data_1P5J # _model_server_result.job_id gMxfXdPwlV8ZUmc0Je4kLQ _model_server_result.datetime_utc '2025-02-26 23:28:43' _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 1p5j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":941}' # _entry.id 1P5J # _exptl.entry_id 1P5J _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 1P5J _cell.length_a 157.436 _cell.length_b 157.436 _cell.length_c 59.193 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P5J _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 77 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 41 _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 941 _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 1.715 _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 1P5J _atom_sites.fract_transf_matrix[1][1] 0.006352 _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] 0.006352 _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] 0.016894 _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 1 941 941 PLP PLP . C 3 HOH A 1 401 401 HOH WAT . C 3 HOH A 2 402 402 HOH WAT . C 3 HOH A 3 403 403 HOH WAT . C 3 HOH A 4 404 404 HOH WAT . C 3 HOH A 5 405 405 HOH WAT . C 3 HOH A 6 406 406 HOH WAT . C 3 HOH A 7 407 407 HOH WAT . C 3 HOH A 8 408 408 HOH WAT . C 3 HOH A 9 409 409 HOH WAT . C 3 HOH A 10 410 410 HOH WAT . C 3 HOH A 11 411 411 HOH WAT . C 3 HOH A 12 412 412 HOH WAT . C 3 HOH A 13 413 413 HOH WAT . C 3 HOH A 14 414 414 HOH WAT . C 3 HOH A 15 415 415 HOH WAT . C 3 HOH A 16 416 416 HOH WAT . C 3 HOH A 17 417 417 HOH WAT . C 3 HOH A 18 418 418 HOH WAT . C 3 HOH A 19 419 419 HOH WAT . C 3 HOH A 20 420 420 HOH WAT . C 3 HOH A 21 421 421 HOH WAT . C 3 HOH A 22 422 422 HOH WAT . C 3 HOH A 23 423 423 HOH WAT . C 3 HOH A 24 424 424 HOH WAT . C 3 HOH A 25 425 425 HOH WAT . C 3 HOH A 26 426 426 HOH WAT . C 3 HOH A 27 427 427 HOH WAT . C 3 HOH A 28 428 428 HOH WAT . C 3 HOH A 29 429 429 HOH WAT . C 3 HOH A 30 430 430 HOH WAT . C 3 HOH A 31 431 431 HOH WAT . C 3 HOH A 32 432 432 HOH WAT . C 3 HOH A 33 433 433 HOH WAT . C 3 HOH A 34 434 434 HOH WAT . C 3 HOH A 35 435 435 HOH WAT . C 3 HOH A 36 436 436 HOH WAT . C 3 HOH A 37 437 437 HOH WAT . C 3 HOH A 38 438 438 HOH WAT . C 3 HOH A 39 439 439 HOH WAT . C 3 HOH A 40 440 440 HOH WAT . C 3 HOH A 41 441 441 HOH WAT . C 3 HOH A 42 442 442 HOH WAT . C 3 HOH A 43 443 443 HOH WAT . C 3 HOH A 44 444 444 HOH WAT . C 3 HOH A 45 445 445 HOH WAT . C 3 HOH A 46 446 446 HOH WAT . C 3 HOH A 47 447 447 HOH WAT . C 3 HOH A 48 448 448 HOH WAT . C 3 HOH A 49 449 449 HOH WAT . C 3 HOH A 50 450 450 HOH WAT . C 3 HOH A 51 451 451 HOH WAT . C 3 HOH A 52 452 452 HOH WAT . C 3 HOH A 53 453 453 HOH WAT . C 3 HOH A 54 454 454 HOH WAT . C 3 HOH A 55 455 455 HOH WAT . C 3 HOH A 56 456 456 HOH WAT . C 3 HOH A 57 457 457 HOH WAT . C 3 HOH A 58 458 458 HOH WAT . C 3 HOH A 59 459 459 HOH WAT . C 3 HOH A 60 460 460 HOH WAT . C 3 HOH A 61 461 461 HOH WAT . C 3 HOH A 62 462 462 HOH WAT . C 3 HOH A 63 463 463 HOH WAT . C 3 HOH A 64 464 464 HOH WAT . C 3 HOH A 65 465 465 HOH WAT . C 3 HOH A 66 466 466 HOH WAT . C 3 HOH A 67 467 467 HOH WAT . C 3 HOH A 68 468 468 HOH WAT . C 3 HOH A 69 469 469 HOH WAT . C 3 HOH A 70 470 470 HOH WAT . C 3 HOH A 71 471 471 HOH WAT . C 3 HOH A 72 472 472 HOH WAT . C 3 HOH A 73 473 473 HOH WAT . C 3 HOH A 74 474 474 HOH WAT . C 3 HOH A 75 475 475 HOH WAT . C 3 HOH A 76 476 476 HOH WAT . C 3 HOH A 77 477 477 HOH WAT . C 3 HOH A 78 478 478 HOH WAT . C 3 HOH A 79 479 479 HOH WAT . C 3 HOH A 80 480 480 HOH WAT . C 3 HOH A 81 481 481 HOH WAT . C 3 HOH A 82 482 482 HOH WAT . C 3 HOH A 83 483 483 HOH WAT . C 3 HOH A 84 484 484 HOH WAT . C 3 HOH A 85 485 485 HOH WAT . C 3 HOH A 86 486 486 HOH WAT . C 3 HOH A 87 487 487 HOH WAT . C 3 HOH A 88 488 488 HOH WAT . C 3 HOH A 89 489 489 HOH WAT . C 3 HOH A 90 490 490 HOH WAT . C 3 HOH A 91 491 491 HOH WAT . C 3 HOH A 92 492 492 HOH WAT . C 3 HOH A 93 493 493 HOH WAT . C 3 HOH A 94 494 494 HOH WAT . C 3 HOH A 95 495 495 HOH WAT . C 3 HOH A 96 496 496 HOH WAT . C 3 HOH A 97 497 497 HOH WAT . C 3 HOH A 98 498 498 HOH WAT . C 3 HOH A 99 499 499 HOH WAT . C 3 HOH A 100 500 500 HOH WAT . C 3 HOH A 101 501 501 HOH WAT . C 3 HOH A 102 502 502 HOH WAT . C 3 HOH A 103 503 503 HOH WAT . C 3 HOH A 104 504 504 HOH WAT . C 3 HOH A 105 505 505 HOH WAT . C 3 HOH A 106 506 506 HOH WAT . C 3 HOH A 107 507 507 HOH WAT . C 3 HOH A 108 508 508 HOH WAT . C 3 HOH A 109 509 509 HOH WAT . C 3 HOH A 110 510 510 HOH WAT . C 3 HOH A 111 511 511 HOH WAT . C 3 HOH A 112 512 512 HOH WAT . C 3 HOH A 113 513 513 HOH WAT . C 3 HOH A 114 514 514 HOH WAT . C 3 HOH A 115 515 515 HOH WAT . C 3 HOH A 116 516 516 HOH WAT . C 3 HOH A 117 517 517 HOH WAT . C 3 HOH A 118 518 518 HOH WAT . C 3 HOH A 119 519 519 HOH WAT . C 3 HOH A 120 520 520 HOH WAT . C 3 HOH A 121 521 521 HOH WAT . C 3 HOH A 122 522 522 HOH WAT . C 3 HOH A 123 523 523 HOH WAT . C 3 HOH A 124 524 524 HOH WAT . C 3 HOH A 125 525 525 HOH WAT . C 3 HOH A 126 526 526 HOH WAT . C 3 HOH A 127 527 527 HOH WAT . C 3 HOH A 128 528 528 HOH WAT . C 3 HOH A 129 529 529 HOH WAT . C 3 HOH A 130 530 530 HOH WAT . C 3 HOH A 131 531 531 HOH WAT . # 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 -13.97 38.42 6.204 1 29.95 ? N1 PLP 941 A 1 HETATM 2 C C2 PLP . . . B 2 -12.936 38.412 7.188 1 29.01 ? C2 PLP 941 A 1 HETATM 3 C C2A PLP . . . B 2 -11.521 37.924 6.905 1 29.68 ? C2A PLP 941 A 1 HETATM 4 C C3 PLP . . . B 2 -13.22 38.876 8.487 1 28.21 ? C3 PLP 941 A 1 HETATM 5 O O3 PLP . . . B 2 -12.285 38.914 9.519 1 31.05 ? O3 PLP 941 A 1 HETATM 6 C C4 PLP . . . B 2 -14.51 39.359 8.857 1 27.46 ? C4 PLP 941 A 1 HETATM 7 C C4A PLP . . . B 2 -14.664 39.829 10.292 1 23.92 ? C4A PLP 941 A 1 HETATM 8 C C5 PLP . . . B 2 -15.566 39.376 7.856 1 28.37 ? C5 PLP 941 A 1 HETATM 9 C C6 PLP . . . B 2 -15.25 38.903 6.57 1 28.69 ? C6 PLP 941 A 1 HETATM 10 C C5A PLP . . . B 2 -17.046 39.847 7.876 1 27.83 ? C5A PLP 941 A 1 HETATM 11 O O4P PLP . . . B 2 -17.329 40.768 8.976 1 27 ? O4P PLP 941 A 1 HETATM 12 P P PLP . . . B 2 -18.632 41.438 9.292 1 24.7 ? P PLP 941 A 1 HETATM 13 O O1P PLP . . . B 2 -18.999 40.773 10.521 1 25.52 ? O1P PLP 941 A 1 HETATM 14 O O2P PLP . . . B 2 -19.665 41.116 8.323 1 25.48 ? O2P PLP 941 A 1 HETATM 15 O O3P PLP . . . B 2 -18.402 42.874 9.555 1 23.55 ? O3P PLP 941 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #