data_7CEO # _model_server_result.job_id rZNcqN6xY0To3KS5HA8OTA _model_server_result.datetime_utc '2024-11-28 02:19:23' _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 7ceo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":504}' # _entry.id 7CEO # _exptl.entry_id 7CEO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 248.173 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-DEOXY-4'-AMINOPYRIDOXAL-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 120 _cell.entry_id 7CEO _cell.length_a 92.78 _cell.length_b 92.78 _cell.length_c 128.81 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CEO _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 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 1,2 # 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' 5_554 x-y,-y,-z-1/3 1 0 0 0 -1 0 0 0 -1 0 0 -42.936667 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C8 H13 N2 O5 P' _chem_comp.formula_weight 248.173 _chem_comp.id PMP _chem_comp.mon_nstd_flag . _chem_comp.name "4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "PYRIDOXAMINE-5'-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 PMP doub 276 n y N1 C6 PMP sing 277 n y C2 C2A PMP sing 278 n n C2 C3 PMP sing 279 n y C2A H2A1 PMP sing 280 n n C2A H2A2 PMP sing 281 n n C2A H2A3 PMP sing 282 n n C3 O3 PMP sing 283 n n C3 C4 PMP doub 284 n y O3 HO3 PMP sing 285 n n C4 C4A PMP sing 286 n n C4 C5 PMP sing 287 n y C4A N4A PMP sing 288 n n C4A H4A1 PMP sing 289 n n C4A H4A2 PMP sing 290 n n N4A HNA1 PMP sing 291 n n N4A HNA2 PMP sing 292 n n C5 C6 PMP doub 293 n y C5 C5A PMP sing 294 n n C6 H6 PMP sing 295 n n C5A O4P PMP sing 296 n n C5A H5A1 PMP sing 297 n n C5A H5A2 PMP sing 298 n n O4P P PMP sing 299 n n P O1P PMP doub 300 n n P O2P PMP sing 301 n n P O3P PMP sing 302 n n O2P HOP2 PMP sing 303 n n O3P HOP3 PMP sing 304 n n # _atom_sites.entry_id 7CEO _atom_sites.fract_transf_matrix[1][1] 0.010778 _atom_sites.fract_transf_matrix[1][2] 0.006223 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012446 _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] 0.007763 _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 PEG A 1 501 1 PEG PEG . C 2 PEG A 1 502 2 PEG PEG . D 2 PEG A 1 503 3 PEG PEG . E 3 PMP A 1 504 1 PMP PMP . F 4 HOH A 1 601 26 HOH HOH . F 4 HOH A 2 602 44 HOH HOH . F 4 HOH A 3 603 43 HOH HOH . F 4 HOH A 4 604 100 HOH HOH . F 4 HOH A 5 605 37 HOH HOH . F 4 HOH A 6 606 38 HOH HOH . F 4 HOH A 7 607 8 HOH HOH . F 4 HOH