data_5TV6 # _model_server_result.job_id dEtRbbXxwEfeYMnJ47k2jw _model_server_result.datetime_utc '2024-11-23 21:58:07' _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 5tv6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 5TV6 # _exptl.entry_id 5TV6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 160.168 _entity.id 2 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'PIMELIC ACID' _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 90 _cell.angle_gamma 90 _cell.entry_id 5TV6 _cell.length_a 68.486 _cell.length_b 103.194 _cell.length_c 113.805 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TV6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 ? 2 C N N ? 2 D 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 disulf ? disulf1 A SG CYS 173 A CYS 173 1_555 A SG CYS 230 A CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf2 B SG CYS 173 B CYS 173 1_555 B SG CYS 230 B CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? covale ? covale1 A C ARG 7 A ARG 7 1_555 A N MSE 8 A MSE 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C MSE 8 A MSE 8 1_555 A N ARG 9 A ARG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 A C PHE 45 A PHE 45 1_555 A N MSE 46 A MSE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale4 A C MSE 46 A MSE 46 1_555 A N ASN 47 A ASN 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 A C ASN 111 A ASN 111 1_555 A N MSE 112 A MSE 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C MSE 112 A MSE 112 1_555 A N ARG 113 A ARG 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 A C LEU 117 A LEU 117 1_555 A N MSE 118 A MSE 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 A C MSE 118 A MSE 118 1_555 A N ASP 119 A ASP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 B C ARG 7 B ARG 7 1_555 B N MSE 8 B MSE 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale10 B C MSE 8 B MSE 8 1_555 B N ARG 9 B ARG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale11 B C PHE 45 B PHE 45 1_555 B N MSE 46 B MSE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale12 B C MSE 46 B MSE 46 1_555 B N ASN 47 B ASN 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale13 B C ASN 111 B ASN 111 1_555 B N MSE 112 B MSE 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale14 B C MSE 112 B MSE 112 1_555 B N ARG 113 B ARG 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale15 B C LEU 117 B LEU 117 1_555 B N MSE 118 B MSE 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale16 B C MSE 118 B MSE 118 1_555 B N ASP 119 B ASP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? # _chem_comp.formula 'C7 H12 O4' _chem_comp.formula_weight 160.168 _chem_comp.id PML _chem_comp.mon_nstd_flag . _chem_comp.name 'PIMELIC ACID' _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 O11 PML doub 260 n n C1 O12 PML sing 261 n n C1 C2 PML sing 262 n n O12 H12 PML sing 263 n n C2 C3 PML sing 264 n n C2 HC21 PML sing 265 n n C2 HC22 PML sing 266 n n C3 C4 PML sing 267 n n C3 HC31 PML sing 268 n n C3 HC32 PML sing 269 n n C4 C5 PML sing 270 n n C4 HC41 PML sing 271 n n C4 HC42 PML sing 272 n n C5 C6 PML sing 273 n n C5 HC51 PML sing 274 n n C5 HC52 PML sing 275 n n C6 C7 PML sing 276 n n C6 HC61 PML sing 277 n n C6 HC62 PML sing 278 n n C7 O71 PML doub 279 n n C7 O72 PML sing 280 n n O72 H72 PML sing 281 n n # _atom_sites.entry_id 5TV6 _atom_sites.fract_transf_matrix[1][1] 