data_5T4J # _model_server_result.job_id cxoVVsaO53TDXKnUfts1Xg _model_server_result.datetime_utc '2024-11-14 21:07:22' _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 5t4j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 5T4J # _exptl.entry_id 5T4J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _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 90 _cell.entry_id 5T4J _cell.length_a 92.364 _cell.length_b 128.894 _cell.length_c 65.096 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5T4J _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_555 x,-y,-z 1 0 0 0 -1 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id C4A _struct_conn.ptnr1_label_comp_id PLP _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id PLP _struct_conn.ptnr1_auth_seq_id 501 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id N _struct_conn.ptnr2_label_comp_id ABU _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id ABU _struct_conn.ptnr2_auth_seq_id 502 _struct_conn.ptnr2_symmetry 1_555 _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 1.318 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 PLP doub 275 n y N1 C6 PLP sing 276 n y C2 C2A PLP sing 277 n n C2 C3 PLP sing 278 n y C2A H2A1 PLP sing 279 n n C2A H2A2 PLP sing 280 n n C2A H2A3 PLP sing 281 n n C3 O3 PLP sing 282 n n C3 C4 PLP doub 283 n y O3 HO3 PLP sing 284 n n C4 C4A PLP sing 285 n n C4 C5 PLP sing 286 n y C4A O4A PLP doub 287 n n C4A H4A PLP sing 288 n n C5 C6 PLP doub 289 n y C5 C5A PLP sing 290 n n C6 H6 PLP sing 291 n n C5A O4P PLP sing 292 n n C5A H5A1 PLP sing 293 n n C5A H5A2 PLP sing 294 n n O4P P PLP sing 295 n n P O1P PLP doub 296 n n P O2P PLP sing 297 n n P O3P PLP sing 298 n n O2P HOP2 PLP sing 299 n n O3P HOP3 PLP sing 300 n n # _atom_sites.entry_id 5T4J _atom_sites.fract_transf_matrix[1][1] 0.010827 _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] 0.007758 _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] 0.015362 _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 PLP B 1 501 1456 PLP PLP . C 3 ABU B 1 502 1457 ABU ABU . D 4 HOH B 1 601 56 HOH HOH . D 4 HOH B 2 602 126 HOH HOH . D 4 HOH B 3 603 136 HOH HOH . D 4 HOH B 4 604 9 HOH HOH . D 4 HOH B 5 605 16 HOH HOH . D 4 HOH B 6 606 77 HOH HOH . D 4 HOH B 7 607 79 HOH HOH . D 4 HOH B 8 608 64 HOH HOH . D 4 HOH B 9 609 62 HOH HOH . D 4 HOH B 10 610 71 HOH HOH . D 4 HOH B 11 611 93 HOH HOH . D 4 HOH B 12 612 42 HOH HOH . D 4 HOH B 13 613 129 HOH HOH . D 4 HOH B 14 614 61 HOH HOH . D 4 HOH B 15 615 12 HOH HOH . D 4 HOH B 16 616 88 HOH HOH . D 4 HOH B 17 617 5 HOH HOH . D 4 HOH B 18 618 8 HOH HOH . D 4 HOH B 19 619 24 HOH HOH . D 4 HOH B 20 620 14 HOH HOH . D 4 HOH B 21 621 28 HOH HOH . D 4 HOH B 22 622 10 HOH HOH . D 4 HOH B 23 623 30 HOH HOH . D 4 HOH B 24 624 35 HOH HOH . D 4 HOH B 25 625 29 HOH HOH . D 4 HOH B 26 626 51 HOH HOH . D 4 HOH B 27 627 131 HOH HOH . D 4 HOH B 28 628 112 HOH HOH . D 4 HOH B 29 629 3 HOH HOH . D 4 HOH B 30 630 67 HOH HOH . D 4 HOH B 31 631 13 HOH HOH . D 4 HOH B 32 632 69 HOH HOH . D 4 HOH B 33 633 98 HOH HOH . D 4 HOH B 34 634 19 HOH HOH . D 4 HOH B 35 635 40 HOH HOH . D 4 HOH B 36 636 78 HOH HOH . D 4 HOH B 37 637 73 HOH HOH . D 4 HOH B 38 638 91 HOH HOH . D 4 HOH B 39 639 33 HOH HOH . D 4 HOH B 40 640 57 HOH HOH . D 4 HOH B 41 641 90 HOH HOH . D 4 HOH B 42 642 1 HOH HOH . D 4 HOH B 43 643 22 HOH HOH . D 4 HOH B 44 644 53 HOH HOH . D 4 HOH B 45 645 25 HOH HOH . D 4 HOH B 46 646 45 HOH HOH . D 4 HOH B 47 647 81 HOH HOH . D 4 HOH B 48 648 27 HOH HOH . D 4 HOH B 49 649 97 HOH HOH . D 4 HOH B 50 650 20 HOH HOH . D 4 HOH B 51 651 31 HOH HOH . D 4 HOH B 52 652 74 HOH HOH . D 4 HOH B 53 653 96 HOH HOH . D 4 HOH B 54 654 130 HOH HOH . D 4 HOH B 55 655 2 HOH HOH . D 4 HOH B 56 656 48 HOH HOH . D 4 HOH B 57 657 32 HOH HOH . D 4 HOH B 58 658 18 HOH HOH . D 4 HOH B 59 659 59 HOH HOH . D 4 HOH B 60 660 38 HOH HOH . D 4 HOH B 61 661 75 HOH HOH . D 4 HOH B 62 662 76 HOH HOH . D 4 HOH B 63 663 41 HOH HOH . D 4 HOH B 64 664 6 HOH HOH . D 4 HOH B 65 665 26 HOH HOH . D 4 HOH B 66 666 17 HOH HOH . D 4 HOH B 67 667 4 HOH HOH . D 4 HOH B 68 668 11 HOH HOH . D 4 HOH B 69 669 105 HOH HOH . D 4 HOH B 70 670 65 HOH HOH . D 4 HOH B 71 671 132 HOH HOH . D 4 HOH B 72 672 101 HOH HOH . D 4 HOH B 73 673 87 HOH HOH . D 4 HOH B 74 674 58 HOH HOH . D 4 HOH B 75 675 68 HOH HOH . D 4 HOH B 76 676 7 HOH HOH . D 4 HOH B 77 677 49 HOH HOH . D 4 HOH B 78 678 55 HOH HOH . D 4 HOH B 79 679 46 HOH HOH . D 4 HOH B 80 680 113 HOH HOH . D 4 HOH B 81 681 60 HOH HOH . D 4 HOH B 82 682 37 HOH HOH . D 4 HOH B 83 683 72 HOH HOH . D 4 HOH B 84 684 44 HOH HOH . D 4 HOH B 85 685 85 HOH HOH . D 4 HOH B 86 686 43 HOH HOH . D 4 HOH B 87 687 36 HOH HOH . D 4 HOH B 88 688 47 HOH HOH . D 4 HOH B 89 689 133 HOH HOH . D 4 HOH B 90 690 82 HOH HOH . D 4 HOH B 91 691 108 HOH HOH . D 4 HOH B 92 692 63 HOH HOH . D 4 HOH B 93 693 54 HOH HOH . D 4 HOH B 94 694 127 HOH HOH . D 4 HOH B 95 695 110 HOH HOH . D 4 HOH B 96 696 86 HOH HOH . D 4 HOH B 97 697 100 HOH HOH . D 4 HOH B 98 698 84 HOH HOH . D 4 HOH B 99 699 15 HOH HOH . D 4 HOH B 100 700 80 HOH HOH . D 4 HOH B 101 701 23 HOH HOH . D 4 HOH B 102 702 66 HOH HOH . D 4 HOH B 103 703 95 HOH HOH . D 4 HOH B 104 704 83 HOH HOH . D 4 HOH B 105 705 21 HOH HOH . D 4 HOH B 106 706 122 HOH HOH . D 4 HOH B 107 707 34 HOH HOH . D 4 HOH B 108 708 116 HOH HOH . D 4 HOH B 109 709 99 HOH HOH . D 4 HOH B 110 710 70 HOH HOH . D 4 HOH B 111 711 89 HOH HOH . D 4 HOH B 112 712 123 HOH HOH . D 4 HOH B 113 713 134 HOH HOH . D 4 HOH B 114 714 50 HOH HOH . D 4 HOH B 115 715 104 HOH HOH . D 4 HOH B 116 716 94 HOH HOH . D 4 HOH B 117 717 114 HOH HOH . D 4 HOH B 118 718 39 HOH HOH . D 4 HOH B 119 719 120 HOH HOH . D 4 HOH B 120 720 52 HOH HOH . D 4 HOH B 121 721 111 HOH HOH . D 4 HOH B 122 722 124 HOH HOH . D 4 HOH B 123 723 117 HOH HOH . D 4 HOH B 124 724 118 HOH HOH . D 4 HOH B 125 725 115 HOH HOH . D 4 HOH B 126 726 92 HOH HOH . D 4 HOH B 127 727 103 HOH HOH . D 4 HOH B 128 728 107 HOH HOH . D 4 HOH B 129 729 106 HOH HOH . D 4 HOH B 130 730 121 HOH HOH . D 4 HOH B 131 731 125 HOH HOH . D 4 HOH B 132 732 128 HOH HOH . D 4 HOH B 133 733 119 HOH HOH . D 4 HOH B 134 734 135 HOH HOH . D 4 HOH B 135 735 102 HOH HOH . D 4 HOH B 136 736 109 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 PLP . . . B 2 -25.505 -12.886 8.341 1 36.61 ? N1 PLP 501 B 1 HETATM 2 C C2 PLP . . . B 2 -25.694 -12.781 9.701 1 33.52 ? C2 PLP 501 B 1 HETATM 3 C C2A PLP . . . B 2 -26.758 -13.609 10.365 1 30.17 ? C2A PLP 501 B 1 HETATM 4 C C3 PLP . . . B 2 -24.892 -11.917 10.447 1 35.21 ? C3 PLP 501 B 1 HETATM 5 O O3 PLP . . . B 2 -25.068 -11.802 11.803 1 36.53 ? O3 PLP 501 B 1 HETATM 6 C C4 PLP . . . B 2 -23.908 -11.158 9.826 1 33.44 ? C4 PLP 501 B 1 HETATM 7 C C4A PLP . . . B 2 -23.446 -9.916 10.529 1 34.19 ? C4A PLP 501 B 1 HETATM 8 C C5 PLP . . . B 2 -23.726 -11.266 8.449 1 37.26 ? C5 PLP 501 B 1 HETATM 9 C C6 PLP . . . B 2 -24.526 -12.139 7.715 1 38.13 ? C6 PLP 501 B 1 HETATM 10 C C5A PLP . . . B 2 -22.64 -10.472 7.746 1 38.17 ? C5A PLP 501 B 1 HETATM 11 O O4P PLP . . . B 2 -23.039 -9.198 7.297 1 40.18 ? O4P PLP 501 B 1 HETATM 12 P P PLP . . . B 2 -22.018 -8.326 6.408 1 32.96 ? P PLP 501 B 1 HETATM 13 O O1P PLP . . . B 2 -21.902 -8.981 5.055 1 36.37 ? O1P PLP 501 B 1 HETATM 14 O O2P PLP . . . B 2 -22.544 -6.92 6.274 1 35.53 ? O2P PLP 501 B 1 HETATM 15 O O3P PLP . . . B 2 -20.665 -8.29 7.056 1 28.6 ? O3P PLP 501 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 409 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 15 #