A 8 608 51 HOH HOH . F 4 HOH A 9 609 111 HOH HOH . F 4 HOH A 10 610 27 HOH HOH . F 4 HOH A 11 611 60 HOH HOH . F 4 HOH A 12 612 83 HOH HOH . F 4 HOH A 13 613 54 HOH HOH . F 4 HOH A 14 614 18 HOH HOH . F 4 HOH A 15 615 22 HOH HOH . F 4 HOH A 16 616 25 HOH HOH . F 4 HOH A 17 617 91 HOH HOH . F 4 HOH A 18 618 29 HOH HOH . F 4 HOH A 19 619 114 HOH HOH . F 4 HOH A 20 620 84 HOH HOH . F 4 HOH A 21 621 31 HOH HOH . F 4 HOH A 22 622 59 HOH HOH . F 4 HOH A 23 623 98 HOH HOH . F 4 HOH A 24 624 11 HOH HOH . F 4 HOH A 25 625 47 HOH HOH . F 4 HOH A 26 626 66 HOH HOH . F 4 HOH A 27 627 32 HOH HOH . F 4 HOH A 28 628 28 HOH HOH . F 4 HOH A 29 629 36 HOH HOH . F 4 HOH A 30 630 115 HOH HOH . F 4 HOH A 31 631 122 HOH HOH . F 4 HOH A 32 632 46 HOH HOH . F 4 HOH A 33 633 34 HOH HOH . F 4 HOH A 34 634 50 HOH HOH . F 4 HOH A 35 635 64 HOH HOH . F 4 HOH A 36 636 30 HOH HOH . F 4 HOH A 37 637 74 HOH HOH . F 4 HOH A 38 638 62 HOH HOH . F 4 HOH A 39 639 85 HOH HOH . F 4 HOH A 40 640 4 HOH HOH . F 4 HOH A 41 641 49 HOH HOH . F 4 HOH A 42 642 6 HOH HOH . F 4 HOH A 43 643 113 HOH HOH . F 4 HOH A 44 644 80 HOH HOH . F 4 HOH A 45 645 81 HOH HOH . F 4 HOH A 46 646 112 HOH HOH . F 4 HOH A 47 647 61 HOH HOH . F 4 HOH A 48 648 42 HOH HOH . F 4 HOH A 49 649 16 HOH HOH . F 4 HOH A 50 650 95 HOH HOH . F 4 HOH A 51 651 14 HOH HOH . F 4 HOH A 52 652 68 HOH HOH . F 4 HOH A 53 653 97 HOH HOH . F 4 HOH A 54 654 48 HOH HOH . F 4 HOH A 55 655 63 HOH HOH . F 4 HOH A 56 656 117 HOH HOH . F 4 HOH A 57 657 55 HOH HOH . F 4 HOH A 58 658 107 HOH HOH . F 4 HOH A 59 659 120 HOH HOH . F 4 HOH A 60 660 106 HOH HOH . F 4 HOH A 61 661 41 HOH HOH . F 4 HOH A 62 662 5 HOH HOH . F 4 HOH A 63 663 15 HOH HOH . F 4 HOH A 64 664 40 HOH HOH . F 4 HOH A 65 665 102 HOH HOH . F 4 HOH A 66 666 21 HOH HOH . F 4 HOH A 67 667 39 HOH HOH . F 4 HOH A 68 668 88 HOH HOH . F 4 HOH A 69 669 94 HOH HOH . F 4 HOH A 70 670 75 HOH HOH . F 4 HOH A 71 671 33 HOH HOH . F 4 HOH A 72 672 24 HOH HOH . F 4 HOH A 73 673 78 HOH HOH . F 4 HOH A 74 674 7 HOH HOH . F 4 HOH A 75 675 103 HOH HOH . F 4 HOH A 76 676 99 HOH HOH . F 4 HOH A 77 677 92 HOH HOH . F 4 HOH A 78 678 58 HOH HOH . F 4 HOH A 79 679 9 HOH HOH . F 4 HOH A 80 680 121 HOH HOH . F 4 HOH A 81 681 53 HOH HOH . F 4 HOH A 82 682 19 HOH HOH . F 4 HOH A 83 683 109 HOH HOH . F 4 HOH A 84 684 86 HOH HOH . F 4 HOH A 85 685 57 HOH HOH . F 4 HOH A 86 686 65 HOH HOH . F 4 HOH A 87 687 123 HOH HOH . F 4 HOH A 88 688 125 HOH HOH . F 4 HOH A 89 689 52 HOH HOH . F 4 HOH A 90 690 35 HOH HOH . F 4 HOH A 91 691 96 HOH HOH . F 4 HOH A 92 692 104 HOH HOH . F 4 HOH A 93 693 116 HOH HOH . F 4 HOH A 94 694 76 HOH HOH . F 4 HOH A 95 695 87 HOH HOH . F 4 HOH A 96 696 3 HOH HOH . F 4 HOH A 97 697 90 HOH HOH . F 4 HOH A 98 698 82 HOH HOH . F 4 HOH A 99 699 12 HOH HOH . F 4 HOH A 100 700 17 HOH HOH . F 4 HOH A 101 701 70 HOH HOH . F 4 HOH A 102 702 101 HOH HOH . F 4 HOH A 103 703 124 HOH HOH . F 4 HOH A 104 704 118 HOH HOH . F 4 HOH A 105 705 79 HOH HOH . F 4 HOH A 106 706 45 HOH HOH . F 4 HOH A 107 707 2 HOH HOH . F 4 HOH A 108 708 77 HOH HOH . F 4 HOH A 109 709 1 HOH HOH . F 4 HOH A 110 710 69 HOH HOH . F 4 HOH A 111 711 23 HOH HOH . F 4 HOH A 112 712 119 HOH HOH . F 4 HOH A 113 713 10 HOH HOH . F 4 HOH A 114 714 13 HOH HOH . F 4 HOH A 115 715 73 HOH HOH . F 4 HOH A 116 716 72 HOH HOH . F 4 HOH A 117 717 105 HOH HOH . F 4 HOH A 118 718 71 HOH HOH . F 4 HOH A 119 719 56 HOH HOH . F 4 HOH A 120 720 67 HOH HOH . F 4 HOH A 121 721 108 HOH HOH . F 4 HOH A 122 722 93 HOH HOH . F 4 HOH A 123 723 110 HOH HOH . F 4 HOH A 124 724 20 HOH HOH . F 4 HOH A 125 725 89 HOH HOH . F 4 HOH A 126 726 126 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 PMP . . . E 3 48.965 -13.658 -12.61 1 38.8 ? N1 PMP 504 A 1 HETATM 2 C C2 PMP . . . E 3 47.918 -14.535 -12.426 1 41.21 ? C2 PMP 504 A 1 HETATM 3 C C2A PMP . . . E 3 47.853 -15.343 -11.165 1 41.3 ? C2A PMP 504 A 1 HETATM 4 C C3 PMP . . . E 3 46.853 -14.532 -13.322 1 40.1 ? C3 PMP 504 A 1 HETATM 5 O O3 PMP . . . E 3 45.729 -15.267 -13.059 1 40.49 ? O3 PMP 504 A 1 HETATM 6 C C4 PMP . . . E 3 46.947 -13.773 -14.484 1 38.26 ? C4 PMP 504 A 1 HETATM 7 C C4A PMP . . . E 3 46.003 -13.998 -15.645 1 36.77 ? C4A PMP 504 A 1 HETATM 8 N N4A PMP . . . E 3 44.649 -14.21 -15.178 1 35.54 ? N4A PMP 504 A 1 HETATM 9 C C5 PMP . . . E 3 47.939 -12.804 -14.575 1 38.43 ? C5 PMP 504 A 1 HETATM 10 C C6 PMP . . . E 3 48.896 -12.698 -13.575 1 37.31 ? C6 PMP 504 A 1 HETATM 11 C C5A PMP . . . E 3 47.98 -11.871 -15.758 1 39.54 ? C5A PMP 504 A 1 HETATM 12 O O4P PMP . . . E 3 47.018 -10.858 -15.578 1 37.76 ? O4P PMP 504 A 1 HETATM 13 P P PMP . . . E 3 46.521 -10.007 -16.847 1 31.27 ? P PMP 504 A 1 HETATM 14 O O1P PMP . . . E 3 46.401 -10.93 -18.032 1 34.12 ? O1P PMP 504 A 1 HETATM 15 O O2P PMP . . . E 3 45.169 -9.426 -16.513 1 31.59 ? O2P PMP 504 A 1 HETATM 16 O O3P PMP . . . E 3 47.52 -8.918 -17.151 1 30.99 ? O3P PMP 504 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #