data_8D25 # _model_server_result.job_id UNAAbkzFk7IyHgZL2qEObQ _model_server_result.datetime_utc '2025-01-25 07:40:29' _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 8d25 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 8D25 # _exptl.entry_id 8D25 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 338.831 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-{2-[(3-chlorophenyl)methoxy]phenyl}-N-[(pyridin-4-yl)methyl]methanamine _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 8D25 _cell.length_a 174.927 _cell.length_b 174.927 _cell.length_c 123.53 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8D25 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # 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' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 -x,-x+y,-z -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 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 # _chem_comp.formula 'C20 H19 Cl N2 O' _chem_comp.formula_weight 338.831 _chem_comp.id PV3 _chem_comp.mon_nstd_flag . _chem_comp.name 1-{2-[(3-chlorophenyl)methoxy]phenyl}-N-[(pyridin-4-yl)methyl]methanamine _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 N1 C14 PV3 sing 290 n n N1 C13 PV3 sing 291 n n C14 C15 PV3 sing 292 n n C19 C15 PV3 doub 293 n y C19 C18 PV3 sing 294 n y C15 C16 PV3 sing 295 n y C18 N2 PV3 doub 296 n y C13 C12 PV3 sing 297 n n C11 C12 PV3 doub 298 n y C11 C10 PV3 sing 299 n y C12 C7 PV3 sing 300 n y C10 C9 PV3 doub 301 n y C16 C17 PV3 doub 302 n y N2 C17 PV3 sing 303 n y C7 O1 PV3 sing 304 n n C7 C8 PV3 doub 305 n y C9 C8 PV3 sing 306 n y O1 C6 PV3 sing 307 n n C4 C3 PV3 doub 308 n y C4 C5 PV3 sing 309 n y C6 C5 PV3 sing 310 n n C3 C2 PV3 sing 311 n y C5 C20 PV3 doub 312 n y C2 C1 PV3 doub 313 n y C20 C1 PV3 sing 314 n y C1 CL1 PV3 sing 315 n n C2 H1 PV3 sing 316 n n C3 H2 PV3 sing 317 n n C4 H3 PV3 sing 318 n n C6 H4 PV3 sing 319 n n C6 H5 PV3 sing 320 n n C8 H6 PV3 sing 321 n n C9 H7 PV3 sing 322 n n C10 H8 PV3 sing 323 n n C11 H9 PV3 sing 324 n n C13 H10 PV3 sing 325 n n C13 H11 PV3 sing 326 n n C14 H12 PV3 sing 327 n n C14 H13 PV3 sing 328 n n C16 H14 PV3 sing 329 n n C17 H15 PV3 sing 330 n n C18 H16 PV3 sing 331 n n C19 H17 PV3 sing 332 n n N1 H18 PV3 sing 333 n n C20 H20 PV3 sing 334 n n # _atom_sites.entry_id 8D25 _atom_sites.fract_transf_matrix[1][1] 0.005717 _atom_sites.fract_transf_matrix[1][2] 0.003301 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006601 _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] 0.008095 _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 PV3 A 1 501 501 PV3 A92 . C 3 GOL A 1 502 601 GOL GOL . D 4 HOH A 1 601 132 HOH HOH . D 4 HOH A 2 602 5 HOH HOH . D 4 HOH A 3 603 119 HOH HOH . D 4 HOH A 4 604 82 HOH HOH . D 4 HOH A 5 605 161 HOH HOH . D 4 HOH A 6 606 137 HOH HOH . D 4 HOH A 7 607 146 HOH HOH . D 4 HOH A 8 608 87 HOH HOH . D 4 HOH A 9 609 174 HOH HOH . D 4 HOH A 10 610 135 HOH HOH . D 4 HOH A 11 611 144 HOH HOH . D 4 HOH A 12 612 158 HOH HOH . D 4 HOH A 13 613 129 HOH HOH . D 4 HOH A 14 614 101 HOH HOH . D 4 HOH A 15 615 143 HOH HOH . D 4 HOH A 16 616 90 HOH HOH . D 4 HOH A 17 617 40 HOH HOH . D 4 HOH A 18 618 79 HOH HOH . D 4 HOH A 19 619 108 HOH HOH . D 4 HOH A 20 620 172 HOH HOH . D 4 HOH A 21 621 100 HOH HOH . D 4 HOH A 22 622 125 HOH HOH . D 4 HOH A 23 623 80 HOH HOH . D 4 HOH A 24 624 68 HOH HOH . D 4 HOH A 25 625 59 HOH HOH . D 4 HOH A 26 626 179 HOH HOH . D 4 HOH A 27 627 37 HOH HOH . D 4 HOH A 28 628 81 HOH HOH . D 4 HOH A 29 629 157 HOH HOH . D 4 HOH A 30 630 21 HOH HOH . D 4 HOH A 31 631 111 HOH HOH . D 4 HOH A 32 632 112 HOH HOH . D 4 HOH A 33 633 136 HOH HOH . D 4 HOH A 34 634 41 HOH HOH . D 4 HOH A 35 635 58 HOH HOH . D 4 HOH A 36 636 154 HOH HOH . D 4 HOH A 37 637 118 HOH HOH . D 4 HOH A 38 638 47 HOH HOH . D 4 HOH A 39 639 75 HOH HOH . D 4 HOH A 40 640 2 HOH HOH . D 4 HOH A 41 641 23 HOH HOH . D 4 HOH A 42 642 64 HOH HOH . D 4 HOH A 43 643 4 HOH HOH . D 4 HOH A 44 644 36 HOH HOH . D 4 HOH A 45 645 44 HOH HOH . D 4 HOH A 46 646 54 HOH HOH . D 4 HOH A 47 647 140 HOH HOH . D 4 HOH A 48 648 103 HOH HOH . D 4 HOH A 49 649 78 HOH HOH . D 4 HOH A 50 650 124 HOH HOH . D 4 HOH A 51 651 35 HOH HOH . D 4 HOH A 52 652 134 HOH HOH . D 4 HOH A 53 653 95 HOH HOH . D 4 HOH A 54 654 46 HOH HOH . D 4 HOH A 55 655 148 HOH HOH . D 4 HOH A 56 656 85 HOH HOH . D 4 HOH A 57 657 31 HOH HOH . D 4 HOH A 58 658 162 HOH HOH . D 4 HOH A 59 659 39 HOH HOH . D 4 HOH A 60 660 168 HOH HOH . D 4 HOH A 61 661 17 HOH HOH . D 4 HOH A 62 662 89 HOH HOH . D 4 HOH A 63 663 139 HOH HOH . D 4 HOH A 64 664 176 HOH HOH . D 4 HOH A 65 665 16 HOH HOH . D 4 HOH A 66 666 1 HOH HOH . D 4 HOH A 67 667 51 HOH HOH . D 4 HOH A 68 668 97 HOH HOH . D 4 HOH A 69 669 52 HOH HOH . D 4 HOH A 70 670 22 HOH HOH . D 4 HOH A 71 671 170 HOH HOH . D 4 HOH A 72 672 66 HOH HOH . D 4 HOH A 73 673 71 HOH HOH . D 4 HOH A 74 674 38 HOH HOH . D 4 HOH A 75 675 122 HOH HOH . D 4 HOH A 76 676 18 HOH HOH . D 4 HOH A 77 677 20 HOH HOH . D 4 HOH A 78 678 152 HOH HOH . D 4 HOH A 79 679 74 HOH HOH . D 4 HOH A 80 680 138 HOH HOH . D 4 HOH A 81 681 3 HOH HOH . D 4 HOH A 82 682 10 HOH HOH . D 4 HOH A 83 683 181 HOH HOH . D 4 HOH A 84 684 150 HOH HOH . D 4 HOH A 85 685 24 HOH HOH . D 4 HOH A 86 686 86 HOH HOH . D 4 HOH A 87 687 76 HOH HOH . D 4 HOH A 88 688 83 HOH HOH . D 4 HOH A 89 689 114 HOH HOH . D 4 HOH A 90 690 109 HOH HOH . D 4 HOH A 91 691 145 HOH HOH . D 4 HOH A 92 692 91 HOH HOH . D 4 HOH A 93 693 88 HOH HOH . D 4 HOH A 94 694 6 HOH HOH . D 4 HOH A 95 695 8 HOH HOH . D 4 HOH A 96 696 115 HOH HOH . D 4 HOH A 97 697 163 HOH HOH . D 4 HOH A 98 698 56 HOH HOH . D 4 HOH A 99 699 62 HOH HOH . D 4 HOH A 100 700 151 HOH HOH . D 4 HOH A 101 701 12 HOH HOH . D 4 HOH A 102 702 33 HOH HOH . D 4 HOH A 103 703 105 HOH HOH . D 4 HOH A 104 704 153 HOH HOH . D 4 HOH A 105 705 57 HOH HOH . D 4 HOH A 106 706 69 HOH HOH . D 4 HOH A 107 707 133 HOH HOH . D 4 HOH A 108 708 25 HOH HOH . D 4 HOH A 109 709 110 HOH HOH . D 4 HOH A 110 710 28 HOH HOH . D 4 HOH A 111 711 30 HOH HOH . D 4 HOH A 112 712 67 HOH HOH . D 4 HOH A 113 713 61 HOH HOH . D 4 HOH A 114 714 65 HOH HOH . D 4 HOH A 115 715 165 HOH HOH . D 4 HOH A 116 716 177 HOH HOH . D 4 HOH A 117 717 96 HOH HOH . D 4 HOH A 118 718 60 HOH HOH . D 4 HOH A 119 719 26 HOH HOH . D 4 HOH A 120 720 159 HOH HOH . D 4 HOH A 121 721 164 HOH HOH . D 4 HOH A 122 722 72 HOH HOH . D 4 HOH A 123 723 14 HOH HOH . D 4 HOH A 124 724 43 HOH HOH . D 4 HOH A 125 725 155 HOH HOH . D 4 HOH A 126 726 77 HOH HOH . D 4 HOH A 127 727 102 HOH HOH . D 4 HOH A 128 728 29 HOH HOH . D 4 HOH A 129 729 117 HOH HOH . D 4 HOH A 130 730 48 HOH HOH . D 4 HOH A 131 731 104 HOH HOH . D 4 HOH A 132 732 180 HOH HOH . D 4 HOH A 133 733 113 HOH HOH . D 4 HOH A 134 734 166 HOH HOH . D 4 HOH A 135 735 141 HOH HOH . D 4 HOH A 136 736 55 HOH HOH . D 4 HOH A 137 737 53 HOH HOH . D 4 HOH A 138 738 178 HOH HOH . D 4 HOH A 139 739 120 HOH HOH . D 4 HOH A 140 740 63 HOH HOH . D 4 HOH A 141 741 167 HOH HOH . D 4 HOH A 142 742 34 HOH HOH . D 4 HOH A 143 743 116 HOH HOH . D 4 HOH A 144 744 73 HOH HOH . D 4 HOH A 145 745 42 HOH HOH . D 4 HOH A 146 746 45 HOH HOH . D 4 HOH A 147 747 156 HOH HOH . D 4 HOH A 148 748 50 HOH HOH . D 4 HOH A 149 749 49 HOH HOH . D 4 HOH A 150 750 147 HOH HOH . D 4 HOH A 151 751 32 HOH HOH . D 4 HOH A 152 752 15 HOH HOH . D 4 HOH A 153 753 99 HOH HOH . D 4 HOH A 154 754 107 HOH HOH . D 4 HOH A 155 755 7 HOH HOH . D 4 HOH A 156 756 149 HOH HOH . D 4 HOH A 157 757 142 HOH HOH . D 4 HOH A 158 758 121 HOH HOH . D 4 HOH A 159 759 13 HOH HOH . D 4 HOH A 160 760 123 HOH HOH . D 4 HOH A 161 761 160 HOH HOH . D 4 HOH A 162 762 131 HOH HOH . D 4 HOH A 163 763 11 HOH HOH . D 4 HOH A 164 764 175 HOH HOH . D 4 HOH A 165 765 70 HOH HOH . D 4 HOH A 166 766 9 HOH HOH . D 4 HOH A 167 767 92 HOH HOH . D 4 HOH A 168 768 127 HOH HOH . D 4 HOH A 169 769 171 HOH HOH . D 4 HOH A 170 770 173 HOH HOH . D 4 HOH A 171 771 93 HOH HOH . D 4 HOH A 172 772 27 HOH HOH . D 4 HOH A 173 773 130 HOH HOH . D 4 HOH A 174 774 94 HOH HOH . D 4 HOH A 175 775 98 HOH HOH . D 4 HOH A 176 776 128 HOH HOH . D 4 HOH A 177 777 84 HOH HOH . D 4 HOH A 178 778 169 HOH HOH . D 4 HOH A 179 779 126 HOH HOH . D 4 HOH A 180 780 19 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 PV3 . . . B 2 21.522 14.033 28.223 1 48.16 ? C1 PV3 501 A 1 HETATM 2 C C2 PV3 . . . B 2 22.752 14.044 27.58 1 47.61 ? C2 PV3 501 A 1 HETATM 3 C C3 PV3 . . . B 2 22.895 13.303 26.414 1 48.16 ? C3 PV3 501 A 1 HETATM 4 C C4 PV3 . . . B 2 21.837 12.555 25.923 1 43.31 ? C4 PV3 501 A 1 HETATM 5 C C5 PV3 . . . B 2 20.624 12.557 26.586 1 49.98 ? C5 PV3 501 A 1 HETATM 6 C C6 PV3 . . . B 2 19.479 11.724 26.094 1 58.34 ? C6 PV3 501 A 1 HETATM 7 C C7 PV3 . . . B 2 18 11.441 24.225 1 58.86 ? C7 PV3 501 A 1 HETATM 8 C C8 PV3 . . . B 2 17.284 10.464 24.932 1 55.82 ? C8 PV3 501 A 1 HETATM 9 C C9 PV3 . . . B 2 16.244 9.802 24.309 1 53.84 ? C9 PV3 501 A 1 HETATM 10 C C10 PV3 . . . B 2 15.915 10.121 23.005 1 58.48 ? C10 PV3 501 A 1 HETATM 11 C C11 PV3 . . . B 2 16.622 11.087 22.298 1 57.1 ? C11 PV3 501 A 1 HETATM 12 C C12 PV3 . . . B 2 17.676 11.78 22.895 1 54.06 ? C12 PV3 501 A 1 HETATM 13 C C13 PV3 . . . B 2 18.488 12.809 22.139 1 50.93 ? C13 PV3 501 A 1 HETATM 14 C C14 PV3 . . . B 2 20.338 11.546 21.063 1 63.23 ? C14 PV3 501 A 1 HETATM 15 C C15 PV3 . . . B 2 20.214 10.207 21.773 1 67.64 ? C15 PV3 501 A 1 HETATM 16 C C16 PV3 . . . B 2 20.763 10.018 23.042 1 60.08 ? C16 PV3 501 A 1 HETATM 17 C C17 PV3 . . . B 2 20.625 8.786 23.651 1 64.55 ? C17 PV3 501 A 1 HETATM 18 C C18 PV3 . . . B 2 19.516 7.906 21.858 1 61.21 ? C18 PV3 501 A 1 HETATM 19 C C19 PV3 . . . B 2 19.584 9.109 21.179 1 66.97 ? C19 PV3 501 A 1 HETATM 20 CL CL1 PV3 . . . B 2 21.271 14.959 29.669 1 52.63 ? CL1 PV3 501 A 1 HETATM 21 O O1 PV3 . . . B 2 19.074 12.116 24.779 1 52.97 ? O1 PV3 501 A 1 HETATM 22 N N1 PV3 . . . B 2 19.08 12.286 20.896 1 57.36 ? N1 PV3 501 A 1 HETATM 23 N N2 PV3 . . . B 2 20.013 7.734 23.086 1 61.21 ? N2 PV3 501 A 1 HETATM 24 C C20 PV3 . . . B 2 20.469 13.298 27.743 1 44 ? C20 PV3 501 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 24 #