data_5ZDK # _model_server_result.job_id MSN02Z7xshXOMicOU7FQ3A _model_server_result.datetime_utc '2024-10-28 02:39:23' _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 5zdk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":605}' # _entry.id 5ZDK # _exptl.entry_id 5ZDK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 116.48 _cell.angle_gamma 90 _cell.entry_id 5ZDK _cell.length_a 144.66 _cell.length_b 39.413 _cell.length_c 116.051 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 F N 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 O PRO 367 A PRO 367 1_555 C CS CS . A CS 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.095 ? metalc ? metalc2 A O ILE 370 A ILE 370 1_555 C CS CS . A CS 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.905 ? metalc ? metalc3 A O LYS 372 A LYS 372 1_555 C CS CS . A CS 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.213 ? metalc ? metalc4 B O1B ATP . A ATP 601 1_555 D CS CS . A CS 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.005 ? metalc ? metalc5 B O2B ATP . A ATP 601 1_555 E MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc6 B O2A ATP . A ATP 601 1_555 E MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc7 B O1G ATP . A ATP 601 1_555 F MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.84 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5ZDK _atom_sites.fract_transf_matrix[1][1] 0.006913 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003444 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025372 _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] 0.009627 _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 ATP A 1 601 1 ATP ATP . C 3 CS A 1 602 1 CS CS . D 3 CS A 1 603 2 CS CS . E 4 MG A 1 604 1 MG MG . F 4 MG A 1 605 2 MG MG . G 5 CL A 1 606 1 CL CL . H 5 CL A 1 607 2 CL CL . I 6 HOH A 1 701 38 HOH HOH . I 6 HOH A 2 702 46 HOH HOH . I 6 HOH A 3 703 52 HOH HOH . I 6 HOH A 4 704 21 HOH HOH . I 6 HOH A 5 705 76 HOH HOH . I 6 HOH A 6 706 73 HOH HOH . I 6 HOH A 7 707 17 HOH HOH . I 6 HOH A 8 708 59 HOH HOH . I 6 HOH A 9 709 44 HOH HOH . I 6 HOH A 10 710 4 HOH HOH . I 6 HOH A 11 711 70 HOH HOH . I 6 HOH A 12 712 1 HOH HOH . I 6 HOH A 13 713 45 HOH HOH . I 6 HOH A 14 714 6 HOH HOH . I 6 HOH A 15 715 48 HOH HOH . I 6 HOH A 16 716 66 HOH HOH . I 6 HOH A 17 717 43 HOH HOH . I 6 HOH A 18 718 30 HOH HOH . I 6 HOH A 19 719 14 HOH HOH . I 6 HOH A 20 720 20 HOH HOH . I 6 HOH A 21 721 47 HOH HOH . I 6 HOH A 22 722 23 HOH HOH . I 6 HOH A 23 723 29 HOH HOH . I 6 HOH A 24 724 65 HOH HOH . I 6 HOH A 25 725 62 HOH HOH . I 6 HOH A 26 726 50 HOH HOH . I 6 HOH A 27 727 41 HOH HOH . I 6 HOH A 28 728 58 HOH HOH . I 6 HOH A 29 729 3 HOH HOH . I 6 HOH A 30 730 22 HOH HOH . I 6 HOH A 31 731 51 HOH HOH . I 6 HOH A 32 732 71 HOH HOH . I 6 HOH A 33 733 39 HOH HOH . I 6 HOH A 34 734 32 HOH HOH . I 6 HOH A 35 735 64 HOH HOH . I 6 HOH A 36 736 18 HOH HOH . I 6 HOH A 37 737 61 HOH HOH . I 6 HOH A 38 738 34 HOH HOH . I 6 HOH A 39 739 12 HOH HOH . I 6 HOH A 40 740 13 HOH HOH . I 6 HOH A 41 741 54 HOH HOH . I 6 HOH A 42 742 69 HOH HOH . I 6 HOH A 43 743 37 HOH HOH . I 6 HOH A 44 744 56 HOH HOH . I 6 HOH A 45 745 35 HOH HOH . I 6 HOH A 46 746 19 HOH HOH . I 6 HOH A 47 747 25 HOH HOH . I 6 HOH A 48 748 36 HOH HOH . I 6 HOH A 49 749 55 HOH HOH . I 6 HOH A 50 750 7 HOH HOH . I 6 HOH A 51 751 8 HOH HOH . I 6 HOH A 52 752 31 HOH HOH . I 6 HOH A 53 753 11 HOH HOH . I 6 HOH A 54 754 15 HOH HOH . I 6 HOH A 55 755 77 HOH HOH . I 6 HOH A 56 756 67 HOH HOH . I 6 HOH A 57 757 49 HOH HOH . I 6 HOH A 58 758 75 HOH HOH . I 6 HOH A 59 759 81 HOH HOH . I 6 HOH A 60 760 16 HOH HOH . I 6 HOH A 61 761 57 HOH HOH . I 6 HOH A 62 762 79 HOH HOH . I 6 HOH A 63 763 28 HOH HOH . I 6 HOH A 64 764 80 HOH HOH . I 6 HOH A 65 765 26 HOH HOH . I 6 HOH A 66 766 74 HOH HOH . I 6 HOH A 67 767 2 HOH HOH . I 6 HOH A 68 768 63 HOH HOH . I 6 HOH A 69 769 78 HOH HOH . I 6 HOH A 70 770 60 HOH HOH . I 6 HOH A 71 771 42 HOH HOH . I 6 HOH A 72 772 68 HOH HOH . I 6 HOH A 73 773 82 HOH HOH . I 6 HOH A 74 774 5 HOH HOH . I 6 HOH A 75 775 10 HOH HOH . I 6 HOH A 76 776 40 HOH HOH . I 6 HOH A 77 777 53 HOH HOH . I 6 HOH A 78 778 9 HOH HOH . I 6 HOH A 79 779 72 HOH HOH . I 6 HOH A 80 780 27 HOH HOH . I 6 HOH A 81 781 33 HOH HOH . I 6 HOH A 82 782 24 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 4 _atom_site.Cartn_x 23.932 _atom_site.Cartn_y 6.841 _atom_site.Cartn_z 15.185 _atom_site.occupancy 0.88 _atom_site.B_iso_or_equiv 59.09 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 605 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #