data_1YPX # _model_server_result.job_id '_claVd2wOoeIWWObKGYumQ' _model_server_result.datetime_utc '2024-12-30 16:54:04' _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 1ypx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 1YPX # _exptl.entry_id 1YPX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 94.971 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHATE ION' _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 1YPX _cell.length_a 139.109 _cell.length_b 139.109 _cell.length_c 38.535 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YPX _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # _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 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 ALA 141 A ALA 141 1_555 A N MSE 142 A MSE 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C MSE 142 A MSE 142 1_555 A N LEU 143 A LEU 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 A C ASP 231 A ASP 231 1_555 A N MSE 232 A MSE 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 A C MSE 232 A MSE 232 1_555 A N VAL 233 A VAL 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 A C THR 235 A THR 235 1_555 A N MSE 236 A MSE 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale6 A C MSE 236 A MSE 236 1_555 A N HIS 237 A HIS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? # _chem_comp.formula 'O4 P -3' _chem_comp.formula_weight 94.971 _chem_comp.id PO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHATE ION' _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 P O1 PO4 doub 279 n n P O2 PO4 sing 280 n n P O3 PO4 sing 281 n n P O4 PO4 sing 282 n n # _atom_sites.entry_id 1YPX _atom_sites.fract_transf_matrix[1][1] 0.007189 _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] 0.007189 _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] 0.02595 _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 PO4 A 1 401 401 PO4 PO4 . C 3 HOH A 1 402 1 HOH HOH . C 3 HOH A 2 403 2 HOH HOH . C 3 HOH A 3 404 3 HOH HOH . C 3 HOH A 4 405 4 HOH HOH . C 3 HOH A 5 406 5 HOH HOH . C 3 HOH A 6 407 6 HOH HOH . C 3 HOH A 7 408 7 HOH HOH . C 3 HOH A 8 409 8 HOH HOH . C 3 HOH A 9 410 9 HOH HOH . C 3 HOH A 10 411 10 HOH HOH . C 3 HOH A 11 412 11 HOH HOH . C 3 HOH A 12 413 12 HOH HOH . C 3 HOH A 13 414 13 HOH HOH . C 3 HOH A 14 415 14 HOH HOH . C 3 HOH A 15 416 15 HOH HOH . C 3 HOH A 16 417 16 HOH HOH . C 3 HOH A 17 418 17 HOH HOH . C 3 HOH A 18 419 18 HOH HOH . C 3 HOH A 19 420 19 HOH HOH . C 3 HOH A 20 421 20 HOH HOH . C 3 HOH A 21 422 21 HOH HOH . C 3 HOH A 22 423 22 HOH HOH . C 3 HOH A 23 424 23 HOH HOH . C 3 HOH A 24 425 24 HOH HOH . C 3 HOH A 25 426 25 HOH HOH . C 3 HOH A 26 427 26 HOH HOH . C 3 HOH A 27 428 27 HOH HOH . C 3 HOH A 28 429 28 HOH HOH . C 3 HOH A 29 430 29 HOH HOH . C 3 HOH A 30 431 30 HOH HOH . C 3 HOH A 31 432 31 HOH HOH . C 3 HOH A 32 433 32 HOH HOH . C 3 HOH A 33 434 33 HOH HOH . C 3 HOH A 34 435 34 HOH HOH . C 3 HOH A 35 436 35 HOH HOH . C 3 HOH A 36 437 36 HOH HOH . C 3 HOH A 37 438 37 HOH HOH . C 3 HOH A 38 439 38 HOH HOH . C 3 HOH A 39 440 39 HOH HOH . C 3 HOH A 40 441 40 HOH HOH . C 3 HOH A 41 442 41 HOH HOH . C 3 HOH A 42 443 42 HOH HOH . C 3 HOH A 43 444 43 HOH HOH . C 3 HOH A 44 445 44 HOH HOH . C 3 HOH A 45 446 45 HOH HOH . C 3 HOH A 46 447 46 HOH HOH . C 3 HOH A 47 448 47 HOH HOH . C 3 HOH A 48 449 48 HOH HOH . C 3 HOH A 49 450 49 HOH HOH . C 3 HOH A 50 451 50 HOH HOH . C 3 HOH A 51 452 51 HOH HOH . C 3 HOH A 52 453 52 HOH HOH . C 3 HOH A 53 454 53 HOH HOH . C 3 HOH A 54 455 54 HOH HOH . C 3 HOH A 55 456 55 HOH HOH . C 3 HOH A 56 457 56 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 P P PO4 . . . B 2 59.785 82.477 13.563 1 35.98 ? P PO4 401 A 1 HETATM 2 O O1 PO4 . . . B 2 59.387 83.821 13.314 1 38.24 ? O1 PO4 401 A 1 HETATM 3 O O2 PO4 . . . B 2 59.852 82.175 14.984 1 39.89 ? O2 PO4 401 A 1 HETATM 4 O O3 PO4 . . . B 2 58.754 81.507 12.817 1 44.15 ? O3 PO4 401 A 1 HETATM 5 O O4 PO4 . . . B 2 61.06 82.018 12.896 1 35.82 ? O4 PO4 401 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 358 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 5 #