data_A1BBC # _chem_comp.id A1BBC _chem_comp.name "1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-5-(hydroxymethyl)pyrimidine-2,4(1H,3H)-dione" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C10 H14 F N2 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-09-29 _chem_comp.pdbx_modified_date 2025-01-31 _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 356.198 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1BBC _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 9DA2 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1BBC "C3'" C1 C 0 1 N N R N N N -24.140 -13.214 -9.245 0.819 2.440 0.243 "C3'" A1BBC 1 A1BBC "C4'" C2 C 0 1 N N R N N N -24.006 -14.612 -9.749 1.401 1.230 -0.521 "C4'" A1BBC 2 A1BBC "C5'" C3 C 0 1 N N N N N N -23.282 -15.505 -8.784 2.675 0.730 0.163 "C5'" A1BBC 3 A1BBC "C1'" C4 C 0 1 N N R N N N -26.367 -14.243 -9.459 -0.872 0.936 -0.659 "C1'" A1BBC 4 A1BBC C2 C5 C 0 1 N N N N N N -28.097 -14.156 -7.591 -1.947 -0.352 1.101 C2 A1BBC 5 A1BBC C4 C6 C 0 1 N N N N N N -28.055 -15.757 -5.953 -4.065 -1.304 0.850 C4 A1BBC 6 A1BBC C5 C7 C 0 1 N N N N N N -27.004 -16.546 -6.654 -4.133 -0.778 -0.463 C5 A1BBC 7 A1BBC C7 C8 C 0 1 N N N N N N -26.532 -17.841 -5.958 -5.349 -1.021 -1.320 C7 A1BBC 8 A1BBC C6 C9 C 0 1 N N N N N N -26.508 -16.138 -7.624 -3.095 -0.057 -0.937 C6 A1BBC 9 A1BBC "C2'" C10 C 0 1 N N S N N N -25.585 -13.024 -9.056 -0.711 2.242 0.150 "C2'" A1BBC 10 A1BBC F01 F1 F 0 1 N N N N N N -25.765 -12.790 -7.676 -1.264 2.099 1.427 F01 A1BBC 11 A1BBC N1 N1 N 0 1 N N N N N N -26.921 -14.898 -8.359 -1.999 0.153 -0.145 N1 A1BBC 12 A1BBC N3 N2 N 0 1 N N N N N N -28.550 -14.723 -6.304 -2.968 -1.074 1.599 N3 A1BBC 13 A1BBC "O3'" O1 O 0 1 N N N N N N -23.553 -12.228 -10.109 1.204 3.664 -0.385 "O3'" A1BBC 14 A1BBC "O5'" O2 O 0 1 N N N N N N -23.236 -16.829 -9.294 3.260 -0.311 -0.621 "O5'" A1BBC 15 A1BBC OP1 O3 O 0 1 N N N N N N -22.706 -19.195 -9.233 5.691 -0.076 0.017 OP1 A1BBC 16 A1BBC OP3 O4 O 0 1 N N N N N N -23.564 -18.085 -7.120 4.368 -1.896 1.160 OP3 A1BBC 17 A1BBC OP2 O5 O 0 1 N N N N N N -21.267 -17.624 -7.924 5.050 -2.085 -1.372 OP2 A1BBC 18 A1BBC "O4'" O6 O 0 1 N N N N N N -25.374 -15.120 -10.005 0.368 0.222 -0.459 "O4'" A1BBC 19 A1BBC O07 O7 O 0 1 N N N N N N -26.036 -18.752 -6.895 -5.169 -0.390 -2.590 O07 A1BBC 20 A1BBC O4 O8 O 0 1 N N N N N N -28.518 -16.147 -4.905 -4.990 -1.957 1.299 O4 A1BBC 21 A1BBC O2 O9 O 0 1 N N N N N N -28.466 -13.146 -8.107 -0.961 -0.156 1.786 O2 A1BBC 22 A1BBC P P1 P 0 1 N N N N N N -22.665 -18.014 -8.334 4.616 -1.070 -0.199 P A1BBC 23 A1BBC "H3'" H1 H 0 1 N N N N N N -23.652 -13.158 -8.261 1.144 2.426 1.283 "H3'" A1BBC 24 A1BBC "H4'" H2 H 0 1 N N N N N N -23.449 -14.594 -10.697 1.608 1.499 -1.557 "H4'" A1BBC 25 A1BBC "H5'" H3 H 0 1 N N N N N N -22.257 -15.133 -8.641 3.382 1.553 0.260 "H5'" A1BBC 26 A1BBC "H5''" H4 H 0 0 N N N N N N -23.810 -15.504 -7.819 2.428 0.345 1.153 "H5''" A1BBC 27 A1BBC "H1'" H5 H 0 1 N N N N N N -27.127 -13.980 -10.209 -1.017 1.159 -1.715 "H1'" A1BBC 28 A1BBC H71 H6 H 0 1 N N N N N N -27.381 -18.296 -5.427 -5.484 -2.093 -1.463 H71 A1BBC 29 A1BBC H72 H7 H 0 1 N N N N N N -25.738 -17.595 -5.238 -6.229 -0.606 -0.829 H72 A1BBC 30 A1BBC H6 H8 H 0 1 N N N N N N -25.680 -16.700 -8.030 -3.129 0.351 -1.936 H6 A1BBC 31 A1BBC "H2'" H9 H 0 1 N N N N N N -25.928 -12.160 -9.644 -1.173 3.077 -0.376 "H2'" A1BBC 32 A1BBC H3 H10 H 0 1 N N N N N N -29.242 -14.263 -5.748 -2.914 -1.431 2.499 H3 A1BBC 33 A1BBC "HO3'" H11 H 0 0 N N N N N N -23.673 -11.364 -9.732 0.817 4.452 0.020 "HO3'" A1BBC 34 A1BBC HOP3 H12 H 0 0 N N N N N N -24.035 -18.910 -7.122 3.675 -2.567 1.092 HOP3 A1BBC 35 A1BBC HOP2 H13 H 0 0 N N N N N N -20.642 -18.218 -8.323 5.861 -2.577 -1.185 HOP2 A1BBC 36 A1BBC HO7 H14 H 0 1 N N N N N N -25.751 -19.541 -6.450 -5.915 -0.505 -3.195 HO7 A1BBC 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 A1BBC "O3'" "C3'" SING N N 1 A1BBC "O4'" "C4'" SING N N 2 A1BBC "O4'" "C1'" SING N N 3 A1BBC "C4'" "C3'" SING N N 4 A1BBC "C4'" "C5'" SING N N 5 A1BBC "C1'" "C2'" SING N N 6 A1BBC "C1'" N1 SING N N 7 A1BBC "O5'" "C5'" SING N N 8 A1BBC "O5'" P SING N N 9 A1BBC "C3'" "C2'" SING N N 10 A1BBC OP1 P DOUB N N 11 A1BBC "C2'" F01 SING N N 12 A1BBC N1 C6 SING N N 13 A1BBC N1 C2 SING N N 14 A1BBC P OP2 SING N N 15 A1BBC P OP3 SING N N 16 A1BBC O2 C2 DOUB N N 17 A1BBC C6 C5 DOUB N N 18 A1BBC C2 N3 SING N N 19 A1BBC O07 C7 SING N N 20 A1BBC C5 C7 SING N N 21 A1BBC C5 C4 SING N N 22 A1BBC N3 C4 SING N N 23 A1BBC C4 O4 DOUB N N 24 A1BBC "C3'" "H3'" SING N N 25 A1BBC "C4'" "H4'" SING N N 26 A1BBC "C5'" "H5'" SING N N 27 A1BBC "C5'" "H5''" SING N N 28 A1BBC "C1'" "H1'" SING N N 29 A1BBC C7 H71 SING N N 30 A1BBC C7 H72 SING N N 31 A1BBC C6 H6 SING N N 32 A1BBC "C2'" "H2'" SING N N 33 A1BBC N3 H3 SING N N 34 A1BBC "O3'" "HO3'" SING N N 35 A1BBC OP3 HOP3 SING N N 36 A1BBC OP2 HOP2 SING N N 37 A1BBC O07 HO7 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 A1BBC SMILES ACDLabs 14.52 "O=P(O)(O)OCC1OC(N2C=C(CO)C(=O)NC2=O)C(F)C1O" A1BBC InChI InChI 1.06 "InChI=1S/C10H14FN2O9P/c11-6-7(15)5(3-21-23(18,19)20)22-9(6)13-1-4(2-14)8(16)12-10(13)17/h1,5-7,9,14-15H,2-3H2,(H,12,16,17)(H2,18,19,20)/t5-,6+,7-,9-/m1/s1" A1BBC InChIKey InChI 1.06 MCTFWHKMGAFQIE-JVZYCSMKSA-N A1BBC SMILES_CANONICAL CACTVS 3.385 "OCC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]2F)C(=O)NC1=O" A1BBC SMILES CACTVS 3.385 "OCC1=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2F)C(=O)NC1=O" A1BBC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1=C(C(=O)NC(=O)N1[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)F)CO" A1BBC SMILES "OpenEye OEToolkits" 2.0.7 "C1=C(C(=O)NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)F)CO" # 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 A1BBC "SYSTEMATIC NAME" ACDLabs 14.52 "1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-5-(hydroxymethyl)pyrimidine-2,4(1H,3H)-dione" A1BBC "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{R},4~{S},5~{R})-4-fluoranyl-5-[5-(hydroxymethyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1BBC "Create component" 2024-09-29 RCSB A1BBC "Initial release" 2025-02-05 RCSB #