data_9EMO # _model_server_result.job_id EamrI4FLBUkXQG1fJoL7Hw _model_server_result.datetime_utc '2025-07-29 07:29:58' _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 9emo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 9EMO # _exptl.entry_id 9EMO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.209 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ARGININE _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 9EMO _cell.length_a 90.965 _cell.length_b 90.965 _cell.length_c 99.379 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9EMO _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall 'P 6c' _symmetry.space_group_name_H-M 'P 63' # _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,D,E _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C6 H15 N4 O2 1' _chem_comp.formula_weight 175.209 _chem_comp.id ARG _chem_comp.mon_nstd_flag y _chem_comp.name ARGININE _chem_comp.type 'l-peptide linking' _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 N CA ARG sing 184 n n N H ARG sing 185 n n N H2 ARG sing 186 n n CA C ARG sing 187 n n CA CB ARG sing 188 n n CA HA ARG sing 189 n n C O ARG doub 190 n n C OXT ARG sing 191 n n CB CG ARG sing 192 n n CB HB2 ARG sing 193 n n CB HB3 ARG sing 194 n n CG CD ARG sing 195 n n CG HG2 ARG sing 196 n n CG HG3 ARG sing 197 n n CD NE ARG sing 198 n n CD HD2 ARG sing 199 n n CD HD3 ARG sing 200 n n NE CZ ARG sing 201 n n NE HE ARG sing 202 n n CZ NH1 ARG sing 203 n n CZ NH2 ARG doub 204 n n NH1 HH11 ARG sing 205 n n NH1 HH12 ARG sing 206 n n NH2 HH21 ARG sing 207 n n NH2 HH22 ARG sing 208 n n OXT HXT ARG sing 209 n n # _atom_sites.entry_id 9EMO _atom_sites.fract_transf_matrix[1][1] 0.010993 _atom_sites.fract_transf_matrix[1][2] 0.006347 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012694 _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] 0.010062 _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 5NG A 1 501 501 5NG 5NG . C 3 GOL A 1 502 502 GOL GOL . D 4 ARG A 1 503 503 ARG ARG . E 5 HOH A 1 601 111 HOH HOH . E 5 HOH A 2 602 36 HOH HOH . E 5 HOH A 3 603 3 HOH HOH . E 5 HOH A 4 604 28 HOH HOH . E 5 HOH A 5 605 124 HOH HOH . E 5 HOH A 6 606 91 HOH HOH . E 5 HOH A 7 607 96 HOH HOH . E 5 HOH A 8 608 120 HOH HOH . E 5 HOH A 9 609 11 HOH HOH . E 5 HOH A 10 610 127 HOH HOH . E 5 HOH A 11 611 15 HOH HOH . E 5 HOH A 12 612 77 HOH HOH . E 5 HOH A 13 613 39 HOH HOH . E 5 HOH A 14 614 131 HOH HOH . E 5 HOH A 15 615 75 HOH HOH . E 5 HOH A 16 616 60 HOH HOH . E 5 HOH A 17 617 71 HOH HOH . E 5 HOH A 18 618 137 HOH HOH . E 5 HOH A 19 619 21 HOH HOH . E 5 HOH A 20 620 51 HOH HOH . E 5 HOH A 21 621 67 HOH HOH . E 5 HOH A 22 622 31 HOH HOH . E 5 HOH A 23 623 18 HOH HOH . E 5 HOH A 24 624 101 HOH HOH . E 5 HOH A 25 625 38 HOH HOH . E 5 HOH A 26 626 86 HOH HOH . E 5 HOH A 27 627 56 HOH HOH . E 5 HOH A 28 628 80 HOH HOH . E 5 HOH A 29 629 70 HOH HOH . E 5 HOH A 30 630 8 HOH HOH . E 5 HOH A 31 631 98 HOH HOH . E 5 HOH A 32 632 16 HOH HOH . E 5 HOH A 33 633 122 HOH HOH . E 5 HOH A 34 634 58 HOH HOH . E 5 HOH A 35 635 84 HOH HOH . E 5 HOH A 36 636 25 HOH HOH . E 5 HOH A 37 637 17 HOH HOH . E 5 HOH A 38 638 107 HOH HOH . E 5 HOH A 39 639 10 HOH HOH . E 5 HOH A 40 640 32 HOH HOH . E 5 HOH A 41 641 6 HOH HOH . E 5 HOH A 42 642 42 HOH HOH . E 5 HOH A 43 643 66 HOH HOH . E 5 HOH A 44 644 128 HOH HOH . E 5 HOH A 45 645 116 HOH HOH . E 5 HOH A 46 646 29 HOH HOH . E 5 HOH A 47 647 33 HOH HOH . E 5 HOH A 48 648 83 HOH HOH . E 5 HOH A 49 649 54 HOH HOH . E 5 HOH A 50 650 2 HOH HOH . E 5 HOH A 51 651 27 HOH HOH . E 5 HOH A 52 652 37 HOH HOH . E 5 HOH A 53 653 130 HOH HOH . E 5 HOH A 54 654 117 HOH HOH . E 5 HOH A 55 655 79 HOH HOH . E 5 HOH A 56 656 14 HOH HOH . E 5 HOH A 57 657 7 HOH HOH . E 5 HOH A 58 658 57 HOH HOH . E 5 HOH A 59 659 55 HOH HOH . E 5 HOH A 60 660 43 HOH HOH . E 5 HOH A 61 661 1 HOH HOH . E 5 HOH A 62 662 46 HOH HOH . E 5 HOH A 63 663 4 HOH HOH . E 5 HOH A 64 664 125 HOH HOH . E 5 HOH A 65 665 108 HOH HOH . E 5 HOH A 66 666 146 HOH HOH . E 5 HOH A 67 667 64 HOH HOH . E 5 HOH A 68 668 73 HOH HOH . E 5 HOH A 69 669 145 HOH HOH . E 5 HOH A 70 670 139 HOH HOH . E 5 HOH A 71 671 76 HOH HOH . E 5 HOH A 72 672 50 HOH HOH . E 5 HOH A 73 673 19 HOH HOH . E 5 HOH A 74 674 41 HOH HOH . E 5 HOH A 75 675 44 HOH HOH . E 5 HOH A 76 676 23 HOH HOH . E 5 HOH A 77 677 123 HOH HOH . E 5 HOH A 78 678 47 HOH HOH . E 5 HOH A 79 679 9 HOH HOH . E 5 HOH A 80 680 26 HOH HOH . E 5 HOH A 81 681 5 HOH HOH . E 5 HOH A 82 682 118 HOH HOH . E 5 HOH A 83 683 68 HOH HOH . E 5 HOH A 84 684 81 HOH HOH . E 5 HOH A 85 685 106 HOH HOH . E 5 HOH A 86 686 34 HOH HOH . E 5 HOH A 87 687 13 HOH HOH . E 5 HOH A 88 688 102 HOH HOH . E 5 HOH A 89 689 35 HOH HOH . E 5 HOH A 90 690 135 HOH HOH . E 5 HOH A 91 691 89 HOH HOH . E 5 HOH A 92 692 114 HOH HOH . E 5 HOH A 93 693 85 HOH HOH . E 5 HOH A 94 694 87 HOH HOH . E 5 HOH A 95 695 61 HOH HOH . E 5 HOH A 96 696 12 HOH HOH . E 5 HOH A 97 697 74 HOH HOH . E 5 HOH A 98 698 62 HOH HOH . E 5 HOH A 99 699 109 HOH HOH . E 5 HOH A 100 700 22 HOH HOH . E 5 HOH A 101 701 49 HOH HOH . E 5 HOH A 102 702 112 HOH HOH . E 5 HOH A 103 703 30 HOH HOH . E 5 HOH A 104 704 88 HOH HOH . E 5 HOH A 105 705 119 HOH HOH . E 5 HOH A 106 706 133 HOH HOH . E 5 HOH A 107 707 95 HOH HOH . E 5 HOH A 108 708 113 HOH HOH . E 5 HOH A 109 709 138 HOH HOH . E 5 HOH A 110 710 59 HOH HOH . E 5 HOH A 111 711 69 HOH HOH . E 5 HOH A 112 712 65 HOH HOH . E 5 HOH A 113 713 78 HOH HOH . E 5 HOH A 114 714 149 HOH HOH . E 5 HOH A 115 715 150 HOH HOH . E 5 HOH A 116 716 151 HOH HOH . E 5 HOH A 117 717 152 HOH HOH . E 5 HOH A 118 718 136 HOH HOH . E 5 HOH A 119 719 20 HOH HOH . E 5 HOH A 120 720 24 HOH HOH . E 5 HOH A 121 721 40 HOH HOH . E 5 HOH A 122 722 105 HOH HOH . E 5 HOH A 123 723 99 HOH HOH . E 5 HOH A 124 724 52 HOH HOH . E 5 HOH A 125 725 94 HOH HOH . E 5 HOH A 126 726 148 HOH HOH . E 5 HOH A 127 727 110 HOH HOH . E 5 HOH A 128 728 132 HOH HOH . E 5 HOH A 129 729 147 HOH HOH . E 5 HOH A 130 730 126 HOH HOH . E 5 HOH A 131 731 45 HOH HOH . E 5 HOH A 132 732 103 HOH HOH . E 5 HOH A 133 733 134 HOH HOH . E 5 HOH A 134 734 104 HOH HOH . E 5 HOH A 135 735 82 HOH HOH . E 5 HOH A 136 736 143 HOH HOH . E 5 HOH A 137 737 72 HOH HOH . E 5 HOH A 138 738 100 HOH HOH . E 5 HOH A 139 739 115 HOH HOH . E 5 HOH A 140 740 142 HOH HOH . E 5 HOH A 141 741 141 HOH HOH . E 5 HOH A 142 742 121 HOH HOH . E 5 HOH A 143 743 53 HOH HOH . E 5 HOH A 144 744 90 HOH HOH . E 5 HOH A 145 745 144 HOH HOH . E 5 HOH A 146 746 97 HOH HOH . E 5 HOH A 147 747 140 HOH HOH . E 5 HOH A 148 748 63 HOH HOH . E 5 HOH A 149 749 93 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 N N ARG . . . D 4 24.487 11.144 34.431 1 41.39 ? N ARG 503 A 1 HETATM 2 C CA ARG . . . D 4 23.268 11.04 35.304 1 45.94 ? CA ARG 503 A 1 HETATM 3 C C ARG . . . D 4 22.184 10.28 34.549 1 40.44 ? C ARG 503 A 1 HETATM 4 O O ARG . . . D 4 21.95 10.517 33.351 1 39.2 ? O ARG 503 A 1 HETATM 5 C CB ARG . . . D 4 22.751 12.411 35.727 1 38.82 ? CB ARG 503 A 1 HETATM 6 C CG ARG . . . D 4 21.863 12.373 36.959 1 41.1 ? CG ARG 503 A 1 HETATM 7 C CD ARG . . . D 4 22.69 12.19 38.213 1 42.98 ? CD ARG 503 A 1 HETATM 8 N NE ARG . . . D 4 21.904 12.333 39.434 1 48.16 ? NE ARG 503 A 1 HETATM 9 C CZ ARG . . . D 4 22.359 12.057 40.648 1 49.89 ? CZ ARG 503 A 1 HETATM 10 N NH1 ARG . . . D 4 21.557 12.222 41.698 1 55.89 ? NH1 ARG 503 A 1 HETATM 11 N NH2 ARG . . . D 4 23.588 11.617 40.835 1 52.07 ? NH2 ARG 503 A 1 HETATM 12 O OXT ARG . . . D 4 21.562 9.408 35.121 1 42.19 ? OXT ARG 503 A 1 HETATM 13 H H1 ARG . . . D 4 24.584 11.985 34.157 1 49.7 ? H1 ARG 503 A 1 HETATM 14 H H2 ARG . . . D 4 25.206 10.898 34.895 1 49.7 ? H2 ARG 503 A 1 HETATM 15 H H3 ARG . . . D 4 24.393 10.61 33.726 1 49.7 ? H3 ARG 503 A 1 HETATM 16 H HA ARG . . . D 4 23.495 10.569 36.121 1 55.15 ? HA ARG 503 A 1 HETATM 17 H HB2 ARG . . . D 4 23.509 12.983 35.926 1 46.61 ? HB2 ARG 503 A 1 HETATM 18 H HB3 ARG . . . D 4 22.233 12.788 34.999 1 46.61 ? HB3 ARG 503 A 1 HETATM 19 H HG2 ARG . . . D 4 21.243 11.63 36.888 1 49.35 ? HG2 ARG 503 A 1 HETATM 20 H HG3 ARG . . . D 4 21.374 13.208 37.032 1 49.35 ? HG3 ARG 503 A 1 HETATM 21 H HD2 ARG . . . D 4 23.078 11.301 38.209 1 51.61 ? HD2 ARG 503 A 1 HETATM 22 H HD3 ARG . . . D 4 23.393 12.858 38.228 1 51.61 ? HD3 ARG 503 A 1 HETATM 23 H HE ARG . . . D 4 21.095 12.615 39.361 1 57.82 ? HE ARG 503 A 1 HETATM 24 H HH11 ARG . . . D 4 20.753 12.505 41.585 1 67.1 ? HH11 ARG 503 A 1 HETATM 25 H HH12 ARG . . . D 4 21.843 12.045 42.49 1 67.1 ? HH12 ARG 503 A 1 HETATM 26 H HH21 ARG . . . D 4 24.112 11.505 40.162 1 62.51 ? HH21 ARG 503 A 1 HETATM 27 H HH22 ARG . . . D 4 23.866 11.443 41.63 1 62.51 ? HH22 ARG 503 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 369 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #