data_3SGU # _model_server_result.job_id hpalbK61g6-m4WNkSC413Q _model_server_result.datetime_utc '2024-11-13 09:51:59' _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 3sgu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1000}' # _entry.id 3SGU # _exptl.entry_id 3SGU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.172 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5-FLUORO-URIDINE-5'-MONOPHOSPHATE" _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 3SGU _cell.length_a 57.891 _cell.length_b 103.709 _cell.length_c 73.68 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SGU _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order covale ? covale1 A C GLY 64 A GLY 64 1_555 A N CSD 65 A CSD 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C CSD 65 A CSD 65 1_555 A N ARG 66 A ARG 66 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.333 ? covale ? covale3 A C CSD 65 A CSD 65 1_555 A N ARG 66 A ARG 66 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A NZ LYS 72 A LYS 72 1_555 B C6 5FU . A 5FU 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.287 ? # _chem_comp.formula 'C9 H12 F N2 O9 P' _chem_comp.formula_weight 342.172 _chem_comp.id 5FU _chem_comp.mon_nstd_flag n _chem_comp.name "5-FLUORO-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type 'rna linking' _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 F5 C5 5FU sing 1 n n C5 C6 5FU doub 2 n n C5 C4 5FU sing 3 n n C4 O4 5FU doub 4 n n C4 N3 5FU sing 5 n n N3 H3 5FU sing 6 n n N3 C2 5FU sing 7 n n C2 N1 5FU sing 8 n n C2 O2 5FU doub 9 n n C6 N1 5FU sing 10 n n C6 H6 5FU sing 11 n n N1 C1' 5FU sing 12 n n C1' C2' 5FU sing 13 n n C1' H1' 5FU sing 14 n n C1' O4' 5FU sing 15 n n O4' C4' 5FU sing 16 n n C2' O2' 5FU sing 17 n n C2' H2' 5FU sing 18 n n C2' C3' 5FU sing 19 n n O2' "HO'2" 5FU sing 20 n n C3' C4' 5FU sing 21 n n C3' H3' 5FU sing 22 n n C3' O3' 5FU sing 23 n n O3' H3T 5FU sing 24 n n C4' H4' 5FU sing 25 n n C4' C5' 5FU sing 26 n n C5' "H5'1" 5FU sing 27 n n C5' "H5'2" 5FU sing 28 n n C5' O5' 5FU sing 29 n n O5' P 5FU sing 30 n n P O1P 5FU doub 31 n n P O2P 5FU sing 32 n n P O3P 5FU sing 33 n n O2P HOP2 5FU sing 34 n n O3P HOP3 5FU sing 35 n n # _atom_sites.entry_id 3SGU _atom_sites.fract_transf_matrix[1][1] 0.017274 _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] 0.009642 _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] 0.013572 _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 5FU A 1 1000 1000 5FU 5FU . C 3 HOH A 1 1101 1 HOH HOH . C 3 HOH A 2 1102 2 HOH HOH . C 3 HOH A 3 1103 3 HOH HOH . C 3 HOH A 4 1104 4 HOH HOH . C 3 HOH A 5 1105 5 HOH HOH . C 3 HOH A 6 1106 6 HOH HOH . C 3 HOH A 7 1107 7 HOH HOH . C 3 HOH A 8 1108 8 HOH HOH . C 3 HOH A 9 1109 9 HOH HOH . C 3 HOH A 10 1110 10 HOH HOH . C 3 HOH A 11 1111 11 HOH HOH . C 3 HOH A 12 1112 12 HOH HOH . C 3 HOH A 13 1113 13 HOH HOH . C 3 HOH A 14 1114 14 HOH HOH . C 3 HOH A 15 1115 15 HOH HOH . C 3 HOH A 16 1116 16 HOH HOH . C 3 HOH A 17 1117 17 HOH HOH . C 3 HOH A 18 1118 18 HOH HOH . C 3 HOH A 19 1119 19 HOH HOH . C 3 HOH A 20 1120 20 HOH HOH . C 3 HOH A 21 1121 21 HOH HOH . C 3 HOH A 22 1122 22 HOH HOH . C 3 HOH A 23 1123 23 HOH HOH . C 3 HOH A 24 1124 24 HOH HOH . C 3 HOH A 25 1125 25 HOH HOH . C 3 HOH A 26 1126 26 HOH HOH . C 3 HOH A 27 1127 27 HOH HOH . C 3 HOH A 28 1128 28 HOH HOH . C 3 HOH A 29 1129 29 HOH HOH . C 3 HOH A 30 1130 30 HOH HOH . C 3 HOH A 31 1131 31 HOH HOH . C 3 HOH A 32 1132 32 HOH HOH . C 3 HOH A 33 1133 33 HOH HOH . C 3 HOH A 34 1134 34 HOH HOH . C 3 HOH A 35 1135 35 HOH HOH . C 3 HOH A 36 1136 36 HOH HOH . C 3 HOH A 37 1137 37 HOH HOH . C 3 HOH A 38 1138 38 HOH HOH . C 3 HOH A 39 1139 39 HOH HOH . C 3 HOH A 40 1140 40 HOH HOH . C 3 HOH A 41 1141 41 HOH HOH . C 3 HOH A 42 1142 42 HOH HOH . C 3 HOH A 43 1143 43 HOH HOH . C 3 HOH A 44 1144 44 HOH HOH . C 3 HOH A 45 1145 45 HOH HOH . C 3 HOH A 46 1146 46 HOH HOH . C 3 HOH A 47 1147 47 HOH HOH . C 3 HOH A 48 1148 48 HOH HOH . C 3 HOH A 49 1149 49 HOH HOH . C 3 HOH A 50 1150 50 HOH HOH . C 3 HOH A 51 1151 51 HOH HOH . C 3 HOH A 52 1152 52 HOH HOH . C 3 HOH A 53 1153 53 HOH HOH . C 3 HOH A 54 1154 54 HOH HOH . C 3 HOH A 55 1155 55 HOH HOH . C 3 HOH A 56 1156 56 HOH HOH . C 3 HOH A 57 1157 57 HOH HOH . C 3 HOH A 58 1158 58 HOH HOH . C 3 HOH A 59 1159 59 HOH HOH . C 3 HOH A 60 1160 60 HOH HOH . C 3 HOH A 61 1161 61 HOH HOH . C 3 HOH A 62 1162 62 HOH HOH . C 3 HOH A 63 1163 63 HOH HOH . C 3 HOH A 64 1164 64 HOH HOH . C 3 HOH A 65 1165 65 HOH HOH . C 3 HOH A 66 1166 66 HOH HOH . C 3 HOH A 67 1167 67 HOH HOH . C 3 HOH A 68 1168 68 HOH HOH . C 3 HOH A 69 1169 69 HOH HOH . C 3 HOH A 70 1170 70 HOH HOH . C 3 HOH A 71 1171 71 HOH HOH . C 3 HOH A 72 1172 72 HOH HOH . C 3 HOH A 73 1173 73 HOH HOH . C 3 HOH A 74 1174 74 HOH HOH . C 3 HOH A 75 1175 75 HOH HOH . C 3 HOH A 76 1176 76 HOH HOH . C 3 HOH A 77 1177 77 HOH HOH . C 3 HOH A 78 1178 78 HOH HOH . C 3 HOH A 79 1179 79 HOH HOH . C 3 HOH A 80 1180 80 HOH HOH . C 3 HOH A 81 1181 81 HOH HOH . C 3 HOH A 82 1182 82 HOH HOH . C 3 HOH A 83 1183 83 HOH HOH . C 3 HOH A 84 1184 84 HOH HOH . C 3 HOH A 85 1185 85 HOH HOH . C 3 HOH A 86 1186 86 HOH HOH . C 3 HOH A 87 1187 87 HOH HOH . C 3 HOH A 88 1188 88 HOH HOH . C 3 HOH A 89 1189 89 HOH HOH . C 3 HOH A 90 1190 90 HOH HOH . C 3 HOH A 91 1191 91 HOH HOH . C 3 HOH A 92 1192 92 HOH HOH . C 3 HOH A 93 1193 93 HOH HOH . C 3 HOH A 94 1194 94 HOH HOH . C 3 HOH A 95 1195 95 HOH HOH . C 3 HOH A 96 1196 96 HOH HOH . C 3 HOH A 97 1197 97 HOH HOH . C 3 HOH A 98 1198 98 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 F F5 5FU . . . B 2 -14.21 -8.739 1.774 1 19.84 ? F5 5FU 1000 A 1 HETATM 2 C C5 5FU . . . B 2 -14.714 -9.87 1.233 1 16.49 ? C5 5FU 1000 A 1 HETATM 3 C C4 5FU . . . B 2 -13.839 -10.859 0.844 1 11.96 ? C4 5FU 1000 A 1 HETATM 4 O O4 5FU . . . B 2 -12.533 -10.725 1.062 1 13.23 ? O4 5FU 1000 A 1 HETATM 5 N N3 5FU . . . B 2 -14.238 -11.972 0.222 1 10.11 ? N3 5FU 1000 A 1 HETATM 6 C C2 5FU . . . B 2 -15.547 -12.094 0.025 1 11.48 ? C2 5FU 1000 A 1 HETATM 7 O O2 5FU . . . B 2 -15.917 -13.173 -0.639 1 10.92 ? O2 5FU 1000 A 1 HETATM 8 C C6 5FU . . . B 2 -16.08 -10.044 1.019 1 17.1 ? C6 5FU 1000 A 1 HETATM 9 N N1 5FU . . . B 2 -16.456 -11.195 0.414 1 12.55 ? N1 5FU 1000 A 1 HETATM 10 C C1' 5FU . . . B 2 -17.882 -11.508 0.322 1 11.8 ? C1' 5FU 1000 A 1 HETATM 11 O O4' 5FU . . . B 2 -18.009 -12.753 1.078 1 10.43 ? O4' 5FU 1000 A 1 HETATM 12 C C2' 5FU . . . B 2 -18.578 -11.814 -0.975 1 10.34 ? C2' 5FU 1000 A 1 HETATM 13 O O2' 5FU . . . B 2 -19.12 -10.557 -1.353 1 11.83 ? O2' 5FU 1000 A 1 HETATM 14 C C3' 5FU . . . B 2 -19.658 -12.797 -0.517 1 10.58 ? C3' 5FU 1000 A 1 HETATM 15 O O3' 5FU . . . B 2 -20.746 -12.137 0.146 1 12.45 ? O3' 5FU 1000 A 1 HETATM 16 C C4' 5FU . . . B 2 -18.954 -13.662 0.508 1 9.97 ? C4' 5FU 1000 A 1 HETATM 17 C C5' 5FU . . . B 2 -18.303 -14.865 -0.178 1 11.03 ? C5' 5FU 1000 A 1 HETATM 18 O O5' 5FU . . . B 2 -19.313 -15.72 -0.707 1 12.4 ? O5' 5FU 1000 A 1 HETATM 19 P P 5FU . . . B 2 -19.039 -17.01 -1.637 1 11.18 ? P 5FU 1000 A 1 HETATM 20 O O1P 5FU . . . B 2 -20.218 -17.076 -2.58 1 13.38 ? O1P 5FU 1000 A 1 HETATM 21 O O2P 5FU . . . B 2 -17.709 -16.79 -2.34 1 11.03 ? O2P 5FU 1000 A 1 HETATM 22 O O3P 5FU . . . B 2 -18.929 -18.167 -0.666 1 11.08 ? O3P 5FU 1000 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #