data_5LDV # _model_server_result.job_id OOoRpvwZJGWWqmPK9Q1swg _model_server_result.datetime_utc '2024-10-19 12:24:01' _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 5ldv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":506}' # _entry.id 5LDV # _exptl.entry_id 5LDV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 114.229 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-OCTANE _entity.pdbx_number_of_molecules 4 _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 5LDV _cell.length_a 90.63 _cell.length_b 90.63 _cell.length_c 104.4 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LDV _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 45.315 78.487882 0 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -45.315 78.487882 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G 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 ASP 123 A ASP 123 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc2 A OD2 ASP 123 A ASP 123 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc3 A OE1 GLN 155 A GLN 155 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc4 A OD2 ASP 158 A ASP 158 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc5 A OE2 GLU 291 A GLU 291 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc6 B CA CA . A CA 501 1_555 H O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? # _chem_comp.formula 'C8 H18' _chem_comp.formula_weight 114.229 _chem_comp.id OCT _chem_comp.mon_nstd_flag . _chem_comp.name N-OCTANE _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 C1 C2 OCT sing 261 n n C1 H11 OCT sing 262 n n C1 H12 OCT sing 263 n n C1 H13 OCT sing 264 n n C2 C3 OCT sing 265 n n C2 H21 OCT sing 266 n n C2 H22 OCT sing 267 n n C3 C4 OCT sing 268 n n C3 H31 OCT sing 269 n n C3 H32 OCT sing 270 n n C4 C5 OCT sing 271 n n C4 H41 OCT sing 272 n n C4 H42 OCT sing 273 n n C5 C6 OCT sing 274 n n C5 H51 OCT sing 275 n n C5 H52 OCT sing 276 n n C6 C7 OCT sing 277 n n C6 H61 OCT sing 278 n n C6 H62 OCT sing 279 n n C7 C8 OCT sing 280 n n C7 H71 OCT sing 281 n n C7 H72 OCT sing 282 n n C8 H81 OCT sing 283 n n C8 H82 OCT sing 284 n n C8 H83 OCT sing 285 n n # _atom_sites.entry_id 5LDV _atom_sites.fract_transf_matrix[1][1] 0.011034 _atom_sites.fract_transf_matrix[1][2] 0.00637 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012741 _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] 0.009579 _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 CA A 1 501 1 CA CA . C 3 1PE A 1 502 1 1PE 1PE . D 4 OCT A 1 503 1 OCT OCT . E 4 OCT A 1 504 2 OCT OCT . F 4 OCT A 1 505 3 OCT OCT . G 4 OCT A 1 506 5 OCT OCT . H 5 HOH A 1 601 21 HOH HOH . H 5 HOH A 2 602 13 HOH HOH . H 5 HOH A 3 603 191 HOH HOH . H 5 HOH A 4 604 45 HOH HOH . H 5 HOH A 5 605 14 HOH HOH . H 5 HOH A 6 606 69 HOH HOH . H 5 HOH A 7 607 124 HOH HOH . H 5 HOH A 8 608 158 HOH HOH . H 5 HOH A 9 609 3 HOH HOH . H 5 HOH A 10 610 29 HOH HOH . H 5 HOH A 11 611 112 HOH HOH . H 5 HOH A 12 612 71 HOH HOH . H 5 HOH A 13 613 12 HOH HOH . H 5 HOH A 14 614 6 HOH HOH . H 5 HOH A 15 615 38 HOH HOH . H 5 HOH A 16 616 155 HOH HOH . H 5 HOH A 17 617 32 HOH HOH . H 5 HOH A 18 618 25 HOH HOH . H 5 HOH A 19 619 43 HOH HOH . H 5 HOH A 20 620 89 HOH HOH . H 5 HOH A 21 621 111 HOH HOH . H 5 HOH A 22 622 8 HOH HOH . H 5 HOH A 23 623 166 HOH HOH . H 5 HOH A 24 624 106 HOH HOH . H 5 HOH A 25 625 10 HOH HOH . H 5 HOH A 26 626 20 HOH HOH . H 5 HOH A 27 627 75 HOH HOH . H 5 HOH A 28 628 4 HOH HOH . H 5 HOH A 29 629 238 HOH HOH . H 5 HOH A 30 630 100 HOH HOH . H 5 HOH A 31 631 60 HOH HOH . H 5 HOH A 32 632 58 HOH HOH . H 5 HOH A 33 633 42 