data_3FBA # _model_server_result.job_id CCL5ZHvTeAgeLDtn2CpEVA _model_server_result.datetime_utc '2025-08-02 23:45:05' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3fba # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 3FBA # _exptl.entry_id 3FBA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.197 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2S,3S,4R,5S)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3FBA _cell.length_a 144.127 _cell.length_b 144.127 _cell.length_c 144.127 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3FBA _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_665 -z+3/2,-x+1,y+1/2 0 0 -1 -1 0 0 0 1 0 216.1905 144.127 72.0635 3 'crystal symmetry operation' 10_646 -y+1,z-1/2,-x+3/2 0 -1 0 0 0 1 -1 0 0 144.127 -72.0635 216.1905 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OD2 _struct_conn.ptnr1_label_comp_id ASP _struct_conn.ptnr1_label_seq_id 14 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ASP _struct_conn.ptnr1_auth_seq_id 8 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id ZN _struct_conn.ptnr2_label_comp_id ZN _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id ZN _struct_conn.ptnr2_auth_seq_id 900 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.272 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C9 H14 N3 O8 P' _chem_comp.formula_weight 323.197 _chem_comp.id C6B _chem_comp.mon_nstd_flag . _chem_comp.name '[(2S,3S,4R,5S)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O1P P C6B sing 70 n n P O2P C6B sing 71 n n P O3P C6B doub 72 n n P O3' C6B sing 73 n n O3' C3' C6B sing 74 n n C3' C2' C6B sing 75 n n C3' C4' C6B sing 76 n n C2' O2' C6B sing 77 n n C2' C1' C6B sing 78 n n C4' C5' C6B sing 79 n n C4' O4' C6B sing 80 n n C5' O5' C6B sing 81 n n O4' C1' C6B sing 82 n n C1' N1 C6B sing 83 n n N1 C6 C6B sing 84 n n N1 C2 C6B sing 85 n n C6 C5 C6B doub 86 n n C5 C4 C6B sing 87 n n C4 N4 C6B sing 88 n n C4 N3 C6B doub 89 n n N3 C2 C6B sing 90 n n C2 O2 C6B doub 91 n n O1P HO1P C6B sing 92 n n O2P HO2P C6B sing 93 n n C3' H3' C6B sing 94 n n C2' H2' C6B sing 95 n n O2' HO2' C6B sing 96 n n C4' H4' C6B sing 97 n n C5' H5' C6B sing 98 n n C5' "H5'A" C6B sing 99 n n O5' HO5' C6B sing 100 n n C1' H1' C6B sing 101 n n C6 H6 C6B sing 102 n n C5 H5 C6B sing 103 n n N4 HN4 C6B sing 104 n n N4 HN4A C6B sing 105 n n # _atom_sites.entry_id 3FBA _atom_sites.fract_transf_matrix[1][1] 0.006938 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006938 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006938 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 ZN A 1 900 900 ZN ZN . C 3 C6B A 1 901 901 C6B C6B . D 4 GPP A 1 903 903 GPP GPP . E 5 GOL A 1 904 904 GOL GOL . F 6 HOH A 1 160 1 HOH HOH . F 6 HOH A 2 