data_5W44 # _model_server_result.job_id h4BlINV1ZcwLDHm9rj0uCQ _model_server_result.datetime_utc '2024-11-25 23:45:46' _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 5w44 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 5W44 # _exptl.entry_id 5W44 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 501.362 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[(2S)-1-(2,6-dichlorobenzene-1-carbonyl)pyrrolidin-2-yl]-5-hydroxy-6-oxo-N-(2-phenylethyl)-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 120 _cell.entry_id 5W44 _cell.length_a 74.111 _cell.length_b 74.111 _cell.length_c 127.845 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W44 _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _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 # 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 41 A HIS 41 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc2 A OE1 GLU 61 A GLU 61 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc3 A OD2 ASP 89 A ASP 89 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc4 A OD1 ASP 89 A ASP 89 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? metalc ? metalc5 A OE1 GLU 100 A GLU 100 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc6 A O ILE 101 A ILE 101 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc7 B MN MN . A MN 301 1_555 C O08 GY6 . A GY6 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc8 B MN MN . A MN 301 1_555 C O05 GY6 . A GY6 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc9 C O05 GY6 . A GY6 302 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc10 C O12 GY6 . A GY6 302 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc11 D MG MG . A MG 303 1_555 F O HOH . A HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc12 D MG MG . A MG 303 1_555 F O HOH . A HOH 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? # _chem_comp.formula 'C24 H22 Cl2 N4 O4' _chem_comp.formula_weight 501.362 _chem_comp.id GY6 _chem_comp.mon_nstd_flag . _chem_comp.name 2-[(2S)-1-(2,6-dichlorobenzene-1-carbonyl)pyrrolidin-2-yl]-5-hydroxy-6-oxo-N-(2-phenylethyl)-1,6-dihydropyrimidine-4-carboxamide _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 CL C42 GY6 sing 129 n n C44 C42 GY6 doub 130 n y C44 C35 GY6 sing 131 n y C42 C41 GY6 sing 132 n y O34 C33 GY6 doub 133 n n C35 C37 GY6 doub 134 n y C41 C33 GY6 sing 135 n n C41 C39 GY6 doub 136 n y C33 N29 GY6 sing 137 n n C37 C39 GY6 sing 138 n y N29 C27 GY6 sing 139 n n N29 C30 GY6 sing 140 n n C39 CL2 GY6 sing 141 n n C27 C24 GY6 sing 142 n n C27 C01 GY6 sing 143 n n C24 C21 GY6 sing 144 n n C30 C21 GY6 sing 145 n n N09 C01 GY6 sing 146 n n N09 C07 GY6 sing 147 n n C01 N02 GY6 doub 148 n n O08 C07 GY6 doub 149 n n C07 C04 GY6 sing 150 n n N02 C03 GY6 sing 151 n n C04 C03 GY6 doub 152 n n C04 O05 GY6 sing 153 n n C03 C11 GY6 sing 154 n n C55 C46 GY6 doub 155 n y C55 C53 GY6 sing 156 n y C46 C48 GY6 sing 157 n y C53 C52 GY6 doub 158 n y N13 C11 GY6 sing 159 n n N13 C14 GY6 sing 160 n n C11 O12 GY6 doub 161 n n C48 C50 GY6 doub 162 n y C52 C50 GY6 sing 163 n y C52 C17 GY6 sing 164 n n C14 C17 GY6 sing 165 n n C14 H15 GY6 sing 166 n n C14 H16 GY6 sing 167 n n C17 H18 GY6 sing 168 n n C17 H19 GY6 sing 169 n n C21 H23 GY6 sing 170 n n C21 H22 GY6 sing 171 n n C24 H26 GY6 sing 172 n n C24 H25 GY6 sing 173 n n C27 H28 GY6 sing 174 n n C30 H31 GY6 sing 175 n n C30 H32 GY6 sing 176 n n C35 H36 GY6 sing 177 n n C37 H38 GY6 sing 178 n n C44 H45 GY6 sing 179 n n C46 H47 GY6 sing 180 n n C48 H49 GY6 sing 181 n n C50 H51 GY6 sing 182 n n C53 H54 GY6 sing 183 n n C55 H56 GY6 sing 184 n n N09 H10 GY6 sing 185 n n N13 H20 GY6 sing 186 n n O05 H06 GY6 sing 187 n n # _atom_sites.entry_id 5W44 _atom_sites.fract_transf_matrix[1][1] 0.013493 _atom_sites.fract_transf_matrix[1][2] 0.00779 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015581 _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] 0.007822 _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 1 301 301 MN MN . C 3 GY6 A 1 302 1 GY6 GY6 . D 4 MG A 1 303 1 MG MG . E 5 NA A 1 304 1 NA NA . F 6 HOH A 1 401 69 HOH HOH . F 6 HOH A 2 402 29 HOH HOH . F 6 HOH A 3 403 63 HOH HOH . F 6 HOH A 4 404 32 HOH HOH . F 6 HOH A 5 405 36 HOH HOH . F 6 HOH A 6 406 68 HOH HOH . F 6 HOH A 7 407 56 HOH HOH . F 6 HOH A 8 408 43 HOH HOH . F 6 HOH A 9 409 5 HOH HOH . F 6 HOH A 10 410 13 HOH HOH . F 6 HOH A 11 411 15 HOH HOH . F 6 HOH A 12 412 28 HOH HOH . F 6 HOH A 13 413 55 HOH HOH . F 6 HOH A 14 414 10 HOH HOH . F 6 HOH A 15 415 20 HOH HOH . F 6 HOH A 16 416 17 HOH HOH . F 6 HOH A 17 417 34 HOH HOH . F 6 HOH A 18 418 46 HOH HOH . F 6 HOH A 19 419 39 HOH HOH . F 6 HOH A 20 420 49 HOH HOH . F 6 HOH A 21 421 12 HOH HOH . F 6 HOH A 22 422 11 HOH HOH . F 6 HOH A 23 423 7 HOH HOH . F 6 HOH A 24 424 23 HOH HOH . F 6 HOH A 25 425 25 HOH HOH . F 6 HOH A 26 426 27 HOH HOH . F 6 HOH A 27 427 35 HOH HOH . F 6 HOH A 28 428 33 HOH HOH . F 6 HOH A 29 429 30 HOH HOH . F 6 HOH A 30 430 31 HOH HOH . F 6 HOH A 31 431 18 HOH HOH . F 6 HOH A 32 432 60 HOH HOH . F 6 HOH A 33 433 16 HOH HOH . F 6 HOH A 34 434 50 HOH HOH . F 6 HOH A 35 435 22 HOH HOH . F 6 HOH A 36 436 72 HOH HOH . F 6 HOH A 37 437 14 HOH HOH . F 6 HOH A 38 438 41 HOH HOH . F 6 HOH A 39 439 24 HOH HOH . F 6 HOH A 40 440 51 HOH HOH . F 6 HOH A 41 441 57 HOH HOH . F 6 HOH A 42 442 59 HOH HOH . F 6 HOH A 43 443 58 HOH HOH . F 6 HOH A 44 444 48 HOH HOH . F 6 HOH A 45 445 53 HOH HOH . F 6 HOH A 46 446 42 HOH HOH . F 6 HOH A 47 447 70 HOH HOH . F 6 HOH A 48 448 21 HOH HOH . F 6 HOH A 49 449 71 HOH HOH . F 6 HOH A 50 450 38 HOH HOH . F 6 HOH A 51 451 45 HOH HOH . F 6 HOH A 52 452 62 HOH HOH . F 6 HOH A 53 453 40 HOH HOH . F 6 HOH A 54 454 54 HOH HOH . F 6 HOH A 55 455 52 HOH HOH . F 6 HOH A 56 456 19 HOH HOH . F 6 HOH A 57 457 44 HOH HOH . F 6 HOH A 58 458 26 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 C01 GY6 . . . C 3 -8.492 79.977 14.99 1 38.32 ? C01 GY6 302 A 1 HETATM 2 C C03 GY6 . . . C 3 -9.815 80.29 16.856 1 34.42 ? C03 GY6 302 A 1 HETATM 3 C C04 GY6 . . . C 3 -10.224 78.987 16.827 1 32.73 ? C04 GY6 302 A 1 HETATM 4 C C07 GY6 . . . C 3 -9.735 78.125 15.84 1 33.78 ? C07 GY6 302 A 1 HETATM 5 C C11 GY6 . . . C 3 -10.31 81.224 17.932 1 35.35 ? C11 GY6 302 A 1 HETATM 6 C C14 GY6 . . . C 3 -9.928 83.336 19.064 1 47.34 ? C14 GY6 302 A 1 HETATM 7 C C17 GY6 . . . C 3 -9.277 84.677 18.848 1 54.82 ? C17 GY6 302 A 1 HETATM 8 C C21 GY6 . . . C 3 -5.91 81.614 15.355 1 44.25 ? C21 GY6 302 A 1 HETATM 9 C C24 GY6 . . . C 3 -6.054 80.423 14.423 1 44.33 ? C24 GY6 302 A 1 HETATM 10 C C27 GY6 . . . C 3 -7.52 80.554 13.987 1 43.63 ? C27 GY6 302 A 1 HETATM 11 C C30 GY6 . . . C 3 -6.583 82.722 14.567 1 45.41 ? C30 GY6 302 A 1 HETATM 12 C C33 GY6 . . . C 3 -8.609 82.623 13.128 1 60.11 ? C33 GY6 302 A 1 HETATM 13 C C35 GY6 . . . C 3 -8.257 86.863 12.529 1 82.55 ? C35 GY6 302 A 1 HETATM 14 C C37 GY6 . . . C 3 -9.086 86.387 13.517 1 77.37 ? C37 GY6 302 A 1 HETATM 15 C C39 GY6 . . . C 3 -9.201 85.023 13.712 1 73.06 ? C39 GY6 302 A 1 HETATM 16 C C41 GY6 . . . C 3 -8.5 84.107 12.928 1 73.07 ? C41 GY6 302 A 1 HETATM 17 C C42 GY6 . . . C 3 -7.667 84.63 11.94 1 85.7 ? C42 GY6 302 A 1 HETATM 18 C C44 GY6 . . . C 3 -7.545 85.993 11.736 1 86.11 ? C44 GY6 302 A 1 HETATM 19 C C46 GY6 . . . C 3 -5.192 84.361 17.556 1 65.65 ? C46 GY6 302 A 1 HETATM 20 C C48 GY6 . . . C 3 -5.682 83.486 18.498 1 64.49 ? C48 GY6 302 A 1 HETATM 21 C C50 GY6 . . . C 3 -6.999 83.582 18.919 1 62.62 ? C50 GY6 302 A 1 HETATM 22 C C52 GY6 . . . C 3 -7.837 84.561 18.406 1 60.08 ? C52 GY6 302 A 1 HETATM 23 C C53 GY6 . . . C 3 -7.329 85.431 17.455 1 62.28 ? C53 GY6 302 A 1 HETATM 24 C C55 GY6 . . . C 3 -6.012 85.332 17.035 1 64.59 ? C55 GY6 302 A 1 HETATM 25 N N02 GY6 . . . C 3 -8.954 80.783 15.95 1 36.16 ? N02 GY6 302 A 1 HETATM 26 N N09 GY6 . . . C 3 -8.859 78.666 14.927 1 35.97 ? N09 GY6 302 A 1 HETATM 27 N N13 GY6 . . . C 3 -9.845 82.473 17.89 1 40.75 ? N13 GY6 302 A 1 HETATM 28 N N29 GY6 . . . C 3 -7.64 82.014 13.825 1 48.37 ? N29 GY6 302 A 1 HETATM 29 O O05 GY6 . . . C 3 -11.071 78.447 17.715 1 29.86 ? O05 GY6 302 A 1 HETATM 30 O O08 GY6 . . . C 3 -10.051 76.932 15.741 1 33.17 ? O08 GY6 302 A 1 HETATM 31 O O12 GY6 . . . C 3 -11.04 80.814 18.832 1 31.82 ? O12 GY6 302 A 1 HETATM 32 O O34 GY6 . . . C 3 -9.563 81.996 12.671 1 59.14 ? O34 GY6 302 A 1 HETATM 33 CL CL2 GY6 . . . C 3 -10.259 84.471 14.973 1 68.27 ? CL2 GY6 302 A 1 HETATM 34 CL CL GY6 . . . C 3 -6.755 83.564 10.916 1 96.91 ? CL GY6 302 A 1 HETATM 35 H H15 GY6 . . . C 3 -9.495 82.89 19.818 1 56.82 ? H15 GY6 302 A 1 HETATM 36 H H16 GY6 . . . C 3 -10.868 83.472 19.293 1 56.82 ? H16 GY6 302 A 1 HETATM 37 H H18 GY6 . . . C 3 -9.317 85.19 19.684 1 65.81 ? H18 GY6 302 A 1 HETATM 38 H H19 GY6 . . . C 3 -9.783 85.172 18.169 1 65.81 ? H19 GY6 302 A 1 HETATM 39 H H23 GY6 . . . C 3 -6.367 81.459 16.208 1 53.11 ? H23 GY6 302 A 1 HETATM 40 H H22 GY6 . . . C 3 -4.968 81.823 15.526 1 53.11 ? H22 GY6 302 A 1 HETATM 41 H H26 GY6 . . . C 3 -5.895 79.573 14.895 1 53.22 ? H26 GY6 302 A 1 HETATM 42 H H25 GY6 . . . C 3 -5.443 80.491 13.652 1 53.22 ? H25 GY6 302 A 1 HETATM 43 H H28 GY6 . . . C 3 -7.652 80.114 13.114 1 52.37 ? H28 GY6 302 A 1 HETATM 44 H H31 GY6 . . . C 3 -6.964 83.4 15.162 1 54.51 ? H31 GY6 302 A 1 HETATM 45 H H32 GY6 . . . C 3 -5.952 83.154 13.953 1 54.51 ? H32 GY6 302 A 1 HETATM 46 H H36 GY6 . . . C 3 -8.176 87.79 12.394 1 99.08 ? H36 GY6 302 A 1 HETATM 47 H H38 GY6 . . . C 3 -9.57 86.983 14.057 1 92.86 ? H38 GY6 302 A 1 HETATM 48 H H45 GY6 . . . C 3 -6.981 86.32 11.062 1 103.35 ? H45 GY6 302 A 1 HETATM 49 H H47 GY6 . . . C 3 -4.295 84.295 17.27 1 78.79 ? H47 GY6 302 A 1 HETATM 50 H H49 GY6 . . . C 3 -5.121 82.818 18.858 1 77.41 ? H49 GY6 302 A 1 HETATM 51 H H51 GY6 . . . C 3 -7.329 82.979 19.566 1 75.16 ? H51 GY6 302 A 1 HETATM 52 H H54 GY6 . . . C 3 -7.886 86.101 17.092 1 74.76 ? H54 GY6 302 A 1 HETATM 53 H H56 GY6 . . . C 3 -5.678 85.934 16.389 1 77.53 ? H56 GY6 302 A 1 HETATM 54 H H10 GY6 . . . C 3 -8.537 78.153 14.28 1 43.18 ? H10 GY6 302 A 1 HETATM 55 H H20 GY6 . . . C 3 -9.488 82.778 17.154 1 48.92 ? H20 GY6 302 A 1 HETATM 56 H H06 GY6 . . . C 3 -11.856 78.73 17.518 1 35.85 ? H06 GY6 302 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 56 #