data_8XHA # _model_server_result.job_id ybyo1aFda2zSP3u5QNq4-A _model_server_result.datetime_utc '2024-10-31 01:30:47' _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 8xha # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8XHA # _exptl.entry_id 8XHA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 378.272 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-glutamic 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 8XHA _cell.length_a 117.369 _cell.length_b 117.369 _cell.length_c 145.106 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8XHA _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 # _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C13 H19 N2 O9 P' _chem_comp.formula_weight 378.272 _chem_comp.id PGU _chem_comp.mon_nstd_flag . _chem_comp.name 'N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-glutamic 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 O1P P PGU doub 237 n n CA CB PGU sing 238 n n CA C PGU sing 239 n n CA N PGU sing 240 n n OXT C PGU doub 241 n n CB CG PGU sing 242 n n O2P P PGU sing 243 n n C O PGU sing 244 n n C4A N PGU sing 245 n n C4A C4 PGU sing 246 n n O3 C3 PGU sing 247 n n P O4P PGU sing 248 n n P O3P PGU sing 249 n n O4P C5A PGU sing 250 n n C3 C4 PGU doub 251 n y C3 C2 PGU sing 252 n y C4 C5 PGU sing 253 n y CG CD PGU sing 254 n n C2 C2A PGU sing 255 n n C2 N1 PGU doub 256 n y C5 C5A PGU sing 257 n n C5 C6 PGU doub 258 n y N1 C6 PGU sing 259 n y CD OE2 PGU doub 260 n n CD OE1 PGU sing 261 n n C2A H2A1 PGU sing 262 n n C2A H2A2 PGU sing 263 n n C2A H2A3 PGU sing 264 n n O3 HO3 PGU sing 265 n n C4A H4A1 PGU sing 266 n n C4A H4A2 PGU sing 267 n n C6 H6 PGU sing 268 n n C5A H5A1 PGU sing 269 n n C5A H5A2 PGU sing 270 n n O2P HO2P PGU sing 271 n n O3P HO3P PGU sing 272 n n N HN PGU sing 273 n n CA HA PGU sing 274 n n CB HB1 PGU sing 275 n n CB HB2 PGU sing 276 n n CG HG1 PGU sing 277 n n CG HG2 PGU sing 278 n n OE1 HOE1 PGU sing 279 n n O HO PGU sing 280 n n # _atom_sites.entry_id 8XHA _atom_sites.fract_transf_matrix[1][1] 0.00852 _atom_sites.fract_transf_matrix[1][2] 0.004919 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009838 _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] 0.006892 _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 PGU A 1 501 501 PGU PGU . D 3 PLP B 1 501 501 PLP PLP . E 4 HOH A 1 601 64 HOH HOH . E 4 HOH A 2 602 39 HOH HOH . E 4 HOH A 3 603 84 HOH HOH . E 4 HOH A 4 604 4 HOH HOH . E 4 HOH A 5 605 126 HOH HOH . E 4 HOH A 6 606 123 HOH HOH . E 4 HOH A 7 607 16 HOH HOH . E 4 HOH A 8 608 139 HOH HOH . E 4 HOH A 9 609 45 HOH HOH . E 4 HOH A 10 610 97 HOH HOH . E 4 HOH A 11 611 59 HOH HOH . E 4 HOH A 12 612 7 HOH HOH . E 4 HOH A 13 613 75 HOH HOH . E 4 HOH A 14 614 56 HOH HOH . E 4 HOH A 15 615 57 HOH HOH . E 4 HOH A 16 616 26 HOH HOH . E 4 HOH A 17 617 67 HOH HOH . E 4 HOH A 18 618 52 HOH HOH . E 4 HOH A 19 619 34 HOH HOH . E 4 HOH A 20 620 23 HOH HOH . E 4 HOH A 21 621 81 HOH HOH . E 4 HOH A 22 622 33 HOH HOH . E 4 HOH A 23 623 91 HOH HOH . E 4 HOH A 24 624 18 HOH HOH . E 4 HOH A 25 625 117 HOH HOH . E 4 HOH A 26 626 76 HOH HOH . E 4 HOH A 27 627 28 HOH HOH . E 4 HOH A 28 628 15 HOH HOH . E 4 HOH A 29 629 3 HOH HOH . E 4 HOH A 30 630 27 HOH HOH . E 4 HOH A 31 631 98 HOH HOH . E 4 HOH A 32 632 68 HOH HOH . E 4 HOH A 33 633 11 HOH HOH . E 4 HOH A 34 634 37 HOH HOH . E 4 HOH A 35 635 10 HOH HOH . E 4 HOH A 36 636 104 HOH HOH . E 4 HOH A 37 637 90 HOH HOH . E 4 HOH A 38 638 55 HOH HOH . E 4 HOH A 39 639 32 HOH HOH . E 4 HOH A 40 640 78 HOH HOH . E 4 HOH A 41 641 112 HOH HOH . E 4 HOH A 42 642 122 HOH HOH . E 4 HOH A 43 643 36 HOH HOH . E 4 HOH A 44 644 121 HOH HOH . E 4 HOH A 45 645 127 HOH HOH . E 4 HOH A 46 646 66 HOH HOH . E 4 HOH A 47 647 72 HOH HOH . E 4 HOH A 48 648 60 HOH HOH . E 4 HOH A 49 649 30 HOH HOH . E 4 HOH A 50 650 86 HOH HOH . E 4 HOH A 51 651 133 HOH HOH . E 4 HOH A 52 652 124 HOH HOH . E 4 HOH A 53 653 103 HOH HOH . E 4 HOH A 54 654 87 HOH HOH . E 4 HOH A 55 655 93 HOH HOH . E 4 HOH A 56 656 63 HOH HOH . E 4 HOH A 57 657 101 HOH HOH . E 4 HOH A 58 658 109 HOH HOH . E 4 HOH A 59 659 102 HOH HOH . E 4 HOH A 60 660 58 HOH HOH . E 4 HOH A 61 661 115 HOH HOH . E 4 HOH A 62 662 107 HOH HOH . E 4 HOH A 63 663 106 HOH HOH . E 4 HOH A 64 664 113 HOH HOH . E 4 HOH A 65 665 83 HOH HOH . E 4 HOH A 66 666 141 HOH HOH . E 4 HOH A 67 667 92 HOH HOH . E 4 HOH A 68 668 110 HOH HOH . E 4 HOH A 69 669 138 HOH HOH . E 4 HOH A 70 670 82 HOH HOH . E 4 HOH A 71 671 134 HOH HOH . E 4 HOH A 72 672 132 HOH HOH . E 4 HOH A 73 673 128 HOH HOH . E 4 HOH A 74 674 136 HOH HOH . E 4 HOH A 75 675 8 HOH HOH . E 4 HOH A 76 676 96 HOH HOH . E 4 HOH A 77 677 69 HOH HOH . F 4 HOH B 1 601 54 HOH HOH . F 4 HOH B 2 602 89 HOH HOH . F 4 HOH B 3 603 129 HOH HOH . F 4 HOH B 4 604 17 HOH HOH . F 4 HOH B 5 605 5 HOH HOH . F 4 HOH B 6 606 43 HOH HOH . F 4 HOH B 7 607 29 HOH HOH . F 4 HOH B 8 608 85 HOH HOH . F 4 HOH B 9 609 118 HOH HOH . F 4 HOH B 10 610 9 HOH HOH . F 4 HOH B 11 611 21 HOH HOH . F 4 HOH B 12 612 79 HOH HOH . F 4 HOH B 13 613 47 HOH HOH . F 4 HOH B 14 614 12 HOH HOH . F 4 HOH B 15 615 6 HOH HOH . F 4 HOH B 16 616 13 HOH HOH . F 4 HOH B 17 617 41 HOH HOH . F 4 HOH B 18 618 42 HOH HOH . F 4 HOH B 19 619 22 HOH HOH . F 4 HOH B 20 620 88 HOH HOH . F 4 HOH B 21 621 95 HOH HOH . F 4 HOH B 22 622 116 HOH HOH . F 4 HOH B 23 623 40 HOH HOH . F 4 HOH B 24 624 119 HOH HOH . F 4 HOH B 25 625 62 HOH HOH . F 4 HOH B 26 626 49 HOH HOH . F 4 HOH B 27 627 19 HOH HOH . F 4 HOH B 28 628 14 HOH HOH . F 4 HOH B 29 629 2 HOH HOH . F 4 HOH B 30 630 71 HOH HOH . F 4 HOH B 31 631 20 HOH HOH . F 4 HOH B 32 632 53 HOH HOH . F 4 HOH B 33 633 24 HOH HOH . F 4 HOH B 34 634 65 HOH HOH . F 4 HOH B 35 635 77 HOH HOH . F 4 HOH B 36 636 50 HOH HOH . F 4 HOH B 37 637 108 HOH HOH . F 4 HOH B 38 638 80 HOH HOH . F 4 HOH B 39 639 48 HOH HOH . F 4 HOH B 40 640 25 HOH HOH . F 4 HOH B 41 641 51 HOH HOH . F 4 HOH B 42 642 31 HOH HOH . F 4 HOH B 43 643 100 HOH HOH . F 4 HOH B 44 644 38 HOH HOH . F 4 HOH B 45 645 46 HOH HOH . F 4 HOH B 46 646 140 HOH HOH . F 4 HOH B 47 647 74 HOH HOH . F 4 HOH B 48 648 135 HOH HOH . F 4 HOH B 49 649 137 HOH HOH . F 4 HOH B 50 650 35 HOH HOH . F 4 HOH B 51 651 125 HOH HOH . F 4 HOH B 52 652 44 HOH HOH . F 4 HOH B 53 653 130 HOH HOH . F 4 HOH B 54 654 131 HOH HOH . F 4 HOH B 55 655 99 HOH HOH . F 4 HOH B 56 656 111 HOH HOH . F 4 HOH B 57 657 61 HOH HOH . F 4 HOH B 58 658 94 HOH HOH . F 4 HOH B 59 659 70 HOH HOH . F 4 HOH B 60 660 1 HOH HOH . F 4 HOH B 61 661 73 HOH HOH . F 4 HOH B 62 662 105 HOH HOH . F 4 HOH B 63 663 114 HOH HOH . F 4 HOH B 64 664 120 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 PGU . . . C 2 37.567 -23.785 -5.545 1 47.78 ? N1 PGU 501 A 1 HETATM 2 C C2 PGU . . . C 2 37.016 -24.971 -5.251 1 46.83 ? C2 PGU 501 A 1 HETATM 3 C C2A PGU . . . C 2 36.115 -25.059 -4.024 1 47.57 ? C2A PGU 501 A 1 HETATM 4 C C3 PGU . . . C 2 37.281 -26.07 -6.07 1 50.39 ? C3 PGU 501 A 1 HETATM 5 O O3 PGU . . . C 2 36.717 -27.315 -5.773 1 46.44 ? O3 PGU 501 A 1 HETATM 6 C C4 PGU . . . C 2 38.105 -25.915 -7.153 1 49.75 ? C4 PGU 501 A 1 HETATM 7 C C4A PGU . . . C 2 38.431 -27.073 -8.096 1 49.27 ? C4A PGU 501 A 1 HETATM 8 C C5 PGU . . . C 2 38.656 -24.699 -7.427 1 45.65 ? C5 PGU 501 A 1 HETATM 9 C C6 PGU . . . C 2 38.371 -23.631 -6.608 1 46.76 ? C6 PGU 501 A 1 HETATM 10 C C5A PGU . . . C 2 39.578 -24.472 -8.629 1 46.32 ? C5A PGU 501 A 1 HETATM 11 O O4P PGU . . . C 2 38.756 -24.074 -9.694 1 47.72 ? O4P PGU 501 A 1 HETATM 12 P P PGU . . . C 2 39.395 -23.656 -11.144 1 49.3 ? P PGU 501 A 1 HETATM 13 O O1P PGU . . . C 2 39.389 -24.844 -12.075 1 46.58 ? O1P PGU 501 A 1 HETATM 14 O O2P PGU . . . C 2 38.559 -22.577 -11.763 1 44.94 ? O2P PGU 501 A 1 HETATM 15 O O3P PGU . . . C 2 40.813 -23.187 -10.969 1 42.82 ? O3P PGU 501 A 1 HETATM 16 N N PGU . . . C 2 37.831 -28.318 -7.683 1 51.39 ? N PGU 501 A 1 HETATM 17 C CA PGU . . . C 2 37.44 -29.038 -8.874 1 55.3 ? CA PGU 501 A 1 HETATM 18 C CB PGU . . . C 2 38.665 -29.513 -9.667 1 47.94 ? CB PGU 501 A 1 HETATM 19 C CG PGU . . . C 2 38.21 -29.085 -11.063 1 47.33 ? CG PGU 501 A 1 HETATM 20 C CD PGU . . . C 2 39.108 -29.44 -12.233 1 46.01 ? CD PGU 501 A 1 HETATM 21 O OE1 PGU . . . C 2 40.314 -29.77 -12.08 1 45.57 ? OE1 PGU 501 A 1 HETATM 22 O OE2 PGU . . . C 2 38.593 -29.383 -13.378 1 46.35 ? OE2 PGU 501 A 1 HETATM 23 C C PGU . . . C 2 36.52 -30.202 -8.481 1 51.66 ? C PGU 501 A 1 HETATM 24 O O PGU . . . C 2 35.328 -29.919 -8.234 1 52.53 ? O PGU 501 A 1 HETATM 25 O OXT PGU . . . C 2 36.897 -31.4 -8.384 1 54.53 ? OXT PGU 501 A 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 25 #