data_5C3U # _model_server_result.job_id FMsiQt0BK_lTSRXG3JPpbg _model_server_result.datetime_utc '2024-12-27 16:07:55' _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 5c3u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5C3U # _exptl.entry_id 5C3U _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 5C3U _cell.length_a 72.98 _cell.length_b 72.885 _cell.length_c 111.121 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C3U _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 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 A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 52 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 52 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C4A _struct_conn.ptnr2_label_comp_id PLP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PLP _struct_conn.ptnr2_auth_seq_id 401 _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 1.57 _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 260 n y N1 C6 PLP sing 261 n y C2 C2A PLP sing 262 n n C2 C3 PLP sing 263 n y C2A H2A1 PLP sing 264 n n C2A H2A2 PLP sing 265 n n C2A H2A3 PLP sing 266 n n C3 O3 PLP sing 267 n n C3 C4 PLP doub 268 n y O3 HO3 PLP sing 269 n n C4 C4A PLP sing 270 n n C4 C5 PLP sing 271 n y C4A O4A PLP doub 272 n n C4A H4A PLP sing 273 n n C5 C6 PLP doub 274 n y C5 C5A PLP sing 275 n n C6 H6 PLP sing 276 n n C5A O4P PLP sing 277 n n C5A H5A1 PLP sing 278 n n C5A H5A2 PLP sing 279 n n O4P P PLP sing 280 n n P O1P PLP doub 281 n n P O2P PLP sing 282 n n P O3P PLP sing 283 n n O2P HOP2 PLP sing 284 n n O3P HOP3 PLP sing 285 n n # _atom_sites.entry_id 5C3U _atom_sites.fract_transf_matrix[1][1] 0.013702 _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] 0.01372 _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] 0.008999 _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 A 1 401 331 PLP PLP . C 3 HOH A 1 501 129 HOH HOH . C 3 HOH A 2 502 68 HOH HOH . C 3 HOH A 3 503 78 HOH HOH . C 3 HOH A 4 504 13 HOH HOH . C 3 HOH A 5 505 160 HOH HOH . C 3 HOH A 6 506 136 HOH HOH . C 3 HOH A 7 507 95 HOH HOH . C 3 HOH A 8 508 125 HOH HOH . C 3 HOH A 9 509 86 HOH HOH . C 3 HOH A 10 510 130 HOH HOH . C 3 HOH A 11 511 38 HOH HOH . C 3 HOH A 12 512 67 HOH HOH . C 3 HOH A 13 513 45 HOH HOH . C 3 HOH A 14 514 29 HOH HOH . C 3 HOH A 15 515 8 HOH HOH . C 3 HOH A 16 516 77 HOH HOH . C 3 HOH A 17 517 98 HOH HOH . C 3 HOH A 18 518 139 HOH HOH . C 3 HOH A 19 519 5 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 19 HOH HOH . C 3 HOH A 22 522 3 HOH HOH . C 3 HOH A 23 523 145 HOH HOH . C 3 HOH A 24 524 73 HOH HOH . C 3 HOH A 25 525 104 HOH HOH . C 3 HOH A 26 526 162 HOH HOH . C 3 HOH A 27 527 18 HOH HOH . C 3 HOH A 28 528 97 HOH HOH . C 3 HOH A 29 529 91 HOH HOH . C 3 HOH A 30 530 56 HOH HOH . C 3 HOH A 31 531 62 HOH HOH . C 3 HOH A 32 532 82 HOH HOH . C 3 HOH A 33 533 1 HOH HOH . C 3 HOH A 34 534 22 HOH HOH . C 3 HOH A 35 535 65 HOH HOH . C 3 HOH A 36 536 146 HOH HOH . C 3 HOH A 37 537 92 HOH HOH . C 3 HOH A 38 538 49 HOH HOH . C 3 HOH A 39 539 157 HOH HOH . C 3 HOH A 40 540 93 HOH HOH . C 3 HOH A 41 541 24 HOH HOH . C 3 HOH A 42 542 71 HOH HOH . C 3 HOH A 43 543 37 HOH HOH . C 3 HOH A 44 544 133 HOH HOH . C 3 HOH A 45 545 44 HOH HOH . C 3 HOH A 46 546 76 HOH HOH . C 3 HOH A 47 547 137 HOH HOH . C 3 HOH A 48 548 140 HOH HOH . C 3 HOH A 49 549 14 HOH HOH . C 3 HOH A 50 550 79 HOH HOH . C 3 HOH A 51 551 64 HOH HOH . C 3 HOH A 52 552 152 HOH HOH . C 3 HOH A 53 553 47 HOH HOH . C 3 HOH A 54 554 51 HOH HOH . C 3 HOH A 55 555 21 HOH HOH . C 3 HOH A 56 556 4 HOH HOH . C 3 HOH A 57 557 36 HOH HOH . C 3 HOH A 58 558 99 HOH HOH . C 3 HOH A 59 559 7 HOH HOH . C 3 HOH A 60 560 27 HOH HOH . C 3 HOH A 61 561 90 HOH HOH . C 3 HOH A 62 562 106 HOH HOH . C 3 HOH A 63 563 15 HOH HOH . C 3 HOH A 64 564 58 HOH HOH . C 3 HOH A 65 565 10 HOH HOH . C 3 HOH A 66 566 46 HOH HOH . C 3 HOH A 67 567 34 HOH HOH . C 3 HOH A 68 568 63 HOH HOH . C 3 HOH A 69 569 70 HOH HOH . C 3 HOH A 70 570 55 HOH HOH . C 3 HOH A 71 571 105 HOH HOH . C 3 HOH A 72 572 88 HOH HOH . C 3 HOH A 73 573 25 HOH HOH . C 3 HOH A 74 574 48 HOH HOH . C 3 HOH A 75 575 150 HOH HOH . C 3 HOH A 76 576 156 HOH HOH . C 3 HOH A 77 577 161 HOH HOH . C 3 HOH A 78 578 12 HOH HOH . C 3 HOH A 79 579 9 HOH HOH . C 3 HOH A 80 580 147 HOH HOH . C 3 HOH A 81 581 32 HOH HOH . C 3 HOH A 82 582 102 HOH HOH . C 3 HOH A 83 583 163 HOH HOH . C 3 HOH A 84 584 41 HOH HOH . C 3 HOH A 85 585 31 HOH HOH . C 3 HOH A 86 586 40 HOH HOH . C 3 HOH A 87 587 87 HOH HOH . C 3 HOH A 88 588 138 HOH HOH . C 3 HOH A 89 589 17 HOH HOH . C 3 HOH A 90 590 6 HOH HOH . C 3 HOH A 91 591 175 HOH HOH . C 3 HOH A 92 592 115 HOH HOH . C 3 HOH A 93 593 128 HOH HOH . C 3 HOH A 94 594 114 HOH HOH . C 3 HOH A 95 595 83 HOH HOH . C 3 HOH A 96 596 42 HOH HOH . C 3 HOH A 97 597 122 HOH HOH . C 3 HOH A 98 598 132 HOH HOH . C 3 HOH A 99 599 131 HOH HOH . C 3 HOH A 100 600 153 HOH HOH . C 3 HOH A 101 601 148 HOH HOH . C 3 HOH A 102 602 54 HOH HOH . C 3 HOH A 103 603 69 HOH HOH . C 3 HOH A 104 604 141 HOH HOH . C 3 HOH A 105 605 61 HOH HOH . C 3 HOH A 106 606 35 HOH HOH . C 3 HOH A 107 607 119 HOH HOH . C 3 HOH A 108 608 121 HOH HOH . C 3 HOH A 109 609 96 HOH HOH . C 3 HOH A 110 610 11 HOH HOH . C 3 HOH A 111 611 169 HOH HOH . C 3 HOH A 112 612 94 HOH HOH . C 3 HOH A 113 613 84 HOH HOH . C 3 HOH A 114 614 50 HOH HOH . C 3 HOH A 115 615 89 HOH HOH . C 3 HOH A 116 616 149 HOH HOH . C 3 HOH A 117 617 75 HOH HOH . C 3 HOH A 118 618 33 HOH HOH . C 3 HOH A 119 619 80 HOH HOH . C 3 HOH A 120 620 173 HOH HOH . C 3 HOH A 121 621 158 HOH HOH . C 3 HOH A 122 622 53 HOH HOH . C 3 HOH A 123 623 66 HOH HOH . C 3 HOH A 124 624 85 HOH HOH . C 3 HOH A 125 625 72 HOH HOH . C 3 HOH A 126 626 170 HOH HOH . C 3 HOH A 127 627 134 HOH HOH . C 3 HOH A 128 628 2 HOH HOH . C 3 HOH A 129 629 101 HOH HOH . C 3 HOH A 130 630 74 HOH HOH . C 3 HOH A 131 631 112 HOH HOH . C 3 HOH A 132 632 164 HOH HOH . C 3 HOH A 133 633 28 HOH HOH . C 3 HOH A 134 634 142 HOH HOH . C 3 HOH A 135 635 177 HOH HOH . C 3 HOH A 136 636 178 HOH HOH . C 3 HOH A 137 637 154 HOH HOH . C 3 HOH A 138 638 127 HOH HOH . C 3 HOH A 139 639 171 HOH HOH . C 3 HOH A 140 640 39 HOH HOH . C 3 HOH A 141 641 118 HOH HOH . C 3 HOH A 142 642 143 HOH HOH . C 3 HOH A 143 643 135 HOH HOH . C 3 HOH A 144 644 26 HOH HOH . C 3 HOH A 145 645 81 HOH HOH . C 3 HOH A 146 646 43 HOH HOH . C 3 HOH A 147 647 111 HOH HOH . C 3 HOH A 148 648 23 HOH HOH . C 3 HOH A 149 649 124 HOH HOH . C 3 HOH A 150 650 16 HOH HOH . C 3 HOH A 151 651 155 HOH HOH . C 3 HOH A 152 652 166 HOH HOH . C 3 HOH A 153 653 116 HOH HOH . C 3 HOH A 154 654 60 HOH HOH . C 3 HOH A 155 655 167 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 27.347 26.866 40.448 1 26.72 ? N1 PLP 401 A 1 HETATM 2 C C2 PLP . . . B 2 26.59 26.894 39.337 1 26.55 ? C2 PLP 401 A 1 HETATM 3 C C2A PLP . . . B 2 27.077 27.523 38.054 1 26.39 ? C2A PLP 401 A 1 HETATM 4 C C3 PLP . . . B 2 25.248 26.309 39.378 1 26.84 ? C3 PLP 401 A 1 HETATM 5 O O3 PLP . . . B 2 24.455 26.318 38.261 1 28 ? O3 PLP 401 A 1 HETATM 6 C C4 PLP . . . B 2 24.823 25.69 40.652 1 27.32 ? C4 PLP 401 A 1 HETATM 7 C C4A PLP . . . B 2 23.498 25.057 40.741 1 27.96 ? C4A PLP 401 A 1 HETATM 8 C C5 PLP . . . B 2 25.742 25.718 41.819 1 28.88 ? C5 PLP 401 A 1 HETATM 9 C C6 PLP . . . B 2 26.991 26.319 41.633 1 27.81 ? C6 PLP 401 A 1 HETATM 10 C C5A PLP . . . B 2 25.368 25.109 43.172 1 29.08 ? C5A PLP 401 A 1 HETATM 11 O O4P PLP . . . B 2 23.95 25.045 43.264 1 29.63 ? O4P PLP 401 A 1 HETATM 12 P P PLP . . . B 2 23.054 24.322 44.404 1 24.57 ? P PLP 401 A 1 HETATM 13 O O1P PLP . . . B 2 22.872 22.896 44.017 1 26.22 ? O1P PLP 401 A 1 HETATM 14 O O2P PLP . . . B 2 23.723 24.534 45.774 1 25.29 ? O2P PLP 401 A 1 HETATM 15 O O3P PLP . . . B 2 21.825 25.15 44.267 1 26.21 ? O3P PLP 401 A 1 # _model_server_stats.io_time_ms 88 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #