data_5W9G # _model_server_result.job_id NZFArTBfBzwSh5LsREJ3eA _model_server_result.datetime_utc '2024-11-16 16:08:47' _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 5w9g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 5W9G # _exptl.entry_id 5W9G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 529.008 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[(2S)-1-{[(2-chlorophenyl)sulfanyl]acetyl}pyrrolidin-2-yl]-5-hydroxy-6-oxo-N-(2-phenoxyethyl)-1,6-dihydropyrimidine-4 -carboxamide' _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 5W9G _cell.length_a 90.249 _cell.length_b 90.249 _cell.length_c 135.307 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W9G _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G 1 1 A,B,C,D,E,F,G 2 1,2,3,4 # 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' 2_395 -x-2,-y+4,z -1 0 0 0 -1 0 0 0 1 -180.498 360.996 0 3 'crystal symmetry operation' 3_685 -y+1,x+3,z 0 -1 0 1 0 0 0 0 1 90.249 270.747 0 4 'crystal symmetry operation' 4_265 y-3,-x+1,z 0 1 0 -1 0 0 0 0 1 -270.747 90.249 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O2 KU2 . A KU2 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O1 KU2 . A KU2 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O3 KU2 . A KU2 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O1 KU2 . A KU2 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc11 C MN MN . A MN 202 1_555 G O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc12 C MN MN . A MN 202 1_555 G O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? # _chem_comp.formula 'C25 H25 Cl N4 O5 S' _chem_comp.formula_weight 529.008 _chem_comp.id KU2 _chem_comp.mon_nstd_flag . _chem_comp.name '2-[(2S)-1-{[(2-chlorophenyl)sulfanyl]acetyl}pyrrolidin-2-yl]-5-hydroxy-6-oxo-N-(2-phenoxyethyl)-1,6-dihydropyrimidine-4 -carboxamide' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms SRI-30023 # 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 C20 C25 KU2 doub 173 n y C20 C21 KU2 sing 174 n y C25 C24 KU2 sing 175 n y C21 C22 KU2 doub 176 n y C24 C23 KU2 doub 177 n y C22 C23 KU2 sing 178 n y C23 O5 KU2 sing 179 n n O5 C13 KU2 sing 180 n n C13 C12 KU2 sing 181 n n C18 C19 KU2 doub 182 n y C18 C17 KU2 sing 183 n y C19 C14 KU2 sing 184 n y S1 C17 KU2 sing 185 n n S1 C11 KU2 sing 186 n n O4 C10 KU2 doub 187 n n C17 C16 KU2 doub 188 n y C14 C15 KU2 doub 189 n y C12 N3 KU2 sing 190 n n C10 C11 KU2 sing 191 n n C10 N4 KU2 sing 192 n n C16 C15 KU2 sing 193 n y C16 CL1 KU2 sing 194 n n N3 C5 KU2 sing 195 n n N4 C9 KU2 sing 196 n n N4 C8 KU2 sing 197 n n C9 C6 KU2 sing 198 n n C5 O3 KU2 doub 199 n n C5 C2 KU2 sing 200 n n N1 C2 KU2 sing 201 n n N1 C1 KU2 doub 202 n n C2 C3 KU2 doub 203 n n C8 C1 KU2 sing 204 n n C8 C7 KU2 sing 205 n n C1 N2 KU2 sing 206 n n C6 C7 KU2 sing 207 n n C3 O1 KU2 sing 208 n n C3 C4 KU2 sing 209 n n N2 C4 KU2 sing 210 n n C4 O2 KU2 doub 211 n n C13 H1 KU2 sing 212 n n C13 H2 KU2 sing 213 n n C14 H3 KU2 sing 214 n n C18 H4 KU2 sing 215 n n C19 H5 KU2 sing 216 n n C20 H6 KU2 sing 217 n n C21 H7 KU2 sing 218 n n C22 H8 KU2 sing 219 n n C24 H9 KU2 sing 220 n n C25 H10 KU2 sing 221 n n C11 H11 KU2 sing 222 n n C11 H12 KU2 sing 223 n n C12 H13 KU2 sing 224 n n C12 H14 KU2 sing 225 n n C15 H15 KU2 sing 226 n n C6 H16 KU2 sing 227 n n C6 H17 KU2 sing 228 n n C7 H18 KU2 sing 229 n n C7 H19 KU2 sing 230 n n C8 H20 KU2 sing 231 n n C9 H21 KU2 sing 232 n n C9 H22 KU2 sing 233 n n N2 H23 KU2 sing 234 n n N3 H24 KU2 sing 235 n n O1 H25 KU2 sing 236 n n # _atom_sites.entry_id 5W9G _atom_sites.fract_transf_matrix[1][1] 0.01108 _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] 0.01108 _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] 0.007391 _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 MN A 1 201 1 MN MN . C 2 MN A 1 202 2 MN MN . D 3 CL A 1 203 1 CL CL . E 4 KU2 A 1 204 1 KU2 KU3 . F 5 SO4 A 1 205 1 SO4 SO4 . G 6 HOH A 1 301 5 HOH HOH . G 6 HOH A 2 302 2 HOH HOH . G 6 HOH A 3 303 1 HOH HOH . G 6 HOH A 4 304 10 HOH HOH . G 6 HOH A 5 305 17 HOH HOH . G 6 HOH A 6 306 3 HOH HOH . G 6 HOH A 7 307 11 HOH HOH . G 6 HOH A 8 308 13 HOH HOH . G 6 HOH A 9 309 8 HOH HOH . G 6 HOH A 10 310 14 HOH HOH . G 6 HOH A 11 311 7 HOH HOH . G 6 HOH A 12 312 12 HOH HOH . G 6 HOH A 13 313 16 HOH HOH . G 6 HOH A 14 314 9 HOH HOH . G 6 HOH A 15 315 18 HOH HOH . G 6 HOH A 16 316 4 HOH HOH . G 6 HOH A 17 317 15 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 C C10 KU2 . . . E 4 -56.346 173.512 285.382 1 115.25 ? C10 KU2 204 A 1 HETATM 2 C C13 KU2 . . . E 4 -57.955 178.373 283.832 1 97.47 ? C13 KU2 204 A 1 HETATM 3 C C14 KU2 . . . E 4 -61.728 170.765 286.91 1 133.37 ? C14 KU2 204 A 1 HETATM 4 C C17 KU2 . . . E 4 -59.816 171.825 285.194 1 142.61 ? C17 KU2 204 A 1 HETATM 5 C C18 KU2 . . . E 4 -59.797 170.485 285.524 1 144.14 ? C18 KU2 204 A 1 HETATM 6 C C19 KU2 . . . E 4 -60.75 169.958 286.377 1 137.88 ? C19 KU2 204 A 1 HETATM 7 C C20 KU2 . . . E 4 -57.446 175.139 279.99 1 83.56 ? C20 KU2 204 A 1 HETATM 8 C C21 KU2 . . . E 4 -58.674 175.728 280.168 1 87.39 ? C21 KU2 204 A 1 HETATM 9 C C22 KU2 . . . E 4 -58.981 176.364 281.359 1 85.06 ? C22 KU2 204 A 1 HETATM 10 C C24 KU2 . . . E 4 -56.815 175.811 282.199 1 100.28 ? C24 KU2 204 A 1 HETATM 11 C C25 KU2 . . . E 4 -56.518 175.18 281.002 1 102.32 ? C25 KU2 204 A 1 HETATM 12 C C1 KU2 . . . E 4 -58.236 174.295 288.078 1 78.52 ? C1 KU2 204 A 1 HETATM 13 C C11 KU2 . . . E 4 -57.185 172.258 285.241 1 129.89 ? C11 KU2 204 A 1 HETATM 14 C C12 KU2 . . . E 4 -58.588 178.833 285.12 1 93.56 ? C12 KU2 204 A 1 HETATM 15 C C15 KU2 . . . E 4 -61.763 172.106 286.605 1 137.91 ? C15 KU2 204 A 1 HETATM 16 C C16 KU2 . . . E 4 -60.815 172.636 285.754 1 140.34 ? C16 KU2 204 A 1 HETATM 17 C C2 KU2 . . . E 4 -59.513 176.212 287.667 1 69.6 ? C2 KU2 204 A 1 HETATM 18 C C23 KU2 . . . E 4 -58.047 176.405 282.373 1 104.07 ? C23 KU2 204 A 1 HETATM 19 C C3 KU2 . . . E 4 -60.504 175.784 288.498 1 65.2 ? C3 KU2 204 A 1 HETATM 20 C C4 KU2 . . . E 4 -60.341 174.527 289.166 1 68.39 ? C4 KU2 204 A 1 HETATM 21 C C5 KU2 . . . E 4 -59.598 177.498 286.922 1 76.74 ? C5 KU2 204 A 1 HETATM 22 C C6 KU2 . . . E 4 -55.441 175.229 288.482 1 99.11 ? C6 KU2 204 A 1 HETATM 23 C C7 KU2 . . . E 4 -55.862 173.813 288.853 1 96.17 ? C7 KU2 204 A 1 HETATM 24 C C8 KU2 . . . E 4 -56.952 173.542 287.807 1 91.91 ? C8 KU2 204 A 1 HETATM 25 C C9 KU2 . . . E 4 -55.32 175.146 286.97 1 99.41 ? C9 KU2 204 A 1 HETATM 26 N N1 KU2 . . . E 4 -58.412 175.473 287.471 1 81.71 ? N1 KU2 204 A 1 HETATM 27 N N2 KU2 . . . E 4 -59.187 173.807 288.926 1 73.2 ? N2 KU2 204 A 1 HETATM 28 N N3 KU2 . . . E 4 -58.564 177.783 286.128 1 82.5 ? N3 KU2 204 A 1 HETATM 29 N N4 KU2 . . . E 4 -56.233 174.037 286.616 1 100.64 ? N4 KU2 204 A 1 HETATM 30 O O1 KU2 . . . E 4 -61.607 176.52 288.692 1 63.2 ? O1 KU2 204 A 1 HETATM 31 O O2 KU2 . . . E 4 -61.206 174.094 289.931 1 75.12 ? O2 KU2 204 A 1 HETATM 32 O O3 KU2 . . . E 4 -60.575 178.242 287.02 1 73.93 ? O3 KU2 204 A 1 HETATM 33 O O4 KU2 . . . E 4 -55.768 174.016 284.412 1 116.22 ? O4 KU2 204 A 1 HETATM 34 O O5 KU2 . . . E 4 -58.353 177.027 283.557 1 109.91 ? O5 KU2 204 A 1 HETATM 35 S S1 KU2 . . . E 4 -58.597 172.498 284.122 1 138.46 ? S1 KU2 204 A 1 HETATM 36 CL CL1 KU2 . . . E 4 -60.887 174.326 285.386 1 141.41 ? CL1 KU2 204 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 36 #