HOH HOH . H 5 HOH A 34 634 35 HOH HOH . H 5 HOH A 35 635 102 HOH HOH . H 5 HOH A 36 636 9 HOH HOH . H 5 HOH A 37 637 24 HOH HOH . H 5 HOH A 38 638 141 HOH HOH . H 5 HOH A 39 639 52 HOH HOH . H 5 HOH A 40 640 28 HOH HOH . H 5 HOH A 41 641 26 HOH HOH . H 5 HOH A 42 642 194 HOH HOH . H 5 HOH A 43 643 163 HOH HOH . H 5 HOH A 44 644 62 HOH HOH . H 5 HOH A 45 645 46 HOH HOH . H 5 HOH A 46 646 7 HOH HOH . H 5 HOH A 47 647 74 HOH HOH . H 5 HOH A 48 648 5 HOH HOH . H 5 HOH A 49 649 49 HOH HOH . H 5 HOH A 50 650 66 HOH HOH . H 5 HOH A 51 651 96 HOH HOH . H 5 HOH A 52 652 48 HOH HOH . H 5 HOH A 53 653 2 HOH HOH . H 5 HOH A 54 654 11 HOH HOH . H 5 HOH A 55 655 59 HOH HOH . H 5 HOH A 56 656 145 HOH HOH . H 5 HOH A 57 657 114 HOH HOH . H 5 HOH A 58 658 202 HOH HOH . H 5 HOH A 59 659 109 HOH HOH . H 5 HOH A 60 660 185 HOH HOH . H 5 HOH A 61 661 15 HOH HOH . H 5 HOH A 62 662 57 HOH HOH . H 5 HOH A 63 663 295 HOH HOH . H 5 HOH A 64 664 80 HOH HOH . H 5 HOH A 65 665 203 HOH HOH . H 5 HOH A 66 666 116 HOH HOH . H 5 HOH A 67 667 130 HOH HOH . H 5 HOH A 68 668 224 HOH HOH . H 5 HOH A 69 669 1 HOH HOH . H 5 HOH A 70 670 50 HOH HOH . H 5 HOH A 71 671 226 HOH HOH . H 5 HOH A 72 672 148 HOH HOH . H 5 HOH A 73 673 83 HOH HOH . H 5 HOH A 74 674 108 HOH HOH . H 5 HOH A 75 675 135 HOH HOH . H 5 HOH A 76 676 23 HOH HOH . H 5 HOH A 77 677 125 HOH HOH . H 5 HOH A 78 678 55 HOH HOH . H 5 HOH A 79 679 186 HOH HOH . H 5 HOH A 80 680 120 HOH HOH . H 5 HOH A 81 681 53 HOH HOH . H 5 HOH A 82 682 153 HOH HOH . H 5 HOH A 83 683 139 HOH HOH . H 5 HOH A 84 684 110 HOH HOH . H 5 HOH A 85 685 151 HOH HOH . H 5 HOH A 86 686 179 HOH HOH . H 5 HOH A 87 687 27 HOH HOH . H 5 HOH A 88 688 119 HOH HOH . H 5 HOH A 89 689 233 HOH HOH . H 5 HOH A 90 690 126 HOH HOH . H 5 HOH A 91 691 81 HOH HOH . H 5 HOH A 92 692 51 HOH HOH . H 5 HOH A 93 693 231 HOH HOH . H 5 HOH A 94 694 17 HOH HOH . H 5 HOH A 95 695 132 HOH HOH . H 5 HOH A 96 696 85 HOH HOH . H 5 HOH A 97 697 198 HOH HOH . H 5 HOH A 98 698 41 HOH HOH . H 5 HOH A 99 699 164 HOH HOH . H 5 HOH A 100 700 182 HOH HOH . H 5 HOH A 101 701 54 HOH HOH . H 5 HOH A 102 702 122 HOH HOH . H 5 HOH A 103 703 72 HOH HOH . H 5 HOH A 104 704 30 HOH HOH . H 5 HOH A 105 705 88 HOH HOH . H 5 HOH A 106 706 212 HOH HOH . H 5 HOH A 107 707 127 HOH HOH . H 5 HOH A 108 708 118 HOH HOH . H 5 HOH A 109 709 154 HOH HOH . H 5 HOH A 110 710 68 HOH HOH . H 5 HOH A 111 711 31 HOH HOH . H 5 HOH A 112 712 190 HOH HOH . H 5 HOH A 113 713 105 HOH HOH . H 5 HOH A 114 714 237 HOH HOH . H 5 HOH A 115 715 113 HOH HOH . H 5 HOH A 116 716 149 HOH HOH . H 5 HOH A 117 717 61 HOH HOH . H 5 HOH A 118 718 129 HOH HOH . H 5 HOH A 119 719 33 HOH HOH . H 5 HOH A 120 720 152 HOH HOH . H 5 HOH A 121 721 37 HOH HOH . H 5 HOH A 122 722 115 HOH HOH . H 5 HOH A 123 723 121 HOH HOH . H 5 HOH A 124 724 98 HOH HOH . H 5 HOH A 125 725 40 HOH HOH . H 5 HOH A 126 726 104 HOH HOH . H 5 HOH A 127 727 294 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 OCT . . . G 4 47.425 42.935 -1.435 1 53.58 ? C1 OCT 506 A 1 HETATM 2 C C2 OCT . . . G 4 47.138 42.441 -2.849 1 53.85 ? C2 OCT 506 A 1 HETATM 3 C C3 OCT . . . G 4 46.93 40.926 -2.935 1 53.26 ? C3 OCT 506 A 1 HETATM 4 C C4 OCT . . . G 4 46.292 40.425 -4.245 1 51.9 ? C4 OCT 506 A 1 HETATM 5 C C5 OCT . . . G 4 46.71 41.232 -5.465 1 54.46 ? C5 OCT 506 A 1 HETATM 6 C C6 OCT . . . G 4 46.468 40.508 -6.795 1 51.3 ? C6 OCT 506 A 1 HETATM 7 C C7 OCT . . . G 4 46.976 41.383 -7.943 1 52.35 ? C7 OCT 506 A 1 HETATM 8 C C8 OCT . . . G 4 46.461 40.972 -9.314 1 53.4 ? C8 OCT 506 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #