data_6LYB # _model_server_result.job_id cgo7aJlDeC7K4_UuEGBEJw _model_server_result.datetime_utc '2025-02-26 23:35:12' _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 6lyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":504}' # _entry.id 6LYB # _exptl.entry_id 6LYB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.276 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2-azanyl-3-(1-benzothiophen-3-yl)propanoic 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 120 _cell.entry_id 6LYB _cell.length_a 105.369 _cell.length_b 105.369 _cell.length_c 71.459 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6LYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall 'P 64' _symmetry.space_group_name_H-M 'P 64' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_785 -x+2,-y+3,z -1 0 0 0 -1 0 0 0 1 52.6845 273.756692 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 OE2 GLU 219 A GLU 396 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc2 A OG SER 222 A SER 399 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc3 B O1B ANP . A ANP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc4 B O2A ANP . A ANP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc5 B O2G ANP . A ANP 501 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? metalc ? metalc6 B O2B ANP . A ANP 501 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc7 C MG MG . A MG 502 1_555 F O HOH . A HOH 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc8 C MG MG . A MG 502 1_555 F O HOH . A HOH 692 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc9 D MG MG . A MG 503 1_555 F O HOH . A HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc10 D MG MG . A MG 503 1_555 F O HOH . A HOH 639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.915 ? metalc ? metalc11 D MG MG . A MG 503 1_555 F O HOH . A HOH 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc12 D MG MG . A MG 503 1_555 F O HOH . A HOH 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? # _chem_comp.formula 'C11 H11 N O2 S' _chem_comp.formula_weight 221.276 _chem_comp.id EXR _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2-azanyl-3-(1-benzothiophen-3-yl)propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 3-(3-Benzothienyl)-D-alanine # 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 O1 C EXR doub 133 n n C O2 EXR sing 134 n n C CA EXR sing 135 n n N CA EXR sing 136 n n CA CB EXR sing 137 n n CB C1 EXR sing 138 n n C1 C2 EXR doub 139 n y C1 C9 EXR sing 140 n y C2 S3 EXR sing 141 n y C8 C9 EXR doub 142 n y C8 C5 EXR sing 143 n y C9 C4 EXR sing 144 n y S3 C4 EXR sing 145 n y C5 C6 EXR doub 146 n y C4 C7 EXR doub 147 n y C6 C7 EXR sing 148 n y C5 H1 EXR sing 149 n n C6 H2 EXR sing 150 n n C7 H3 EXR sing 151 n n C8 H4 EXR sing 152 n n N H7 EXR sing 153 n n N H5 EXR sing 154 n n CA H8 EXR sing 155 n n CB H10 EXR sing 156 n n CB H9 EXR sing 157 n n C2 H11 EXR sing 158 n n O2 H12 EXR sing 159 n n # _atom_sites.entry_id 6LYB _atom_sites.fract_transf_matrix[1][1] 0.00949 _atom_sites.fract_transf_matrix[1][2] 0.005479 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010959 _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] 0.013994 _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 ANP A 1 501 1 ANP ANP . C 3 MG A 1 502 1 MG MG . D 3 MG A 1 503 2 MG MG . E 4 EXR A 1 504 1 EXR DTA . F 5 HOH A 1 601 90 HOH HOH . F 5 HOH A 2 602 121 HOH HOH . F 5 HOH A 3 603 96 HOH HOH . F 5 HOH A 4 604 119 HOH HOH . F 5 HOH A 5 605 124 HOH HOH . F 5 HOH A 6 606 79 HOH HOH . F 5 HOH A 7 607 6 HOH HOH . F 5 HOH A 8 608 3 HOH HOH . F 5 HOH A 9 609 120 HOH HOH . F 5 HOH A 10 610 4 HOH HOH . F 5 HOH A 11 611 55 HOH HOH . F 5 HOH A 12 612 1 HOH HOH . F 5 HOH A 13 613 54 HOH HOH . F 5 HOH A 14 614 82 HOH HOH . F 5 HOH A 15 615 22 HOH HOH . F 5 HOH A 16 616 132 HOH HOH . F 5 HOH A 17 617 165 HOH HOH . F 5 HOH A 18 618 16 HOH HOH . F 5 HOH A 19 619 23 HOH HOH . F 5 HOH A 20 620 12 HOH HOH . F 5 HOH A 21 621 98 HOH HOH . F 5 HOH A 22 622 10 HOH HOH . F 5 HOH A 23 623 7 HOH HOH . F 5 HOH A 24 624 140 HOH HOH . F 5 HOH A 25 625 20 HOH HOH . F 5 HOH A 26 626 32 HOH HOH . F 5 HOH A 27 627 33 HOH HOH . F 5 HOH A 28 628 138 HOH HOH . F 5 HOH A 29 629 29 HOH HOH . F 5 HOH A 30 630 9 HOH HOH . F 5 HOH A 31 631 41 HOH HOH . F 5 HOH A 32 632 26 HOH HOH . F 5 HOH A 33 633 125 HOH HOH . F 5 HOH A 34 634 14 HOH HOH . F 5 HOH A 35 635 68 HOH HOH . F 5 HOH A 36 636 108 HOH HOH . F 5 HOH A 37 637 11 HOH HOH . F 5 HOH A 38 638 166 HOH HOH . F 5 HOH A 39 639 116 HOH HOH . F 5 HOH A 40 640 111 HOH HOH . F 5 HOH A 41 641 76 HOH HOH . F 5 HOH A 42 642 44 HOH HOH . F 5 HOH A 43 643 37 HOH HOH . F 5 HOH A 44 644 74 HOH HOH . F 5 HOH A 45 645 2 HOH HOH . F 5 HOH A 46 646 47 HOH HOH . F 5 HOH A 47 647 13 HOH HOH . F 5 HOH A 48 648 39 HOH HOH . F 5 HOH A 49 649 67 HOH HOH . F 5 HOH A 50 650 106 HOH HOH . F 5 HOH A 51 651 127 HOH HOH . F 5 HOH A 52 652 83 HOH HOH . F 5 HOH A 53 653 25 HOH HOH . F 5 HOH A 54 654 51 HOH HOH . F 5 HOH A 55 655 113 HOH HOH . F 5 HOH A 56 656 27 HOH HOH . F 5 HOH A 57 657 64 HOH HOH . F 5 HOH A 58 658 60 HOH HOH . F 5 HOH A 59 659 94 HOH HOH . F 5 HOH A 60 660 91 HOH HOH . F 5 HOH A 61 661 24 HOH HOH . F 5 HOH A 62 662 92 HOH HOH . F 5 HOH A 63 663 107 HOH HOH . F 5 HOH A 64 664 19 HOH HOH . F 5 HOH A 65 665 28 HOH HOH . F 5 HOH A 66 666 36 HOH HOH . F 5 HOH A 67 667 86 HOH HOH . F 5 HOH A 68 668 72 HOH HOH . F 5 HOH A 69 669 65 HOH HOH . F 5 HOH A 70 670 52 HOH HOH . F 5 HOH A 71 671 15 HOH HOH . F 5 HOH A 72 672 77 HOH HOH . F 5 HOH A 73 673 151 HOH HOH . F 5 HOH A 74 674 84 HOH HOH . F 5 HOH A 75 675 56 HOH HOH . F 5 HOH A 76 676 112 HOH HOH . F 5 HOH A 77 677 49 HOH HOH . F 5 HOH A 78 678 97 HOH HOH . F 5 HOH A 79 679 46 HOH HOH . F 5 HOH A 80 680 100 HOH HOH . F 5 HOH A 81 681 57 HOH HOH . F 5 HOH A 82 682 114 HOH HOH . F 5 HOH A 83 683 117 HOH HOH . F 5 HOH A 84 684 71 HOH HOH . F 5 HOH A 85 685 133 HOH HOH . F 5 HOH A 86 686 87 HOH HOH . F 5 HOH A 87 687 5 HOH HOH . F 5 HOH A 88 688 153 HOH HOH . F 5 HOH A 89 689 40 HOH HOH . F 5 HOH A 90 690 50 HOH HOH . F 5 HOH A 91 691 99 HOH HOH . F 5 HOH A 92 692 69 HOH HOH . F 5 HOH A 93 693 122 HOH HOH . F 5 HOH A 94 694 34 HOH HOH . F 5 HOH A 95 695 158 HOH HOH . F 5 HOH A 96 696 103 HOH HOH . F 5 HOH A 97 697 17 HOH HOH . F 5 HOH A 98 698 18 HOH HOH . F 5 HOH A 99 699 147 HOH HOH . F 5 HOH A 100 700 78 HOH HOH . F 5 HOH A 101 701 80 HOH HOH . F 5 HOH A 102 702 110 HOH HOH . F 5 HOH A 103 703 134 HOH HOH . F 5 HOH A 104 704 45 HOH HOH . F 5 HOH A 105 705 118 HOH HOH . F 5 HOH A 106 706 66 HOH HOH . F 5 HOH A 107 707 58 HOH HOH . F 5 HOH A 108 708 131 HOH HOH . F 5 HOH A 109 709 48 HOH HOH . F 5 HOH A 110 710 53 HOH HOH . F 5 HOH A 111 711 21 HOH HOH . F 5 HOH A 112 712 102 HOH HOH . F 5 HOH A 113 713 30 HOH HOH . F 5 HOH A 114 714 129 HOH HOH . F 5 HOH A 115 715 104 HOH HOH . F 5 HOH A 116 716 149 HOH HOH . F 5 HOH A 117 717 101 HOH HOH . F 5 HOH A 118 718 152 HOH HOH . F 5 HOH A 119 719 70 HOH HOH . F 5 HOH A 120 720 137 HOH HOH . F 5 HOH A 121 721 43 HOH HOH . F 5 HOH A 122 722 89 HOH HOH . F 5 HOH A 123 723 161 HOH HOH . F 5 HOH A 124 724 42 HOH HOH . F 5 HOH A 125 725 8 HOH HOH . F 5 HOH A 126 726 75 HOH HOH . F 5 HOH A 127 727 145 HOH HOH . F 5 HOH A 128 728 143 HOH HOH . F 5 HOH A 129 729 73 HOH HOH . F 5 HOH A 130 730 95 HOH HOH . F 5 HOH A 131 731 88 HOH HOH . F 5 HOH A 132 732 148 HOH HOH . F 5 HOH A 133 733 38 HOH HOH . F 5 HOH A 134 734 59 HOH HOH . F 5 HOH A 135 735 61 HOH HOH . F 5 HOH A 136 736 167 HOH HOH . F 5 HOH A 137 737 154 HOH HOH . F 5 HOH A 138 738 126 HOH HOH . F 5 HOH A 139 739 146 HOH HOH . F 5 HOH A 140 740 164 HOH HOH . F 5 HOH A 141 741 141 HOH HOH . F 5 HOH A 142 742 31 HOH HOH . F 5 HOH A 143 743 160 HOH HOH . F 5 HOH A 144 744 155 HOH HOH . F 5 HOH A 145 745 162 HOH HOH . F 5 HOH A 146 746 93 HOH HOH . F 5 HOH A 147 747 109 HOH HOH . F 5 HOH A 148 748 105 HOH HOH . F 5 HOH A 149 749 150 HOH HOH . F 5 HOH A 150 750 142 HOH HOH . F 5 HOH A 151 751 85 HOH HOH . F 5 HOH A 152 752 81 HOH HOH . F 5 HOH A 153 753 156 HOH HOH . F 5 HOH A 154 754 159 HOH HOH . F 5 HOH A 155 755 115 HOH HOH . F 5 HOH A 156 756 35 HOH HOH . F 5 HOH A 157 757 135 HOH HOH . F 5 HOH A 158 758 139 HOH HOH . F 5 HOH A 159 759 123 HOH HOH . F 5 HOH A 160 760 130 HOH HOH . F 5 HOH A 161 761 136 HOH HOH . F 5 HOH A 162 762 62 HOH HOH . F 5 HOH A 163 763 63 HOH HOH . F 5 HOH A 164 764 163 HOH HOH . F 5 HOH A 165 765 144 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 C4 EXR . . . E 4 8.586 135.164 -8.194 0.76 50.69 ? C4 EXR 504 A 1 HETATM 2 C C5 EXR . . . E 4 5.93 135.912 -8.267 0.76 45.45 ? C5 EXR 504 A 1 HETATM 3 C C6 EXR . . . E 4 6.332 134.709 -7.71 0.76 49.15 ? C6 EXR 504 A 1 HETATM 4 C C7 EXR . . . E 4 7.653 134.325 -7.675 0.76 49.71 ? C7 EXR 504 A 1 HETATM 5 C C8 EXR . . . E 4 6.855 136.747 -8.807 0.76 53.06 ? C8 EXR 504 A 1 HETATM 6 C C9 EXR . . . E 4 8.207 136.338 -8.765 0.76 48.73 ? C9 EXR 504 A 1 HETATM 7 N N EXR . . . E 4 7.454 139.527 -11.848 0.76 54.73 ? N EXR 504 A 1 HETATM 8 C CA EXR . . . E 4 8.256 138.376 -11.336 0.76 58.38 ? CA EXR 504 A 1 HETATM 9 C CB EXR . . . E 4 8.877 138.503 -9.909 0.76 48.79 ? CB EXR 504 A 1 HETATM 10 C C1 EXR . . . E 4 9.236 137.135 -9.273 0.76 47.51 ? C1 EXR 504 A 1 HETATM 11 C C2 EXR . . . E 4 10.493 136.606 -9.156 0.76 49 ? C2 EXR 504 A 1 HETATM 12 S S3 EXR . . . E 4 10.273 135.115 -8.344 0.76 72.18 ? S3 EXR 504 A 1 HETATM 13 C C EXR . . . E 4 9.409 138.031 -12.276 0.76 57.65 ? C EXR 504 A 1 HETATM 14 O O1 EXR . . . E 4 9.549 138.694 -13.317 0.76 57.43 -1 O1 EXR 504 A 1 HETATM 15 O O2 EXR . . . E 4 10.237 137.132 -11.927 0.76 62.97 ? O2 EXR 504 A 1 HETATM 16 H H1 EXR . . . E 4 5.029 136.138 -8.288 0.76 54.5 ? H1 EXR 504 A 1 HETATM 17 H H2 EXR . . . E 4 5.69 134.142 -7.352 0.76 58.94 ? H2 EXR 504 A 1 HETATM 18 H H3 EXR . . . E 4 7.903 133.519 -7.287 0.76 59.62 ? H3 EXR 504 A 1 HETATM 19 H H4 EXR . . . E 4 6.607 137.558 -9.186 0.76 63.64 ? H4 EXR 504 A 1 HETATM 20 H H7 EXR . . . E 4 6.675 139.529 -11.466 0.76 65.64 ? H7 EXR 504 A 1 HETATM 21 H H5 EXR . . . E 4 7.866 140.269 -11.669 0.76 65.64 ? H5 EXR 504 A 1 HETATM 22 H H8 EXR . . . E 4 7.683 137.633 -11.32 0.76 70.02 ? H8 EXR 504 A 1 HETATM 23 H H10 EXR . . . E 4 8.271 138.954 -9.352 0.76 58.5 ? H10 EXR 504 A 1 HETATM 24 H H9 EXR . . . E 4 9.661 139.015 -9.972 0.76 58.5 ? H9 EXR 504 A 1 HETATM 25 H H11 EXR . . . E 4 11.295 136.989 -9.427 0.76 58.77 ? H11 EXR 504 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 25 #