data_GP0 # _chem_comp.id GP0 _chem_comp.name "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucopyranosyl]pyrimidine-2,4(1H,3H)-dione" _chem_comp.type D-saccharide _chem_comp.pdbx_type ATOMS _chem_comp.formula "C11 H15 F N2 O8" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ;5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucosyl]pyrimidine-2,4(1H,3H)-dione; 5-fluoro-1-[3-C-(hydroxymethyl)-D-glucosyl]pyrimidine-2,4(1H,3H)-dione; 5-fluoro-1-[3-C-(hydroxymethyl)-glucosyl]pyrimidine-2,4(1H,3H)-dione ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-08-10 _chem_comp.pdbx_modified_date 2020-07-17 _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 322.244 _chem_comp.one_letter_code ? _chem_comp.three_letter_code GP0 _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 3SYM _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 GP0 "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucosyl]pyrimidine-2,4(1H,3H)-dione" PDB ? 2 GP0 "5-fluoro-1-[3-C-(hydroxymethyl)-D-glucosyl]pyrimidine-2,4(1H,3H)-dione" PDB ? 3 GP0 "5-fluoro-1-[3-C-(hydroxymethyl)-glucosyl]pyrimidine-2,4(1H,3H)-dione" PDB ? # # 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 GP0 C1A C1 C 0 1 N N N 35.464 23.659 28.598 2.275 -0.367 -1.119 C1A GP0 1 GP0 F1 F1 F 0 1 N N N 37.578 24.399 29.264 4.478 -0.658 -1.868 F1 GP0 2 GP0 N1 N1 N 0 1 N N N 34.075 23.573 28.828 1.405 0.010 -0.129 N1 GP0 3 GP0 C2A C2 C 0 1 N N N 36.262 24.346 29.497 3.606 -0.291 -0.904 C2A GP0 4 GP0 C3A C3 C 0 1 N N N 35.695 24.958 30.627 4.076 0.181 0.348 C3A GP0 5 GP0 O3A O3 O 0 1 N N N 36.375 25.597 31.427 5.271 0.259 0.566 O3A GP0 6 GP0 N4 N4 N 0 1 N N N 34.321 24.874 30.857 3.186 0.541 1.295 N4 GP0 7 GP0 C5A C5 C 0 1 N N N 33.509 24.180 29.963 1.865 0.456 1.054 C5A GP0 8 GP0 O5A O5 O 0 1 N N N 32.302 24.105 30.187 1.076 0.785 1.918 O5A GP0 9 GP0 C1 "C1'" C 0 1 N N R 33.197 22.860 27.881 -0.039 -0.073 -0.361 C1 GP0 10 GP0 C2 "C2'" C 0 1 N N R 33.531 23.194 26.396 -0.649 -1.113 0.582 C2 GP0 11 GP0 O2 "O2'" O 0 1 N N N 33.698 24.601 26.191 -0.096 -2.399 0.297 O2 GP0 12 GP0 C3 "C3'" C 0 1 N N S 32.455 22.614 25.447 -2.167 -1.151 0.376 C3 GP0 13 GP0 O3 "O3'" O 0 1 N N N 32.924 22.557 24.109 -2.753 -2.066 1.304 O3 GP0 14 GP0 C4 "C4'" C 0 1 N N R 32.198 21.138 25.837 -2.737 0.252 0.608 C4 GP0 15 GP0 O4 "O4'" O 0 1 N N N 31.079 20.652 25.095 -4.142 0.245 0.347 O4 GP0 16 GP0 C5 "C5'" C 0 1 N N R 32.040 20.899 27.362 -2.047 1.239 -0.336 C5 GP0 17 GP0 O5 "O5'" O 0 1 N N N 33.173 21.413 28.089 -0.636 1.202 -0.113 O5 GP0 18 GP0 C6 "C6'" C 0 1 N N N 31.996 19.432 27.746 -2.569 2.652 -0.068 C6 GP0 19 GP0 O6 "O6'" O 0 1 N N N 33.146 18.747 27.264 -2.012 3.555 -1.026 O6 GP0 20 GP0 "C7'" "C7'" C 0 1 N N N 31.186 23.519 25.478 -2.477 -1.601 -1.053 "C7'" GP0 21 GP0 H1A H1 H 0 1 N N N 35.902 23.193 27.728 1.898 -0.728 -2.064 H1A GP0 22 GP0 HN4 HN4 H 0 1 N N N 33.920 25.311 31.662 3.500 0.865 2.154 HN4 GP0 23 GP0 H1 "H1'" H 0 1 N N N 32.185 23.233 28.096 -0.225 -0.367 -1.394 H1 GP0 24 GP0 H2 "H2'" H 0 1 N N N 34.493 22.717 26.158 -0.428 -0.842 1.615 H2 GP0 25 GP0 HO2 "HO2'" H 0 1 N Y N 33.900 24.767 25.278 0.864 -2.447 0.403 HO2 GP0 26 GP0 HO3 "HO3'" H 0 1 N Y N 32.245 22.198 23.550 -3.714 -2.140 1.229 HO3 GP0 27 GP0 H4 "H4'" H 0 1 N N N 33.098 20.564 25.573 -2.560 0.550 1.642 H4 GP0 28 GP0 HO4 "HO4'" H 0 1 N Y N 30.913 19.746 25.328 -4.571 1.102 0.475 HO4 GP0 29 GP0 H5 "H5'" H 0 1 N N N 31.094 21.402 27.610 -2.259 0.962 -1.369 H5 GP0 30 GP0 H61 "H6'" H 0 1 N N N 31.963 19.350 28.842 -3.655 2.659 -0.151 H61 GP0 31 GP0 H62 "H6'A" H 0 1 N N N 31.097 18.974 27.308 -2.278 2.962 0.935 H62 GP0 32 GP0 HO6 "HO6'" H 0 1 N Y N 33.098 17.832 27.515 -2.300 4.471 -0.916 HO6 GP0 33 GP0 "H7'" "H7'" H 0 1 N N N 30.904 23.720 26.522 -2.143 -2.629 -1.191 "H7'" GP0 34 GP0 "O7'" "O7'" O 0 1 N N N 30.109 22.853 24.813 -3.886 -1.524 -1.281 "O7'" GP0 35 GP0 H14 H14 H 0 1 N N N 31.401 24.469 24.967 -1.959 -0.952 -1.759 H14 GP0 36 GP0 H15 H15 H 0 1 N N N 29.335 23.404 24.832 -4.156 -1.796 -2.169 H15 GP0 37 # # 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 GP0 C1A N1 SING N N 1 GP0 C1A C2A DOUB N N 2 GP0 C1A H1A SING N N 3 GP0 F1 C2A SING N N 4 GP0 N1 C5A SING N N 5 GP0 N1 C1 SING N N 6 GP0 C2A C3A SING N N 7 GP0 C3A O3A DOUB N N 8 GP0 C3A N4 SING N N 9 GP0 N4 C5A SING N N 10 GP0 N4 HN4 SING N N 11 GP0 C5A O5A DOUB N N 12 GP0 C1 C2 SING N N 13 GP0 C1 O5 SING N N 14 GP0 C1 H1 SING N N 15 GP0 C2 O2 SING N N 16 GP0 C2 C3 SING N N 17 GP0 C2 H2 SING N N 18 GP0 O2 HO2 SING N N 19 GP0 C3 O3 SING N N 20 GP0 C3 C4 SING N N 21 GP0 C3 "C7'" SING N N 22 GP0 O3 HO3 SING N N 23 GP0 C4 O4 SING N N 24 GP0 C4 C5 SING N N 25 GP0 C4 H4 SING N N 26 GP0 O4 HO4 SING N N 27 GP0 C5 O5 SING N N 28 GP0 C5 C6 SING N N 29 GP0 C5 H5 SING N N 30 GP0 C6 O6 SING N N 31 GP0 C6 H61 SING N N 32 GP0 C6 H62 SING N N 33 GP0 O6 HO6 SING N N 34 GP0 "C7'" "H7'" SING N N 35 GP0 "C7'" "O7'" SING N N 36 GP0 "C7'" H14 SING N N 37 GP0 "O7'" H15 SING N N 38 # # 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 GP0 SMILES ACDLabs 12.01 "FC1=CN(C(=O)NC1=O)C2OC(C(O)C(O)(C2O)CO)CO" GP0 InChI InChI 1.03 "InChI=1S/C11H15FN2O8/c12-4-1-14(10(20)13-8(4)19)9-7(18)11(21,3-16)6(17)5(2-15)22-9/h1,5-7,9,15-18,21H,2-3H2,(H,13,19,20)/t5-,6-,7+,9-,11+/m1/s1" GP0 InChIKey InChI 1.03 ASRLDHHNHXDEKP-RZBPYSQRSA-N GP0 SMILES_CANONICAL CACTVS 3.370 "OC[C@H]1O[C@H]([C@H](O)[C@](O)(CO)[C@@H]1O)N2C=C(F)C(=O)NC2=O" GP0 SMILES CACTVS 3.370 "OC[CH]1O[CH]([CH](O)[C](O)(CO)[CH]1O)N2C=C(F)C(=O)NC2=O" GP0 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.2 "C1=C(C(=O)NC(=O)N1[C@H]2[C@@H]([C@@]([C@@H]([C@H](O2)CO)O)(CO)O)O)F" GP0 SMILES "OpenEye OEToolkits" 1.7.2 "C1=C(C(=O)NC(=O)N1C2C(C(C(C(O2)CO)O)(CO)O)O)F" # # 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 GP0 "SYSTEMATIC NAME" ACDLabs 12.01 "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucopyranosyl]pyrimidine-2,4(1H,3H)-dione" GP0 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.2 "1-[(2R,3R,4S,5R,6R)-4,6-bis(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]-5-fluoranyl-pyrimidine-2,4-dione" # # loop_ _pdbx_chem_comp_feature.comp_id _pdbx_chem_comp_feature.type _pdbx_chem_comp_feature.value _pdbx_chem_comp_feature.source _pdbx_chem_comp_feature.support GP0 "CARBOHYDRATE ISOMER" D PDB ? GP0 "CARBOHYDRATE RING" pyranose PDB ? GP0 "CARBOHYDRATE ANOMER" beta PDB ? GP0 "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose PDB ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site GP0 "Create component" 2011-08-10 RCSB GP0 "Other modification" 2020-07-03 RCSB GP0 "Modify synonyms" 2020-07-17 RCSB GP0 "Modify internal type" 2020-07-17 RCSB GP0 "Modify linking type" 2020-07-17 RCSB GP0 "Modify atom id" 2020-07-17 RCSB GP0 "Modify component atom id" 2020-07-17 RCSB GP0 "Modify leaving atom flag" 2020-07-17 RCSB ##