0.014602 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00969 _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] 0.008787 _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 C 2 PML A 1 500 500 PML PML . D 2 PML B 1 500 500 PML PML . E 3 HOH A 1 601 169 HOH HOH . E 3 HOH A 2 602 135 HOH HOH . E 3 HOH A 3 603 41 HOH HOH . E 3 HOH A 4 604 18 HOH HOH . E 3 HOH A 5 605 150 HOH HOH . E 3 HOH A 6 606 16 HOH HOH . E 3 HOH A 7 607 35 HOH HOH . E 3 HOH A 8 608 2 HOH HOH . E 3 HOH A 9 609 29 HOH HOH . E 3 HOH A 10 610 64 HOH HOH . E 3 HOH A 11 611 50 HOH HOH . E 3 HOH A 12 612 66 HOH HOH . E 3 HOH A 13 613 19 HOH HOH . E 3 HOH A 14 614 123 HOH HOH . E 3 HOH A 15 615 73 HOH HOH . E 3 HOH A 16 616 7 HOH HOH . E 3 HOH A 17 617 42 HOH HOH . E 3 HOH A 18 618 127 HOH HOH . E 3 HOH A 19 619 148 HOH HOH . E 3 HOH A 20 620 48 HOH HOH . E 3 HOH A 21 621 37 HOH HOH . E 3 HOH A 22 622 46 HOH HOH . E 3 HOH A 23 623 182 HOH HOH . E 3 HOH A 24 624 57 HOH HOH . E 3 HOH A 25 625 132 HOH HOH . E 3 HOH A 26 626 124 HOH HOH . E 3 HOH A 27 627 151 HOH HOH . E 3 HOH A 28 628 11 HOH HOH . E 3 HOH A 29 629 107 HOH HOH . E 3 HOH A 30 630 45 HOH HOH . E 3 HOH A 31 631 63 HOH HOH . E 3 HOH A 32 632 126 HOH HOH . E 3 HOH A 33 633 52 HOH HOH . E 3 HOH A 34 634 90 HOH HOH . E 3 HOH A 35 635 136 HOH HOH . E 3 HOH A 36 636 80 HOH HOH . E 3 HOH A 37 637 163 HOH HOH . E 3 HOH A 38 638 180 HOH HOH . E 3 HOH A 39 639 108 HOH HOH . E 3 HOH A 40 640 171 HOH HOH . E 3 HOH A 41 641 38 HOH HOH . E 3 HOH A 42 642 122 HOH HOH . F 3 HOH B 1 601 70 HOH HOH . F 3 HOH B 2 602 69 HOH HOH . F 3 HOH B 3 603 118 HOH HOH . F 3 HOH B 4 604 158 HOH HOH . F 3 HOH B 5 605 87 HOH HOH . F 3 HOH B 6 606 44 HOH HOH . F 3 HOH B 7 607 176 HOH HOH . F 3 HOH B 8 608 101 HOH HOH . F 3 HOH B 9 609 96 HOH HOH . F 3 HOH B 10 610 143 HOH HOH . F 3 HOH B 11 611 104 HOH HOH . F 3 HOH B 12 612 88 HOH HOH . F 3 HOH B 13 613 33 HOH HOH . F 3 HOH B 14 614 26 HOH HOH . F 3 HOH B 15 615 51 HOH HOH . F 3 HOH B 16 616 95 HOH HOH . F 3 HOH B 17 617 12 HOH HOH . F 3 HOH B 18 618 55 HOH HOH . F 3 HOH B 19 619 5 HOH HOH . F 3 HOH B 20 620 111 HOH HOH . F 3 HOH B 21 621 15 HOH HOH . F 3 HOH B 22 622 97 HOH HOH . F 3 HOH B 23 623 141 HOH HOH . F 3 HOH B 24 624 1 HOH HOH . F 3 HOH B 25 625 82 HOH HOH . F 3 HOH B 26 626 125 HOH HOH . F 3 HOH B 27 627 85 HOH HOH . F 3 HOH B 28 628 100 HOH HOH . F 3 HOH B 29 629 133 HOH HOH . F 3 HOH B 30 630 165 HOH HOH . F 3 HOH B 31 631 27 HOH HOH . F 3 HOH B 32 632 23 HOH HOH . F 3 HOH B 33 633 65 HOH HOH . F 3 HOH B 34 634 17 HOH HOH . F 3 HOH B 35 635 60 HOH HOH . F 3 HOH B 36 636 142 HOH HOH . F 3 HOH B 37 637 39 HOH HOH . F 3 HOH B 38 638 62 HOH HOH . F 3 HOH B 39 639 30 HOH HOH . F 3 HOH B 40 640 140 HOH HOH . F 3 HOH B 41 641 175 HOH HOH . F 3 HOH B 42 642 131 HOH HOH . F 3 HOH B 43 643 9 HOH HOH . F 3 HOH B 44 644 114 HOH HOH . F 3 HOH B 45 645 94 HOH HOH . F 3 HOH B 46 646 61 HOH HOH . F 3 HOH B 47 647 6 HOH HOH . F 3 HOH B 48 648 49 HOH HOH . F 3 HOH B 49 649 105 HOH HOH . F 3 HOH B 50 650 25 HOH HOH . F 3 HOH B 51 651 103 HOH HOH . F 3 HOH B 52 652 86 HOH HOH . F 3 HOH B 53 653 53 HOH HOH . F 3 HOH B 54 654 14 HOH HOH . F 3 HOH B 55 655 134 HOH HOH . F 3 HOH B 56 656 3 HOH HOH . F 3 HOH B 57 657 20 HOH HOH . F 3 HOH B 58 658 112 HOH HOH . F 3 HOH B 59 659 68 HOH HOH . F 3 HOH B 60 660 40 HOH HOH . F 3 HOH B 61 661 174 HOH HOH . F 3 HOH B 62 662 119 HOH HOH . F 3 HOH B 63 663 36 HOH HOH . F 3 HOH B 64 664 67 HOH HOH . F 3 HOH B 65 665 22 HOH HOH . F 3 HOH B 66 666 157 HOH HOH . F 3 HOH B 67 667 164 HOH HOH . F 3 HOH B 68 668 71 HOH HOH . F 3 HOH B 69 669 147 HOH HOH . F 3 HOH B 70 670 149 HOH HOH . F 3 HOH B 71 671 21 HOH HOH . F 3 HOH B 72 672 146 HOH HOH . F 3 HOH B 73 673 120 HOH HOH . F 3 HOH B 74 674 139 HOH HOH . F 3 HOH B 75 675 92 HOH HOH . F 3 HOH B 76 676 99 HOH HOH . F 3 HOH B 77 677 184 HOH HOH . F 3 HOH B 78 678 77 HOH HOH . F 3 HOH B 79 679 58 HOH HOH . F 3 HOH B 80 680 116 HOH HOH . F 3 HOH B 81 681 56 HOH HOH . F 3 HOH B 82 682 109 HOH HOH . F 3 HOH B 83 683 47 HOH HOH . F 3 HOH B 84 684 113 HOH HOH . F 3 HOH B 85 685 178 HOH HOH . F 3 HOH B 86 686 8 HOH HOH . F 3 HOH B 87 687 168 HOH HOH . F 3 HOH B 88 688 54 HOH HOH . F 3 HOH B 89 689 74 HOH HOH . F 3 HOH B 90 690 117 HOH HOH . F 3 HOH B 91 691 172 HOH HOH . F 3 HOH B 92 692 32 HOH HOH . F 3 HOH B 93 693 102 HOH HOH . F 3 HOH B 94 694 31 HOH HOH . F 3 HOH B 95 695 13 HOH HOH . F 3 HOH B 96 696 43 HOH HOH . F 3 HOH B 97 697 4 HOH HOH . F 3 HOH B 98 698 115 HOH HOH . F 3 HOH B 99 699 129 HOH HOH . F 3 HOH B 100 700 153 HOH HOH . F 3 HOH B 101 701 152 HOH HOH . F 3 HOH B 102 702 76 HOH HOH . F 3 HOH B 103 703 138 HOH HOH . F 3 HOH B 104 704 93 HOH HOH . F 3 HOH B 105 705 28 HOH HOH . F 3 HOH B 106 706 145 HOH HOH . F 3 HOH B 107 707 130 HOH HOH . F 3 HOH B 108 708 110 HOH HOH . F 3 HOH B 109 709 137 HOH HOH . F 3 HOH B 110 710 161 HOH HOH . F 3 HOH B 111 711 81 HOH HOH . F 3 HOH B 112 712 78 HOH HOH . F 3 HOH B 113 713 89 HOH HOH . F 3 HOH B 114 714 75 HOH HOH . F 3 HOH B 115 715 156 HOH HOH . F 3 HOH B 116 716 160 HOH HOH . F 3 HOH B 117 717 24 HOH HOH . F 3 HOH B 118 718 34 HOH HOH . F 3 HOH B 119 719 154 HOH HOH . F 3 HOH B 120 720 72 HOH HOH . F 3 HOH B 121 721 91 HOH HOH . F 3 HOH B 122 722 10 HOH HOH . F 3 HOH B 123 723 59 HOH HOH . F 3 HOH B 124 724 167 HOH HOH . F 3 HOH B 125 725 106 HOH HOH . F 3 HOH B 126 726 79 HOH HOH . F 3 HOH B 127 727 98 HOH HOH . F 3 HOH B 128 728 177 HOH HOH . F 3 HOH B 129 729 84 HOH HOH . F 3 HOH B 130 730 173 HOH HOH . F 3 HOH B 131 731 128 HOH HOH . F 3 HOH B 132 732 144 HOH HOH . F 3 HOH B 133 733 179 HOH HOH . F 3 HOH B 134 734 162 HOH HOH . F 3 HOH B 135 735 181 HOH HOH . F 3 HOH B 136 736 170 HOH HOH . F 3 HOH B 137 737 155 HOH HOH . F 3 HOH B 138 738 166 HOH HOH . F 3 HOH B 139 739 183 HOH HOH . F 3 HOH B 140 740 121 HOH HOH . F 3 HOH B 141 741 159 HOH HOH . F 3 HOH B 142 742 83 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 PML . . . C 2 10.257 7.807 20.564 1 54.97 ? C1 PML 500 A 1 HETATM 2 O O11 PML . . . C 2 11.167 8.677 20.68 1 55.89 ? O11 PML 500 A 1 HETATM 3 O O12 PML . . . C 2 9.954 7.042 21.533 1 53.93 ? O12 PML 500 A 1 HETATM 4 C C2 PML . . . C 2 9.531 7.676 19.227 1 46.81 ? C2 PML 500 A 1 HETATM 5 C C3 PML . . . C 2 9.535 6.219 18.784 1 47 ? C3 PML 500 A 1 HETATM 6 C C4 PML . . . C 2 9.26 6.063 17.301 1 44.25 ? C4 PML 500 A 1 HETATM 7 C C5 PML . . . C 2 7.773 5.904 17.033 1 40.19 ? C5 PML 500 A 1 HETATM 8 C C6 PML . . . C 2 7.603 4.901 15.902 1 41.12 ? C6 PML 500 A 1 HETATM 9 C C7 PML . . . C 2 6.17 4.382 15.813 1 37.38 ? C7 PML 500 A 1 HETATM 10 O O71 PML . . . C 2 5.335 5.053 15.16 1 33.35 ? O71 PML 500 A 1 HETATM 11 O O72 PML . . . C 2 5.84 3.302 16.376 1 33.34 ? O72 PML 500 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 11 #