 HN3 SING N N 31 DLZ "C1'" "H1'" SING N N 32 DLZ "C1'" "H1'A" SING N N 33 DLZ "C2'" "H2'" SING N N 34 DLZ "O2'" "HO2'" SING N N 35 DLZ "C3'" "H3'" SING N N 36 DLZ "O3'" "HO3'" SING N N 37 DLZ "C4'" "H4'" SING N N 38 DLZ "O4'" "HO4'" SING N N 39 DLZ "C5'" "H5'" SING N N 40 DLZ "C5'" "H5'A" SING N N 41 DLZ "O5'" "HO5'" SING N N 42 # # 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 DLZ SMILES ACDLabs 10.04 "O=C2N=C1N(C(=C(N=C1C(=O)N2)C)C)CC(O)C(O)C(O)CO" DLZ SMILES_CANONICAL CACTVS 3.341 "CC1=C(C)N(C[C@H](O)[C@H](O)[C@H](O)CO)C2=NC(=O)NC(=O)C2=N1" DLZ SMILES CACTVS 3.341 "CC1=C(C)N(C[CH](O)[CH](O)[CH](O)CO)C2=NC(=O)NC(=O)C2=N1" DLZ SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=C(N(C2=NC(=O)NC(=O)C2=N1)C[C@@H]([C@@H]([C@@H](CO)O)O)O)C" DLZ SMILES "OpenEye OEToolkits" 1.5.0 "CC1=C(N(C2=NC(=O)NC(=O)C2=N1)CC(C(C(CO)O)O)O)C" DLZ InChI InChI 1.03 "InChI=1S/C13H18N4O6/c1-5-6(2)17(3-7(19)10(21)8(20)4-18)11-9(14-5)12(22)16-13(23)15-11/h7-8,10,18-21H,3-4H2,1-2H3,(H,16,22,23)/t7-,8+,10-/m0/s1" DLZ InChIKey InChI 1.03 SXDXRJZUAJBNFL-XKSSXDPKSA-N # # 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 DLZ "SYSTEMATIC NAME" ACDLabs 10.04 "1-deoxy-1-(6,7-dimethyl-2,4-dioxo-3,4-dihydropteridin-8(2H)-yl)-D-ribitol" DLZ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "6,7-dimethyl-8-[(2S,3S,4R)-2,3,4,5-tetrahydroxypentyl]pteridine-2,4-dione" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site DLZ "Create component" 2009-06-16 PDBJ DLZ "Modify descriptor" 2011-06-04 RCSB DLZ "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id DLZ _pdbx_chem_comp_synonyms.name "6,7-dimethyl-8-(1'-D-ribityl) lumazine" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##