data_8QYT
#
_model_server_result.job_id            q1JzeDSf8tsj5mgI5nX1Gg 
_model_server_result.datetime_utc      '2024-12-22 01:31:31' 
_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          8qyt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    8QYT 
#
_exptl.entry_id    8QYT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          4 
_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         120 
_cell.entry_id            8QYT 
_cell.length_a            82.48 
_cell.length_b            82.48 
_cell.length_c            59.19 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8QYT 
_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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             75 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              72 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            B 
_struct_conn.ptnr2_label_atom_id            S2 
_struct_conn.ptnr2_label_comp_id            BME 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             A 
_struct_conn.ptnr2_auth_comp_id             BME 
_struct_conn.ptnr2_auth_seq_id              301 
_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                2.047 
_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 323 n y 
N1 C6 PLP sing 324 n y 
C2 C2A PLP sing 325 n n 
C2 C3 PLP sing 326 n y 
C2A H2A1 PLP sing 327 n n 
C2A H2A2 PLP sing 328 n n 
C2A H2A3 PLP sing 329 n n 
C3 O3 PLP sing 330 n n 
C3 C4 PLP doub 331 n y 
O3 HO3 PLP sing 332 n n 
C4 C4A PLP sing 333 n n 
C4 C5 PLP sing 334 n y 
C4A O4A PLP doub 335 n n 
C4A H4A PLP sing 336 n n 
C5 C6 PLP doub 337 n y 
C5 C5A PLP sing 338 n n 
C6 H6 PLP sing 339 n n 
C5A O4P PLP sing 340 n n 
C5A H5A1 PLP sing 341 n n 
C5A H5A2 PLP sing 342 n n 
O4P P PLP sing 343 n n 
P O1P PLP doub 344 n n 
P O2P PLP sing 345 n n 
P O3P PLP sing 346 n n 
O2P HOP2 PLP sing 347 n n 
O3P HOP3 PLP sing 348 n n 
#
_atom_sites.entry_id                     8QYT 
_atom_sites.fract_transf_matrix[1][1]    0.012124 
_atom_sites.fract_transf_matrix[1][2]    0.007 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014 
_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]    0.016895 
_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 BME A 1 301 301 BME BME . 
C 3 FMN A 1 302 300 FMN FMN . 
D 4 PLP A 1 303 320 PLP PLP . 
E 5 NA A 1 304 1 NA NA . 
F 6 HOH A 1 401 68 HOH HOH . 
F 6 HOH A 2 402 146 HOH HOH . 
F 6 HOH A 3 403 73 HOH HOH . 
F 6 HOH A 4 404 124 HOH HOH . 
F 6 HOH A 5 405 144 HOH HOH . 
F 6 HOH A 6 406 138 HOH HOH . 
F 6 HOH A 7 407 118 HOH HOH . 
F 6 HOH A 8 408 21 HOH HOH . 
F 6 HOH A 9 409 11 HOH HOH . 
F 6 HOH A 10 410 16 HOH HOH . 
F 6 HOH A 11 411 10 HOH HOH . 
F 6 HOH A 12 412 51 HOH HOH . 
F 6 HOH A 13 413 112 HOH HOH . 
F 6 HOH A 14 414 89 HOH HOH . 
F 6 HOH A 15 415 39 HOH HOH . 
F 6 HOH A 16 416 87 HOH HOH . 
F 6 HOH A 17 417 111 HOH HOH . 
F 6 HOH A 18 418 107 HOH HOH . 
F 6 HOH A 19 419 63 HOH HOH . 
F 6 HOH A 20 420 35 HOH HOH . 
F 6 HOH A 21 421 65 HOH HOH . 
F 6 HOH A 22 422 119 HOH HOH . 
F 6 HOH A 23 423 3 HOH HOH . 
F 6 HOH A 24 424 13 HOH HOH . 
F 6 HOH A 25 425 43 HOH HOH . 
F 6 HOH A 26 426 49 HOH HOH . 
F 6 HOH A 27 427 76 HOH HOH . 
F 6 HOH A 28 428 125 HOH HOH . 
F 6 HOH A 29 429 50 HOH HOH . 
F 6 HOH A 30 430 98 HOH HOH . 
F 6 HOH A 31 431 143 HOH HOH . 
F 6 HOH A 32 432 14 HOH HOH . 
F 6 HOH A 33 433 75 HOH HOH . 
F 6 HOH A 34 434 8 HOH HOH . 
F 6 HOH A 35 435 2 HOH HOH . 
F 6 HOH A 36 436 56 HOH HOH . 
F 6 HOH A 37 437 9 HOH HOH . 
F 6 HOH A 38 438 15 HOH HOH . 
F 6 HOH A 39 439 121 HOH HOH . 
F 6 HOH A 40 440 61 HOH HOH . 
F 6 HOH A 41 441 6 HOH HOH . 
F 6 HOH A 42 442 60 HOH HOH . 
F 6 HOH A 43 443 102 HOH HOH . 
F 6 HOH A 44 444 18 HOH HOH . 
F 6 HOH A 45 445 40 HOH HOH . 
F 6 HOH A 46 446 91 HOH HOH . 
F 6 HOH A 47 447 23 HOH HOH . 
F 6 HOH A 48 448 19 HOH HOH . 
F 6 HOH A 49 449 94 HOH HOH . 
F 6 HOH A 50 450 129 HOH HOH . 
F 6 HOH A 51 451 99 HOH HOH . 
F 6 HOH A 52 452 145 HOH HOH . 
F 6 HOH A 53 453 142 HOH HOH . 
F 6 HOH A 54 454 44 HOH HOH . 
F 6 HOH A 55 455 52 HOH HOH . 
F 6 HOH A 56 456 115 HOH HOH . 
F 6 HOH A 57 457 48 HOH HOH . 
F 6 HOH A 58 458 131 HOH HOH . 
F 6 HOH A 59 459 47 HOH HOH . 
F 6 HOH A 60 460 81 HOH HOH . 
F 6 HOH A 61 461 97 HOH HOH . 
F 6 HOH A 62 462 105 HOH HOH . 
F 6 HOH A 63 463 24 HOH HOH . 
F 6 HOH A 64 464 45 HOH HOH . 
F 6 HOH A 65 465 123 HOH HOH . 
F 6 HOH A 66 466 17 HOH HOH . 
F 6 HOH A 67 467 53 HOH HOH . 
F 6 HOH A 68 468 84 HOH HOH . 
F 6 HOH A 69 469 55 HOH HOH . 
F 6 HOH A 70 470 80 HOH HOH . 
F 6 HOH A 71 471 82 HOH HOH . 
F 6 HOH A 72 472 103 HOH HOH . 
F 6 HOH A 73 473 79 HOH HOH . 
F 6 HOH A 74 474 117 HOH HOH . 
F 6 HOH A 75 475 5 HOH HOH . 
F 6 HOH A 76 476 1 HOH HOH . 
F 6 HOH A 77 477 22 HOH HOH . 
F 6 HOH A 78 478 12 HOH HOH . 
F 6 HOH A 79 479 25 HOH HOH . 
F 6 HOH A 80 480 106 HOH HOH . 
F 6 HOH A 81 481 42 HOH HOH . 
F 6 HOH A 82 482 36 HOH HOH . 
F 6 HOH A 83 483 149 HOH HOH . 
F 6 HOH A 84 484 140 HOH HOH . 
F 6 HOH A 85 485 37 HOH HOH . 
F 6 HOH A 86 486 58 HOH HOH . 
F 6 HOH A 87 487 85 HOH HOH . 
F 6 HOH A 88 488 62 HOH HOH . 
F 6 HOH A 89 489 95 HOH HOH . 
F 6 HOH A 90 490 59 HOH HOH . 
F 6 HOH A 91 491 110 HOH HOH . 
F 6 HOH A 92 492 88 HOH HOH . 
F 6 HOH A 93 493 33 HOH HOH . 
F 6 HOH A 94 494 64 HOH HOH . 
F 6 HOH A 95 495 66 HOH HOH . 
F 6 HOH A 96 496 46 HOH HOH . 
F 6 HOH A 97 497 122 HOH HOH . 
F 6 HOH A 98 498 104 HOH HOH . 
F 6 HOH A 99 499 83 HOH HOH . 
F 6 HOH A 100 500 147 HOH HOH . 
F 6 HOH A 101 501 41 HOH HOH . 
F 6 HOH A 102 502 77 HOH HOH . 
F 6 HOH A 103 503 78 HOH HOH . 
F 6 HOH A 104 504 27 HOH HOH . 
F 6 HOH A 105 505 137 HOH HOH . 
F 6 HOH A 106 506 54 HOH HOH . 
F 6 HOH A 107 507 34 HOH HOH . 
F 6 HOH A 108 508 127 HOH HOH . 
F 6 HOH A 109 509 86 HOH HOH . 
F 6 HOH A 110 510 90 HOH HOH . 
F 6 HOH A 111 511 71 HOH HOH . 
F 6 HOH A 112 512 96 HOH HOH . 
F 6 HOH A 113 513 92 HOH HOH . 
F 6 HOH A 114 514 120 HOH HOH . 
F 6 HOH A 115 515 126 HOH HOH . 
F 6 HOH A 116 516 139 HOH HOH . 
F 6 HOH A 117 517 72 HOH HOH . 
F 6 HOH A 118 518 141 HOH HOH . 
F 6 HOH A 119 519 93 HOH HOH . 
F 6 HOH A 120 520 38 HOH HOH . 
F 6 HOH A 121 521 67 HOH HOH . 
F 6 HOH A 122 522 70 HOH HOH . 
F 6 HOH A 123 523 20 HOH HOH . 
F 6 HOH A 124 524 7 HOH HOH . 
F 6 HOH A 125 525 4 HOH HOH . 
F 6 HOH A 126 526 28 HOH HOH . 
F 6 HOH A 127 527 26 HOH HOH . 
F 6 HOH A 128 528 136 HOH HOH . 
F 6 HOH A 129 529 113 HOH HOH . 
F 6 HOH A 130 530 116 HOH HOH . 
F 6 HOH A 131 531 134 HOH HOH . 
F 6 HOH A 132 532 135 HOH HOH . 
F 6 HOH A 133 533 132 HOH HOH . 
F 6 HOH A 134 534 74 HOH HOH . 
F 6 HOH A 135 535 32 HOH HOH . 
F 6 HOH A 136 536 133 HOH HOH . 
F 6 HOH A 137 537 148 HOH HOH . 
F 6 HOH A 138 538 109 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 . . . D 4 -28.497 -16.229 -1.645 1 41.36 ? N1 PLP 303 A 1 
HETATM 2 C C2 PLP . . . D 4 -28.273 -17.062 -0.619 1 43.32 ? C2 PLP 303 A 1 
HETATM 3 C C2A PLP . . . D 4 -28.338 -16.524 0.783 1 46.44 ? C2A PLP 303 A 1 
HETATM 4 C C3 PLP . . . D 4 -28.016 -18.435 -0.852 1 42.03 ? C3 PLP 303 A 1 
HETATM 5 O O3 PLP . . . D 4 -27.849 -19.275 0.226 1 39.76 ? O3 PLP 303 A 1 
HETATM 6 C C4 PLP . . . D 4 -27.998 -18.916 -2.185 1 44.18 ? C4 PLP 303 A 1 
HETATM 7 C C4A PLP . . . D 4 -27.721 -20.343 -2.43 1 51.76 ? C4A PLP 303 A 1 
HETATM 8 O O4A PLP . . . D 4 -27.85 -21.258 -1.624 1 47.37 ? O4A PLP 303 A 1 
HETATM 9 C C5 PLP . . . D 4 -28.208 -17.999 -3.237 1 39.57 ? C5 PLP 303 A 1 
HETATM 10 C C6 PLP . . . D 4 -28.468 -16.69 -2.918 1 39.43 ? C6 PLP 303 A 1 
HETATM 11 C C5A PLP . . . D 4 -28.138 -18.409 -4.687 1 37.88 ? C5A PLP 303 A 1 
HETATM 12 O O4P PLP . . . D 4 -28.972 -19.571 -4.975 0.8 34.14 ? O4P PLP 303 A 1 
HETATM 13 P P PLP . . . D 4 -30.497 -19.425 -5.479 0.8 35.47 ? P PLP 303 A 1 
HETATM 14 O O1P PLP . . . D 4 -30.576 -18.238 -6.469 0.8 36.94 ? O1P PLP 303 A 1 
HETATM 15 O O2P PLP . . . D 4 -30.832 -20.758 -6.101 0.8 37.46 ? O2P PLP 303 A 1 
HETATM 16 O O3P PLP . . . D 4 -31.312 -19.196 -4.196 0.8 35.7 ? O3P PLP 303 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           16 
#