data_7X5O # _model_server_result.job_id sFpUfTFlY2KQDMR3tIS9JQ _model_server_result.datetime_utc '2024-11-01 11:36:34' _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 7x5o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 7X5O # _exptl.entry_id 7X5O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.209 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] _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 7X5O _cell.length_a 126.981 _cell.length_b 126.981 _cell.length_c 170.106 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7X5O _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N N # _chem_comp.formula 'C10 H15 N2 O7 P' _chem_comp.formula_weight 306.209 _chem_comp.id PLG _chem_comp.mon_nstd_flag . _chem_comp.name N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] _chem_comp.type non-polymer _chem_comp.pdbx_synonyms N-PYRIDOXYL-GLYCINE-5-MONOPHOSPHATE # 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 C2 PLG doub 260 n y N1 C6 PLG sing 261 n y C2 C2A PLG sing 262 n n C2 C3 PLG sing 263 n y C2A H2A1 PLG sing 264 n n C2A H2A2 PLG sing 265 n n C2A H2A3 PLG sing 266 n n C3 O3 PLG sing 267 n n C3 C4 PLG doub 268 n y O3 HO3 PLG sing 269 n n C4 C4A PLG sing 270 n n C4 C5 PLG sing 271 n y C4A N PLG sing 272 n n C4A H4A1 PLG sing 273 n n C4A H4A2 PLG sing 274 n n C5 C6 PLG doub 275 n y C5 C5A PLG sing 276 n n C6 H6 PLG sing 277 n n C5A OP4 PLG sing 278 n n C5A H5A1 PLG sing 279 n n C5A H5A2 PLG sing 280 n n OP4 P PLG sing 281 n n P OP1 PLG doub 282 n n P OP2 PLG sing 283 n n P OP3 PLG sing 284 n n OP2 HOP2 PLG sing 285 n n OP3 HOP3 PLG sing 286 n n C O PLG doub 287 n n C OXT PLG sing 288 n n C CA PLG sing 289 n n OXT HXT PLG sing 290 n n CA N PLG sing 291 n n CA HA2 PLG sing 292 n n CA HA1 PLG sing 293 n n N H PLG sing 294 n n # _atom_sites.entry_id 7X5O _atom_sites.fract_transf_matrix[1][1] 0.007875 _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] 0.007875 _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] 0.005879 _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 THH A 1 501 1 THH THH . D 3 PLG A 1 502 1 PLG PLG . E 2 THH A 1 503 1 THH THH . F 2 THH B 1 501 1 THH THH . G 3 PLG B 1 502 1 PLG PLG . H 4 HOH A 1 601 176 HOH HOH . H 4 HOH A 2 602 193 HOH HOH . H 4 HOH A 3 603 114 HOH HOH . H 4 HOH A 4 604 11 HOH HOH . H 4 HOH A 5 605 96 HOH HOH . H 4 HOH A 6 606 189 HOH HOH . H 4 HOH A 7 607 39 HOH HOH . H 4 HOH A 8 608 118 HOH HOH . H 4 HOH A 9 609 172 HOH HOH . H 4 HOH A 10 610 104 HOH HOH . H 4 HOH A 11 611 3 HOH HOH . H 4 HOH A 12 612 92 HOH HOH . H 4 HOH A 13 613 32 HOH HOH . H 4 HOH A 14 614 71 HOH HOH . H 4 HOH A 15 615 175 HOH HOH . H 4 HOH A 16 616 179 HOH HOH . H 4 HOH A 17 617 125 HOH HOH . H 4 HOH A 18 618 147 HOH HOH . H 4 HOH A 19 619 45 HOH HOH . H 4 HOH A 20 620 8 HOH HOH . H 4 HOH A 21 621 2 HOH HOH . H 4 HOH A 22 622 6 HOH HOH . H 4 HOH A 23 623 191 HOH HOH . H 4 HOH A 24 624 13 HOH HOH . H 4 HOH A 25 625 165 HOH HOH . H 4 HOH A 26 626 174 HOH HOH . H 4 HOH A 27 627 162 HOH HOH . H 4 HOH A 28 628 7 HOH HOH . H 4 HOH A 29 629 129 HOH HOH . H 4 HOH A 30 630 36 HOH HOH . H 4 HOH A 31 631 149 HOH HOH . H 4 HOH A 32 632 63 HOH HOH . H 4 HOH A 33 633 139 HOH HOH . H 4 HOH A 34 634 44 HOH HOH . H 4 HOH A 35 635 29 HOH HOH . H 4 HOH A 36 636 30 HOH HOH . H 4 HOH A 37 637 173 HOH HOH . H 4 HOH A 38 638 73 HOH HOH . H 4 HOH A 39 639 49 HOH HOH . H 4 HOH A 40 640 88 HOH HOH . H 4 HOH A 41 641 142 HOH HOH . H 4 HOH A 42 642 22 HOH HOH . H 4 HOH A 43 643 53 HOH HOH . H 4 HOH A 44 644 169 HOH HOH . H 4 HOH A 45 645 16 HOH HOH . H 4 HOH A 46 646 34 HOH HOH . H 4 HOH A 47 647 166 HOH HOH . H 4 HOH A 48 648 144 HOH HOH . H 4 HOH A 49 649 119 HOH HOH . H 4 HOH A 50 650 67 HOH HOH . H 4 HOH A 51 651 164 HOH HOH . H 4 HOH A 52 652 28 HOH HOH . H 4 HOH A 53 653 133 HOH HOH . H 4 HOH A 54 654 79 HOH HOH . H 4 HOH A 55 655 58 HOH HOH . H 4 HOH A 56 656 24 HOH HOH . H 4 HOH A 57 657 137 HOH HOH . H 4 HOH A 58 658 84 HOH HOH . H 4 HOH A 59 659 95 HOH HOH . H 4 HOH A 60 660 86 HOH HOH . H 4 HOH A 61 661 33 HOH HOH . H 4 HOH A 62 662 66 HOH HOH . H 4 HOH A 63 663 98 HOH HOH . H 4 HOH A 64 664 178 HOH HOH . H 4 HOH A 65 665 106 HOH HOH . H 4 HOH A 66 666 141 HOH HOH . H 4 HOH A 67 667 124 HOH HOH . H 4 HOH A 68 668 43 HOH HOH . H 4 HOH A 69 669 60 HOH HOH . H 4 HOH A 70 670 55 HOH HOH . H 4 HOH A 71 671 145 HOH HOH . H 4 HOH A 72 672 37 HOH HOH . H 4 HOH A 73 673 126 HOH HOH . H 4 HOH A 74 674 15 HOH HOH . H 4 HOH A 75 675 177 HOH HOH . H 4 HOH A 76 676 61 HOH HOH . H 4 HOH A 77 677 154 HOH HOH . H 4 HOH A 78 678 51 HOH HOH . H 4 HOH A 79 679 167 HOH HOH . H 4 HOH A 80 680 107 HOH HOH . H 4 HOH A 81 681 112 HOH HOH . H 4 HOH A 82 682 136 HOH HOH . H 4 HOH A 83 683 72 HOH HOH . H 4 HOH A 84 684 54 HOH HOH . H 4 HOH A 85 685 116 HOH HOH . H 4 HOH A 86 686 132 HOH HOH . H 4 HOH A 87 687 196 HOH HOH . H 4 HOH A 88 688 185 HOH HOH . I 4 HOH B 1 601 99 HOH HOH . I 4 HOH B 2 602 4 HOH HOH . I 4 HOH B 3 603 128 HOH HOH . I 4 HOH B 4 604 192 HOH HOH . I 4 HOH B 5 605 101 HOH HOH . I 4 HOH B 6 606 160 HOH HOH . I 4 HOH B 7 607 146 HOH HOH . I 4 HOH B 8 608 68 HOH HOH . I 4 HOH B 9 609 100 HOH HOH . I 4 HOH B 10 610 111 HOH HOH . I 4 HOH B 11 611 5 HOH HOH . I 4 HOH B 12 612 127 HOH HOH . I 4 HOH B 13 613 12 HOH HOH . I 4 HOH B 14 614 62 HOH HOH . I 4 HOH B 15 615 186 HOH HOH . I 4 HOH B 16 616 21 HOH HOH . I 4 HOH B 17 617 183 HOH HOH . I 4 HOH B 18 618 52 HOH HOH . I 4 HOH B 19 619 87 HOH HOH . I 4 HOH B 20 620 1 HOH HOH . I 4 HOH B 21 621 117 HOH HOH . I 4 HOH B 22 622 123 HOH HOH . I 4 HOH B 23 623 122 HOH HOH . I 4 HOH B 24 624 48 HOH HOH . I 4 HOH B 25 625 47 HOH HOH . I 4 HOH B 26 626 138 HOH HOH . I 4 HOH B 27 627 75 HOH HOH . I 4 HOH B 28 628 56 HOH HOH . I 4 HOH B 29 629 89 HOH HOH . I 4 HOH B 30 630 31 HOH HOH . I 4 HOH B 31 631 9 HOH HOH . I 4 HOH B 32 632 50 HOH HOH . I 4 HOH B 33 633 105 HOH HOH . I 4 HOH B 34 634 90 HOH HOH . I 4 HOH B 35 635 109 HOH HOH . I 4 HOH B 36 636 69 HOH HOH . I 4 HOH B 37 637 158 HOH HOH . I 4 HOH B 38 638 161 HOH HOH . I 4 HOH B 39 639 18 HOH HOH . I 4 HOH B 40 640 82 HOH HOH . I 4 HOH B 41 641 194 HOH HOH . I 4 HOH B 42 642 182 HOH HOH . I 4 HOH B 43 643 14 HOH HOH . I 4 HOH B 44 644 187 HOH HOH . I 4 HOH B 45 645 197 HOH HOH . I 4 HOH B 46 646 157 HOH HOH . I 4 HOH B 47 647 76 HOH HOH . I 4 HOH B 48 648 190 HOH HOH . I 4 HOH B 49 649 170 HOH HOH . I 4 HOH B 50 650 103 HOH HOH . I 4 HOH B 51 651 78 HOH HOH . I 4 HOH B 52 652 91 HOH HOH . I 4 HOH B 53 653 148 HOH HOH . I 4 HOH B 54 654 130 HOH HOH . I 4 HOH B 55 655 93 HOH HOH . I 4 HOH B 56 656 77 HOH HOH . I 4 HOH B 57 657 40 HOH HOH . I 4 HOH B 58 658 94 HOH HOH . I 4 HOH B 59 659 41 HOH HOH . I 4 HOH B 60 660 151 HOH HOH . I 4 HOH B 61 661 19 HOH HOH . I 4 HOH B 62 662 65 HOH HOH . I 4 HOH B 63 663 35 HOH HOH . I 4 HOH B 64 664 150 HOH HOH . I 4 HOH B 65 665 42 HOH HOH . I 4 HOH B 66 666 108 HOH HOH . I 4 HOH B 67 667 115 HOH HOH . I 4 HOH B 68 668 102 HOH HOH . I 4 HOH B 69 669 134 HOH HOH . I 4 HOH B 70 670 23 HOH HOH . I 4 HOH B 71 671 135 HOH HOH . I 4 HOH B 72 672 17 HOH HOH . I 4 HOH B 73 673 20 HOH HOH . I 4 HOH B 74 674 46 HOH HOH . I 4 HOH B 75 675 120 HOH HOH . I 4 HOH B 76 676 10 HOH HOH . I 4 HOH B 77 677 184 HOH HOH . I 4 HOH B 78 678 188 HOH HOH . I 4 HOH B 79 679 168 HOH HOH . I 4 HOH B 80 680 38 HOH HOH . I 4 HOH B 81 681 57 HOH HOH . I 4 HOH B 82 682 59 HOH HOH . I 4 HOH B 83 683 97 HOH HOH . I 4 HOH B 84 684 27 HOH HOH . I 4 HOH B 85 685 121 HOH HOH . I 4 HOH B 86 686 131 HOH HOH . I 4 HOH B 87 687 25 HOH HOH . I 4 HOH B 88 688 153 HOH HOH . I 4 HOH B 89 689 85 HOH HOH . I 4 HOH B 90 690 26 HOH HOH . I 4 HOH B 91 691 81 HOH HOH . I 4 HOH B 92 692 152 HOH HOH . I 4 HOH B 93 693 155 HOH HOH . I 4 HOH B 94 694 163 HOH HOH . I 4 HOH B 95 695 159 HOH HOH . I 4 HOH B 96 696 156 HOH HOH . I 4 HOH B 97 697 110 HOH HOH . I 4 HOH B 98 698 83 HOH HOH . I 4 HOH B 99 699 113 HOH HOH . I 4 HOH B 100 700 143 HOH HOH . I 4 HOH B 101 701 195 HOH HOH . I 4 HOH B 102 702 140 HOH HOH . I 4 HOH B 103 703 171 HOH HOH . I 4 HOH B 104 704 80 HOH HOH . I 4 HOH B 105 705 180 HOH HOH . I 4 HOH B 106 706 181 HOH HOH . I 4 HOH B 107 707 74 HOH HOH . I 4 HOH B 108 708 64 HOH HOH . I 4 HOH B 109 709 70 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 N1 PLG . . . D 3 -23.234 -1.374 -30.949 1 44.32 ? N1 PLG 502 A 1 HETATM 2 C C2 PLG . . . D 3 -22.481 -2.424 -31.269 1 44.57 ? C2 PLG 502 A 1 HETATM 3 C C2A PLG . . . D 3 -22.154 -2.658 -32.711 1 40.49 ? C2A PLG 502 A 1 HETATM 4 C C3 PLG . . . D 3 -22.006 -3.287 -30.269 1 46.18 ? C3 PLG 502 A 1 HETATM 5 O O3 PLG . . . D 3 -21.239 -4.359 -30.616 1 48.23 ? O3 PLG 502 A 1 HETATM 6 C C4 PLG . . . D 3 -22.326 -3.035 -28.929 1 48.9 ? C4 PLG 502 A 1 HETATM 7 C C4A PLG . . . D 3 -21.829 -3.934 -27.827 1 44.45 ? C4A PLG 502 A 1 HETATM 8 C C5 PLG . . . D 3 -23.113 -1.915 -28.62 1 46.15 ? C5 PLG 502 A 1 HETATM 9 C C6 PLG . . . D 3 -23.547 -1.128 -29.668 1 42.35 ? C6 PLG 502 A 1 HETATM 10 C C5A PLG . . . D 3 -23.526 -1.627 -27.209 1 46.55 ? C5A PLG 502 A 1 HETATM 11 O OP4 PLG . . . D 3 -22.515 -0.938 -26.412 1 53.65 ? OP4 PLG 502 A 1 HETATM 12 P P PLG . . . D 3 -22.702 -0.957 -24.815 1 47.7 ? P PLG 502 A 1 HETATM 13 O OP1 PLG . . . D 3 -24.132 -0.537 -24.55 1 46.98 ? OP1 PLG 502 A 1 HETATM 14 O OP2 PLG . . . D 3 -22.427 -2.403 -24.433 1 51.78 ? OP2 PLG 502 A 1 HETATM 15 O OP3 PLG . . . D 3 -21.696 0.033 -24.259 1 49.71 ? OP3 PLG 502 A 1 HETATM 16 C C PLG . . . D 3 -19.952 -7.194 -27.803 1 51.65 ? C PLG 502 A 1 HETATM 17 O O PLG . . . D 3 -19.889 -7.283 -29.05 1 47.52 ? O PLG 502 A 1 HETATM 18 O OXT PLG . . . D 3 -19.507 -8.029 -26.984 1 48.88 ? OXT PLG 502 A 1 HETATM 19 C CA PLG . . . D 3 -20.629 -5.951 -27.235 1 45.32 ? CA PLG 502 A 1 HETATM 20 N N PLG . . . D 3 -21.106 -5.099 -28.318 1 47.65 ? N PLG 502 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 39 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 20 #