161 2 HOH HOH . F 6 HOH A 3 162 3 HOH HOH . F 6 HOH A 4 163 4 HOH HOH . F 6 HOH A 5 164 5 HOH HOH . F 6 HOH A 6 165 6 HOH HOH . F 6 HOH A 7 166 7 HOH HOH . F 6 HOH A 8 167 8 HOH HOH . F 6 HOH A 9 168 9 HOH HOH . F 6 HOH A 10 169 10 HOH HOH . F 6 HOH A 11 170 11 HOH HOH . F 6 HOH A 12 171 12 HOH HOH . F 6 HOH A 13 172 13 HOH HOH . F 6 HOH A 14 173 14 HOH HOH . F 6 HOH A 15 174 15 HOH HOH . F 6 HOH A 16 175 16 HOH HOH . F 6 HOH A 17 176 17 HOH HOH . F 6 HOH A 18 177 18 HOH HOH . F 6 HOH A 19 178 19 HOH HOH . F 6 HOH A 20 179 20 HOH HOH . F 6 HOH A 21 180 21 HOH HOH . F 6 HOH A 22 181 22 HOH HOH . F 6 HOH A 23 182 23 HOH HOH . F 6 HOH A 24 183 24 HOH HOH . F 6 HOH A 25 184 25 HOH HOH . F 6 HOH A 26 185 26 HOH HOH . F 6 HOH A 27 186 27 HOH HOH . F 6 HOH A 28 187 28 HOH HOH . F 6 HOH A 29 188 29 HOH HOH . F 6 HOH A 30 189 30 HOH HOH . F 6 HOH A 31 190 31 HOH HOH . F 6 HOH A 32 191 32 HOH HOH . F 6 HOH A 33 192 33 HOH HOH . F 6 HOH A 34 193 34 HOH HOH . F 6 HOH A 35 194 35 HOH HOH . F 6 HOH A 36 195 36 HOH HOH . F 6 HOH A 37 196 37 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O1P C6B . . . C 3 94.829 44.574 139.683 1 72.34 ? O1P C6B 901 A 1 HETATM 2 P P C6B . . . C 3 94.404 46.183 139.618 1 73.14 ? P C6B 901 A 1 HETATM 3 O O2P C6B . . . C 3 92.976 46.314 140.488 1 73.46 ? O2P C6B 901 A 1 HETATM 4 O O3P C6B . . . C 3 94.314 46.727 138.203 1 71.67 ? O3P C6B 901 A 1 HETATM 5 O O3' C6B . . . C 3 95.53 46.96 140.575 1 74.47 ? O3' C6B 901 A 1 HETATM 6 C C3' C6B . . . C 3 96.843 47.039 140.009 1 73.94 ? C3' C6B 901 A 1 HETATM 7 C C2' C6B . . . C 3 97.295 48.485 139.77 1 72.11 ? C2' C6B 901 A 1 HETATM 8 O O2' C6B . . . C 3 97.341 49.271 140.976 1 70.73 ? O2' C6B 901 A 1 HETATM 9 C C4' C6B . . . C 3 98.016 46.364 140.818 1 74.58 ? C4' C6B 901 A 1 HETATM 10 C C5' C6B . . . C 3 97.927 46.277 142.366 1 76.79 ? C5' C6B 901 A 1 HETATM 11 O O5' C6B . . . C 3 98.277 44.956 142.814 1 77.67 ? O5' C6B 901 A 1 HETATM 12 O O4' C6B . . . C 3 99.146 47.259 140.522 1 74.21 ? O4' C6B 901 A 1 HETATM 13 C C1' C6B . . . C 3 98.653 47.953 139.314 1 70.94 ? C1' C6B 901 A 1 HETATM 14 N N1 C6B . . . C 3 99.632 48.689 138.482 1 68.39 ? N1 C6B 901 A 1 HETATM 15 C C6 C6B . . . C 3 99.5 48.482 137.102 1 67.4 ? C6 C6B 901 A 1 HETATM 16 C C5 C6B . . . C 3 100.379 49.101 136.233 1 66.48 ? C5 C6B 901 A 1 HETATM 17 C C4 C6B . . . C 3 101.376 49.9 136.762 1 66.31 ? C4 C6B 901 A 1 HETATM 18 N N4 C6B . . . C 3 102.208 50.477 135.905 1 66.01 ? N4 C6B 901 A 1 HETATM 19 N N3 C6B . . . C 3 101.488 50.08 138.103 1 66.74 ? N3 C6B 901 A 1 HETATM 20 C C2 C6B . . . C 3 100.655 49.497 138.996 1 66.73 ? C2 C6B 901 A 1 HETATM 21 O O2 C6B . . . C 3 100.779 49.673 140.216 1 65.24 ? O2 C6B 901 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #