data_8Z35 # _model_server_result.job_id TpYzBHg_3YnsBv5Ld5HLEQ _model_server_result.datetime_utc '2025-08-06 05:34:58' _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 8z35 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":505}' # _entry.id 8Z35 # _exptl.entry_id 8Z35 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 377.393 _entity.id 5 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description '2-[[6-methyl-5-oxidanyl-2-[(4-phenylphenyl)methyl]pyrimidin-4-yl]carbonylamino]ethanoic acid' _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 8Z35 _cell.length_a 71.439 _cell.length_b 71.439 _cell.length_c 45.66 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Z35 _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41' # _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,G _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 5 _struct_asym.id F _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 134 A HIS 313 1_555 B FE FE2 . A FE2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc2 A OD1 ASP 136 A ASP 315 1_555 B FE FE2 . A FE2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 A NE2 HIS 195 A HIS 374 1_555 B FE FE2 . A FE2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc4 B FE FE2 . A FE2 501 1_555 F O2 A1L0X . A A1L0X 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? metalc ? metalc5 B FE FE2 . A FE2 501 1_555 F N2 A1L0X . A A1L0X 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc6 B FE FE2 . A FE2 501 1_555 G O HOH . A HOH 634 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? # _chem_comp.formula 'C21 H19 N3 O4' _chem_comp.formula_weight 377.393 _chem_comp.id A1L0X _chem_comp.mon_nstd_flag . _chem_comp.name '2-[[6-methyl-5-oxidanyl-2-[(4-phenylphenyl)methyl]pyrimidin-4-yl]carbonylamino]ethanoic acid' _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 C18 C17 A1L0X doub 1 n y C18 C19 A1L0X sing 2 n y C17 C16 A1L0X sing 3 n y C14 C15 A1L0X doub 4 n y C14 C13 A1L0X sing 5 n y C15 C10 A1L0X sing 6 n y C19 C20 A1L0X doub 7 n y C16 C13 A1L0X sing 8 n n C16 C21 A1L0X doub 9 n y C13 C12 A1L0X doub 10 n y C10 C5 A1L0X sing 11 n n C10 C11 A1L0X doub 12 n y C5 C2 A1L0X sing 13 n n C20 C21 A1L0X sing 14 n y C12 C11 A1L0X sing 15 n y C2 N2 A1L0X doub 16 n y C2 N1 A1L0X sing 17 n y N2 C3 A1L0X sing 18 n y N1 C1 A1L0X doub 19 n y O2 C6 A1L0X doub 20 n n C1 C9 A1L0X sing 21 n n C1 C4 A1L0X sing 22 n y C3 C6 A1L0X sing 23 n n C3 C4 A1L0X doub 24 n y C6 N3 A1L0X sing 25 n n C4 O1 A1L0X sing 26 n n N3 C7 A1L0X sing 27 n n C7 C8 A1L0X sing 28 n n C8 O4 A1L0X doub 29 n n C8 O3 A1L0X sing 30 n n C7 H1 A1L0X sing 31 n n C5 H2 A1L0X sing 32 n n C5 H3 A1L0X sing 33 n n O3 H4 A1L0X sing 34 n n C11 H5 A1L0X sing 35 n n C15 H6 A1L0X sing 36 n n C18 H7 A1L0X sing 37 n n C12 H8 A1L0X sing 38 n n C14 H9 A1L0X sing 39 n n C17 H10 A1L0X sing 40 n n C19 H11 A1L0X sing 41 n n O1 H12 A1L0X sing 42 n n C9 H13 A1L0X sing 43 n n C9 H14 A1L0X sing 44 n n C9 H15 A1L0X sing 45 n n C20 H16 A1L0X sing 46 n n C21 H17 A1L0X sing 47 n n C7 H18 A1L0X sing 48 n n N3 H19 A1L0X sing 49 n n # _atom_sites.entry_id 8Z35 _atom_sites.fract_transf_matrix[1][1] 0.013998 _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] 0.013998 _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] 0.021901 _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 FE2 A 1 501 1 FE2 FE2 . C 3 SO4 A 1 502 1 SO4 SO4 . D 3 SO4 A 1 503 2 SO4 SO4 . E 4 CL A 1 504 1 CL CL . F 5 A1L0X A 1 505 1 A1L0X IN7 . G 6 HOH A 1 601 87 HOH HOH . G 6 HOH A 2 602 13 HOH HOH . G 6 HOH A 3 603 8 HOH HOH . G 6 HOH A 4 604 93 HOH HOH . G 6 HOH A 5 605 11 HOH HOH . G 6 HOH A 6 606 17 HOH HOH . G 6 HOH A 7 607 18 HOH HOH . G 6 HOH A 8 608 52 HOH HOH . G 6 HOH A 9 609 16 HOH HOH . G 6 HOH A 10 610 2 HOH HOH . G 6 HOH A 11 611 67 HOH HOH . G 6 HOH A 12 612 40 HOH HOH . G 6 HOH A 13 613 6 HOH HOH . G 6 HOH A 14 614 69 HOH HOH . G 6 HOH A 15 615 31 HOH HOH . G 6 HOH A 16 616 39 HOH HOH . G 6 HOH A 17 617 71 HOH HOH . G 6 HOH A 18 618 23 HOH HOH . G 6 HOH A 19 619 77 HOH HOH . G 6 HOH A 20 620 4 HOH HOH . G 6 HOH A 21 621 53 HOH HOH . G 6 HOH A 22 622 96 HOH HOH . G 6 HOH A 23 623 102 HOH HOH . G 6 HOH A 24 624 10 HOH HOH . G 6 HOH A 25 625 92 HOH HOH . G 6 HOH A 26 626 7 HOH HOH . G 6 HOH A 27 627 30 HOH HOH . G 6 HOH A 28 628 26 HOH HOH . G 6 HOH A 29 629 34 HOH HOH . G 6 HOH A 30 630 38 HOH HOH . G 6 HOH A 31 631 3 HOH HOH . G 6 HOH A 32 632 108 HOH HOH . G 6 HOH A 33 633 74 HOH HOH . G 6 HOH A 34 634 47 HOH HOH . G 6 HOH A 35 635 5 HOH HOH . G 6 HOH A 36 636 36 HOH HOH . G 6 HOH A 37 637 24 HOH HOH . G 6 HOH A 38 638 28 HOH HOH . G 6 HOH A 39 639 27 HOH HOH . G 6 HOH A 40 640 1 HOH HOH . G 6 HOH A 41 641 33 HOH HOH . G 6 HOH A 42 642 68 HOH HOH . G 6 HOH A 43 643 21 HOH HOH . G 6 HOH A 44 644 22 HOH HOH . G 6 HOH A 45 645 9 HOH HOH . G 6 HOH A 46 646 111 HOH HOH . G 6 HOH A 47 647 35 HOH HOH . G 6 HOH A 48 648 55 HOH HOH . G 6 HOH A 49 649 29 HOH HOH . G 6 HOH A 50 650 44 HOH HOH . G 6 HOH A 51 651 75 HOH HOH . G 6 HOH A 52 652 20 HOH HOH . G 6 HOH A 53 653 54 HOH HOH . G 6 HOH A 54 654 25 HOH HOH . G 6 HOH A 55 655 51 HOH HOH . G 6 HOH A 56 656 83 HOH HOH . G 6 HOH A 57 657 19 HOH HOH . G 6 HOH A 58 658 91 HOH HOH . G 6 HOH A 59 659 32 HOH HOH . G 6 HOH A 60 660 43 HOH HOH . G 6 HOH A 61 661 110 HOH HOH . G 6 HOH A 62 662 42 HOH HOH . G 6 HOH A 63 663 80 HOH HOH . G 6 HOH A 64 664 45 HOH HOH . G 6 HOH A 65 665 12 HOH HOH . G 6 HOH A 66 666 37 HOH HOH . G 6 HOH A 67 667 15 HOH HOH . G 6 HOH A 68 668 46 HOH HOH . G 6 HOH A 69 669 41 HOH HOH . G 6 HOH A 70 670 88 HOH HOH . G 6 HOH A 71 671 14 HOH HOH . G 6 HOH A 72 672 57 HOH HOH . G 6 HOH A 73 673 112 HOH HOH . G 6 HOH A 74 674 49 HOH HOH . G 6 HOH A 75 675 79 HOH HOH . G 6 HOH A 76 676 72 HOH HOH . G 6 HOH A 77 677 66 HOH HOH . G 6 HOH A 78 678 64 HOH HOH . G 6 HOH A 79 679 65 HOH HOH . G 6 HOH A 80 680 81 HOH HOH . G 6 HOH A 81 681 94 HOH HOH . G 6 HOH A 82 682 97 HOH HOH . G 6 HOH A 83 683 63 HOH HOH . G 6 HOH A 84 684 82 HOH HOH . G 6 HOH A 85 685 101 HOH HOH . G 6 HOH A 86 686 58 HOH HOH . G 6 HOH A 87 687 103 HOH HOH . G 6 HOH A 88 688 105 HOH HOH . G 6 HOH A 89 689 59 HOH HOH . G 6 HOH A 90 690 90 HOH HOH . G 6 HOH A 91 691 60 HOH HOH . G 6 HOH A 92 692 70 HOH HOH . G 6 HOH A 93 693 78 HOH HOH . G 6 HOH A 94 694 99 HOH HOH . G 6 HOH A 95 695 109 HOH HOH . G 6 HOH A 96 696 56 HOH HOH . G 6 HOH A 97 697 86 HOH HOH . G 6 HOH A 98 698 76 HOH HOH . G 6 HOH A 99 699 73 HOH HOH . G 6 HOH A 100 700 98 HOH HOH . G 6 HOH A 101 701 89 HOH HOH . G 6 HOH A 102 702 48 HOH HOH . G 6 HOH A 103 703 85 HOH HOH . G 6 HOH A 104 704 61 HOH HOH . G 6 HOH A 105 705 106 HOH HOH . G 6 HOH A 106 706 84 HOH HOH . G 6 HOH A 107 707 50 HOH HOH . G 6 HOH A 108 708 62 HOH HOH . G 6 HOH A 109 709 100 HOH HOH . G 6 HOH A 110 710 95 HOH HOH . G 6 HOH A 111 711 104 HOH HOH . G 6 HOH A 112 712 107 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 C1 A1L0X . . . F 5 23.423 -16.25 -3.264 1 45.12 ? C1 A1L0X 505 A 1 HETATM 2 C C2 A1L0X . . . F 5 23.694 -14.851 -5.072 1 46.59 ? C2 A1L0X 505 A 1 HETATM 3 C C3 A1L0X . . . F 5 25.08 -14.577 -3.258 1 42.45 ? C3 A1L0X 505 A 1 HETATM 4 C C7 A1L0X . . . F 5 27.512 -13.291 -0.674 1 37.5 ? C7 A1L0X 505 A 1 HETATM 5 C C6 A1L0X . . . F 5 26.232 -13.821 -2.667 1 40.46 ? C6 A1L0X 505 A 1 HETATM 6 O O2 A1L0X . . . F 5 26.851 -13.037 -3.378 1 38.63 ? O2 A1L0X 505 A 1 HETATM 7 C C4 A1L0X . . . F 5 24.452 -15.613 -2.621 1 44.58 ? C4 A1L0X 505 A 1 HETATM 8 C C5 A1L0X . . . F 5 23.261 -14.445 -6.454 1 48.04 ? C5 A1L0X 505 A 1 HETATM 9 O O3 A1L0X . . . F 5 28.587 -13.014 1.407 1 33.79 ? O3 A1L0X 505 A 1 HETATM 10 C C11 A1L0X . . . F 5 20.908 -14.083 -5.587 1 49.68 ? C11 A1L0X 505 A 1 HETATM 11 C C13 A1L0X . . . F 5 19.217 -12.93 -6.879 1 49.95 ? C13 A1L0X 505 A 1 HETATM 12 C C15 A1L0X . . . F 5 21.457 -13.247 -7.747 1 50.37 ? C15 A1L0X 505 A 1 HETATM 13 N N1 A1L0X . . . F 5 23.044 -15.871 -4.494 1 46.02 ? N1 A1L0X 505 A 1 HETATM 14 C C18 A1L0X . . . F 5 15.833 -12.049 -8.337 1 49.3 ? C18 A1L0X 505 A 1 HETATM 15 C C10 A1L0X . . . F 5 21.852 -13.916 -6.596 1 49.64 ? C10 A1L0X 505 A 1 HETATM 16 C C12 A1L0X . . . F 5 19.616 -13.601 -5.724 1 50.07 ? C12 A1L0X 505 A 1 HETATM 17 C C14 A1L0X . . . F 5 20.167 -12.759 -7.888 1 49.31 ? C14 A1L0X 505 A 1 HETATM 18 C C16 A1L0X . . . F 5 17.835 -12.397 -7.022 1 49.61 ? C16 A1L0X 505 A 1 HETATM 19 C C17 A1L0X . . . F 5 17.116 -12.561 -8.206 1 49.14 ? C17 A1L0X 505 A 1 HETATM 20 C C19 A1L0X . . . F 5 15.247 -11.366 -7.294 1 49.37 ? C19 A1L0X 505 A 1 HETATM 21 O O1 A1L0X . . . F 5 24.775 -16.06 -1.376 1 46.48 ? O1 A1L0X 505 A 1 HETATM 22 N N2 A1L0X . . . F 5 24.705 -14.182 -4.517 1 43.03 ? N2 A1L0X 505 A 1 HETATM 23 C C8 A1L0X . . . F 5 27.664 -13.607 0.808 1 35.75 ? C8 A1L0X 505 A 1 HETATM 24 C C9 A1L0X . . . F 5 22.684 -17.386 -2.629 1 45.66 ? C9 A1L0X 505 A 1 HETATM 25 O O4 A1L0X . . . F 5 26.877 -14.43 1.325 1 34.57 ? O4 A1L0X 505 A 1 HETATM 26 N N3 A1L0X . . . F 5 26.506 -14.055 -1.381 1 40.27 ? N3 A1L0X 505 A 1 HETATM 27 C C20 A1L0X . . . F 5 15.941 -11.19 -6.115 1 50.2 ? C20 A1L0X 505 A 1 HETATM 28 C C21 A1L0X . . . F 5 17.226 -11.698 -5.981 1 49.96 ? C21 A1L0X 505 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 420 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 28 #