data_7UB8
#
_model_server_result.job_id            kHdMEiX4MKCaoL4hNklC-A 
_model_server_result.datetime_utc      '2024-12-15 08:43:16' 
_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          7ub8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    7UB8 
#
_exptl.entry_id    7UB8 
_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    2 
_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            7UB8 
_cell.length_a            129.646 
_cell.length_b            129.646 
_cell.length_c            76.911 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7UB8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,H 1 1 
B,F,G,I 2 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 G N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_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
_struct_conn.pdbx_value_order
covale ? covale1 A NZ LYS 36 A LYS 36 1_555 C C4A PLP . A PLP 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.386 ? 
covale ? covale2 B NZ LYS 36 B LYS 36 1_555 G C4A PLP . B PLP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
#
_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                     7UB8 
_atom_sites.fract_transf_matrix[1][1]    0.007713 
_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]    0.007713 
_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]    0.013002 
_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
C 2 PLP A 1 301 306 PLP PLP . 
D 3 BU1 A 1 302 249 BU1 BU1 . 
E 3 BU1 A 1 303 251 BU1 BU1 . 
F 3 BU1 B 1 301 250 BU1 BU1 . 
G 2 PLP B 1 302 306 PLP PLP . 
H 4 HOH A 1 401 87 HOH HOH . 
H 4 HOH A 2 402 13 HOH HOH . 
H 4 HOH A 3 403 165 HOH HOH . 
H 4 HOH A 4 404 164 HOH HOH . 
H 4 HOH A 5 405 163 HOH HOH . 
H 4 HOH A 6 406 111 HOH HOH . 
H 4 HOH A 7 407 149 HOH HOH . 
H 4 HOH A 8 408 186 HOH HOH . 
H 4 HOH A 9 409 123 HOH HOH . 
H 4 HOH A 10 410 141 HOH HOH . 
H 4 HOH A 11 411 126 HOH HOH . 
H 4 HOH A 12 412 70 HOH HOH . 
H 4 HOH A 13 413 177 HOH HOH . 
H 4 HOH A 14 414 68 HOH HOH . 
H 4 HOH A 15 415 38 HOH HOH . 
H 4 HOH A 16 416 92 HOH HOH . 
H 4 HOH A 17 417 48 HOH HOH . 
H 4 HOH A 18 418 1 HOH HOH . 
H 4 HOH A 19 419 51 HOH HOH . 
H 4 HOH A 20 420 72 HOH HOH . 
H 4 HOH A 21 421 11 HOH HOH . 
H 4 HOH A 22 422 26 HOH HOH . 
H 4 HOH A 23 423 103 HOH HOH . 
H 4 HOH A 24 424 24 HOH HOH . 
H 4 HOH A 25 425 6 HOH HOH . 
H 4 HOH A 26 426 52 HOH HOH . 
H 4 HOH A 27 427 85 HOH HOH . 
H 4 HOH A 28 428 67 HOH HOH . 
H 4 HOH A 29 429 2 HOH HOH . 
H 4 HOH A 30 430 14 HOH HOH . 
H 4 HOH A 31 431 188 HOH HOH . 
H 4 HOH A 32 432 40 HOH HOH . 
H 4 HOH A 33 433 58 HOH HOH . 
H 4 HOH A 34 434 32 HOH HOH . 
H 4 HOH A 35 435 132 HOH HOH . 
H 4 HOH A 36 436 19 HOH HOH . 
H 4 HOH A 37 437 21 HOH HOH . 
H 4 HOH A 38 438 96 HOH HOH . 
H 4 HOH A 39 439 151 HOH HOH . 
H 4 HOH A 40 440 73 HOH HOH . 
H 4 HOH A 41 441 81 HOH HOH . 
H 4 HOH A 42 442 7 HOH HOH . 
H 4 HOH A 43 443 120 HOH HOH . 
H 4 HOH A 44 444 128 HOH HOH . 
H 4 HOH A 45 445 53 HOH HOH . 
H 4 HOH A 46 446 152 HOH HOH . 
H 4 HOH A 47 447 9 HOH HOH . 
H 4 HOH A 48 448 93 HOH HOH . 
H 4 HOH A 49 449 56 HOH HOH . 
H 4 HOH A 50 450 33 HOH HOH . 
H 4 HOH A 51 451 64 HOH HOH . 
H 4 HOH A 52 452 5 HOH HOH . 
H 4 HOH A 53 453 100 HOH HOH . 
H 4 HOH A 54 454 66 HOH HOH . 
H 4 HOH A 55 455 39 HOH HOH . 
H 4 HOH A 56 456 118 HOH HOH . 
H 4 HOH A 57 457 161 HOH HOH . 
H 4 HOH A 58 458 69 HOH HOH . 
H 4 HOH A 59 459 55 HOH HOH . 
H 4 HOH A 60 460 99 HOH HOH . 
H 4 HOH A 61 461 76 HOH HOH . 
H 4 HOH A 62 462 3 HOH HOH . 
H 4 HOH A 63 463 34 HOH HOH . 
H 4 HOH A 64 464 97 HOH HOH . 
H 4 HOH A 65 465 78 HOH HOH . 
H 4 HOH A 66 466 63 HOH HOH . 
H 4 HOH A 67 467 43 HOH HOH . 
H 4 HOH A 68 468 122 HOH HOH . 
H 4 HOH A 69 469 57 HOH HOH . 
H 4 HOH A 70 470 115 HOH HOH . 
H 4 HOH A 71 471 82 HOH HOH . 
H 4 HOH A 72 472 170 HOH HOH . 
H 4 HOH A 73 473 47 HOH HOH . 
H 4 HOH A 74 474 49 HOH HOH . 
H 4 HOH A 75 475 154 HOH HOH . 
H 4 HOH A 76 476 50 HOH HOH . 
H 4 HOH A 77 477 46 HOH HOH . 
H 4 HOH A 78 478 171 HOH HOH . 
H 4 HOH A 79 479 59 HOH HOH . 
H 4 HOH A 80 480 147 HOH HOH . 
H 4 HOH A 81 481 139 HOH HOH . 
H 4 HOH A 82 482 178 HOH HOH . 
H 4 HOH A 83 483 71 HOH HOH . 
H 4 HOH A 84 484 31 HOH HOH . 
H 4 HOH A 85 485 116 HOH HOH . 
H 4 HOH A 86 486 176 HOH HOH . 
H 4 HOH A 87 487 153 HOH HOH . 
H 4 HOH A 88 488 148 HOH HOH . 
H 4 HOH A 89 489 117 HOH HOH . 
H 4 HOH A 90 490 146 HOH HOH . 
H 4 HOH A 91 491 173 HOH HOH . 
H 4 HOH A 92 492 166 HOH HOH . 
H 4 HOH A 93 493 145 HOH HOH . 
H 4 HOH A 94 494 174 HOH HOH . 
H 4 HOH A 95 495 180 HOH HOH . 
H 4 HOH A 96 496 112 HOH HOH . 
H 4 HOH A 97 497 187 HOH HOH . 
H 4 HOH A 98 498 140 HOH HOH . 
H 4 HOH A 99 499 172 HOH HOH . 
H 4 HOH A 100 500 179 HOH HOH . 
H 4 HOH A 101 501 131 HOH HOH . 
H 4 HOH A 102 502 130 HOH HOH . 
H 4 HOH A 103 503 160 HOH HOH . 
H 4 HOH A 104 504 175 HOH HOH . 
H 4 HOH A 105 505 101 HOH HOH . 
H 4 HOH A 106 506 60 HOH HOH . 
H 4 HOH A 107 507 121 HOH HOH . 
H 4 HOH A 108 508 108 HOH HOH . 
H 4 HOH A 109 509 162 HOH HOH . 
H 4 HOH A 110 510 105 HOH HOH . 
I 4 HOH B 1 401 29 HOH HOH . 
I 4 HOH B 2 402 25 HOH HOH . 
I 4 HOH B 3 403 4 HOH HOH . 
I 4 HOH B 4 404 182 HOH HOH . 
I 4 HOH B 5 405 61 HOH HOH . 
I 4 HOH B 6 406 119 HOH HOH . 
I 4 HOH B 7 407 16 HOH HOH . 
I 4 HOH B 8 408 88 HOH HOH . 
I 4 HOH B 9 409 54 HOH HOH . 
I 4 HOH B 10 410 22 HOH HOH . 
I 4 HOH B 11 411 113 HOH HOH . 
I 4 HOH B 12 412 8 HOH HOH . 
I 4 HOH B 13 413 44 HOH HOH . 
I 4 HOH B 14 414 155 HOH HOH . 
I 4 HOH B 15 415 35 HOH HOH . 
I 4 HOH B 16 416 12 HOH HOH . 
I 4 HOH B 17 417 158 HOH HOH . 
I 4 HOH B 18 418 79 HOH HOH . 
I 4 HOH B 19 419 28 HOH HOH . 
I 4 HOH B 20 420 124 HOH HOH . 
I 4 HOH B 21 421 20 HOH HOH . 
I 4 HOH B 22 422 74 HOH HOH . 
I 4 HOH B 23 423 125 HOH HOH . 
I 4 HOH B 24 424 143 HOH HOH . 
I 4 HOH B 25 425 18 HOH HOH . 
I 4 HOH B 26 426 138 HOH HOH . 
I 4 HOH B 27 427 45 HOH HOH . 
I 4 HOH B 28 428 10 HOH HOH . 
I 4 HOH B 29 429 114 HOH HOH . 
I 4 HOH B 30 430 30 HOH HOH . 
I 4 HOH B 31 431 62 HOH HOH . 
I 4 HOH B 32 432 77 HOH HOH . 
I 4 HOH B 33 433 36 HOH HOH . 
I 4 HOH B 34 434 95 HOH HOH . 
I 4 HOH B 35 435 15 HOH HOH . 
I 4 HOH B 36 436 135 HOH HOH . 
I 4 HOH B 37 437 129 HOH HOH . 
I 4 HOH B 38 438 109 HOH HOH . 
I 4 HOH B 39 439 167 HOH HOH . 
I 4 HOH B 40 440 86 HOH HOH . 
I 4 HOH B 41 441 169 HOH HOH . 
I 4 HOH B 42 442 156 HOH HOH . 
I 4 HOH B 43 443 134 HOH HOH . 
I 4 HOH B 44 444 75 HOH HOH . 
I 4 HOH B 45 445 181 HOH HOH . 
I 4 HOH B 46 446 37 HOH HOH . 
I 4 HOH B 47 447 150 HOH HOH . 
I 4 HOH B 48 448 94 HOH HOH . 
I 4 HOH B 49 449 142 HOH HOH . 
I 4 HOH B 50 450 159 HOH HOH . 
I 4 HOH B 51 451 127 HOH HOH . 
I 4 HOH B 52 452 17 HOH HOH . 
I 4 HOH B 53 453 65 HOH HOH . 
I 4 HOH B 54 454 137 HOH HOH . 
I 4 HOH B 55 455 189 HOH HOH . 
I 4 HOH B 56 456 185 HOH HOH . 
I 4 HOH B 57 457 27 HOH HOH . 
I 4 HOH B 58 458 110 HOH HOH . 
I 4 HOH B 59 459 106 HOH HOH . 
I 4 HOH B 60 460 107 HOH HOH . 
I 4 HOH B 61 461 102 HOH HOH . 
I 4 HOH B 62 462 89 HOH HOH . 
I 4 HOH B 63 463 23 HOH HOH . 
I 4 HOH B 64 464 157 HOH HOH . 
I 4 HOH B 65 465 84 HOH HOH . 
I 4 HOH B 66 466 41 HOH HOH . 
I 4 HOH B 67 467 80 HOH HOH . 
I 4 HOH B 68 468 91 HOH HOH . 
I 4 HOH B 69 469 183 HOH HOH . 
I 4 HOH B 70 470 104 HOH HOH . 
I 4 HOH B 71 471 136 HOH HOH . 
I 4 HOH B 72 472 83 HOH HOH . 
I 4 HOH B 73 473 90 HOH HOH . 
I 4 HOH B 74 474 184 HOH HOH . 
I 4 HOH B 75 475 144 HOH HOH . 
I 4 HOH B 76 476 98 HOH HOH . 
I 4 HOH B 77 477 42 HOH HOH . 
I 4 HOH B 78 478 133 HOH HOH . 
I 4 HOH B 79 479 168 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 . . . C 2 -11.171 36.76 5.089 1 17.95 ? N1 PLP 301 A 1 
HETATM 2 C C2 PLP . . . C 2 -11.628 36.414 3.836 1 19.2 ? C2 PLP 301 A 1 
HETATM 3 C C2A PLP . . . C 2 -11.96 37.507 2.862 1 10.06 ? C2A PLP 301 A 1 
HETATM 4 C C3 PLP . . . C 2 -11.759 35.067 3.513 1 21.14 ? C3 PLP 301 A 1 
HETATM 5 O O3 PLP . . . C 2 -12.226 34.735 2.281 1 17.67 ? O3 PLP 301 A 1 
HETATM 6 C C4 PLP . . . C 2 -11.434 34.07 4.45 1 22.85 ? C4 PLP 301 A 1 
HETATM 7 C C4A PLP . . . C 2 -11.792 32.633 4.215 1 21.61 ? C4A PLP 301 A 1 
HETATM 8 C C5 PLP . . . C 2 -10.983 34.452 5.708 1 20.19 ? C5 PLP 301 A 1 
HETATM 9 C C6 PLP . . . C 2 -10.849 35.792 6.004 1 14.24 ? C6 PLP 301 A 1 
HETATM 10 C C5A PLP . . . C 2 -10.592 33.446 6.77 1 27.56 ? C5A PLP 301 A 1 
HETATM 11 O O4P PLP . . . C 2 -9.472 32.69 6.327 1 36.24 ? O4P PLP 301 A 1 
HETATM 12 P P PLP . . . C 2 -8.618 31.76 7.351 1 42.33 ? P PLP 301 A 1 
HETATM 13 O O1P PLP . . . C 2 -7.265 31.452 6.746 1 54.06 ? O1P PLP 301 A 1 
HETATM 14 O O2P PLP . . . C 2 -8.415 32.491 8.666 1 31.84 ? O2P PLP 301 A 1 
HETATM 15 O O3P PLP . . . C 2 -9.361 30.462 7.51 1 24.27 ? O3P PLP 301 A 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           15 
#