data_3FZ8
#
_model_server_result.job_id            9zMWuu5mtsRANja-K1ru5g 
_model_server_result.datetime_utc      '2024-11-27 22:11:43' 
_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          3fz8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":500}' 
#
_entry.id    3FZ8 
#
_exptl.entry_id    3FZ8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              233.158 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE' 
_entity.pdbx_number_of_molecules    6 
_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            3FZ8 
_cell.length_a            116.896 
_cell.length_b            116.894 
_cell.length_c            208.586 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3FZ8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        145 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,G,H,I,J,K,L,M 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L 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 276 A LYS 276 1_555 G C4A PLR . A PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.603 ? 
covale ? covale2 B NZ LYS 276 B LYS 276 1_555 H C4A PLR . B PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.495 ? 
covale ? covale3 C NZ LYS 276 C LYS 276 1_555 I C4A PLR . C PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.495 ? 
covale ? covale4 D NZ LYS 276 D LYS 276 1_555 J C4A PLR . D PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.535 ? 
covale ? covale5 E NZ LYS 276 E LYS 276 1_555 K C4A PLR . E PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.513 ? 
covale ? covale6 F NZ LYS 276 F LYS 276 1_555 L C4A PLR . F PLR 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.542 ? 
#
_chem_comp.formula           'C8 H12 N O5 P' 
_chem_comp.formula_weight    233.158 
_chem_comp.id                PLR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "4'-DEOXYPYRIDOXINE 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 PLR doub 260 n y 
N1 C6 PLR sing 261 n y 
C2 C2A PLR sing 262 n n 
C2 C3 PLR sing 263 n y 
C2A H2A1 PLR sing 264 n n 
C2A H2A2 PLR sing 265 n n 
C2A H2A3 PLR sing 266 n n 
C3 O3 PLR sing 267 n n 
C3 C4 PLR doub 268 n y 
O3 HO3 PLR sing 269 n n 
C4 C4A PLR sing 270 n n 
C4 C5 PLR sing 271 n y 
C4A H4A1 PLR sing 272 n n 
C4A H4A2 PLR sing 273 n n 
C4A H4A3 PLR sing 274 n n 
C5 C6 PLR doub 275 n y 
C5 C5A PLR sing 276 n n 
C6 H6 PLR sing 277 n n 
C5A O4P PLR sing 278 n n 
C5A H5A1 PLR sing 279 n n 
C5A H5A2 PLR sing 280 n n 
O4P P PLR sing 281 n n 
P O1P PLR doub 282 n n 
P O2P PLR sing 283 n n 
P O3P PLR sing 284 n n 
O2P H2P PLR sing 285 n n 
O3P H3P PLR sing 286 n n 
#
_atom_sites.entry_id                     3FZ8 
_atom_sites.fract_transf_matrix[1][1]    0.008555 
_atom_sites.fract_transf_matrix[1][2]    0.004939 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009878 
_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]    0.004794 
_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
G 2 PLR A 1 500 500 PLR PLR . 
H 2 PLR B 1 500 500 PLR PLR . 
I 2 PLR C 1 500 500 PLR PLR . 
J 2 PLR D 1 500 500 PLR PLR . 
K 2 PLR E 1 500 500 PLR PLR . 
L 2 PLR F 1 500 500 PLR PLR . 
M 3 HOH E 1 467 1 HOH HOH . 
M 3 HOH E 2 468 2 HOH HOH . 
M 3 HOH E 3 469 3 HOH HOH . 
M 3 HOH E 4 470 4 HOH HOH . 
M 3 HOH E 5 471 5 HOH HOH . 
M 3 HOH E 6 472 6 HOH HOH . 
M 3 HOH E 7 473 7 HOH HOH . 
M 3 HOH E 8 474 8 HOH HOH . 
M 3 HOH E 9 475 9 HOH HOH . 
M 3 HOH E 10 476 10 HOH HOH . 
M 3 HOH E 11 477 11 HOH HOH . 
M 3 HOH E 12 478 12 HOH HOH . 
M 3 HOH E 13 479 13 HOH HOH . 
M 3 HOH E 14 480 14 HOH HOH . 
M 3 HOH E 15 481 15 HOH HOH . 
M 3 HOH E 16 482 16 HOH HOH . 
M 3 HOH E 17 483 17 HOH HOH . 
M 3 HOH E 18 484 18 HOH HOH . 
M 3 HOH E 19 485 19 HOH HOH . 
M 3 HOH E 20 486 20 HOH HOH . 
M 3 HOH E 21 487 21 HOH HOH . 
M 3 HOH E 22 488 22 HOH HOH . 
M 3 HOH E 23 489 23 HOH HOH . 
M 3 HOH E 24 490 24 HOH HOH . 
M 3 HOH E 25 491 25 HOH HOH . 
M 3 HOH E 26 492 26 HOH HOH . 
M 3 HOH E 27 493 27 HOH HOH . 
M 3 HOH E 28 494 28 HOH HOH . 
M 3 HOH E 29 495 29 HOH HOH . 
M 3 HOH E 30 496 30 HOH HOH . 
M 3 HOH E 31 497 31 HOH HOH . 
M 3 HOH E 32 498 32 HOH HOH . 
M 3 HOH E 33 499 33 HOH HOH . 
M 3 HOH E 34 501 34 HOH HOH . 
M 3 HOH E 35 502 35 HOH HOH . 
M 3 HOH E 36 503 36 HOH HOH . 
M 3 HOH E 37 504 37 HOH HOH . 
M 3 HOH E 38 505 38 HOH HOH . 
M 3 HOH E 39 506 39 HOH HOH . 
M 3 HOH E 40 507 40 HOH HOH . 
M 3 HOH E 41 508 41 HOH HOH . 
M 3 HOH E 42 509 42 HOH HOH . 
M 3 HOH E 43 510 43 HOH HOH . 
M 3 HOH E 44 511 44 HOH HOH . 
M 3 HOH E 45 512 45 HOH HOH . 
M 3 HOH E 46 513 46 HOH HOH . 
M 3 HOH E 47 514 47 HOH HOH . 
M 3 HOH E 48 515 48 HOH HOH . 
M 3 HOH E 49 516 49 HOH HOH . 
M 3 HOH E 50 517 50 HOH HOH . 
M 3 HOH E 51 518 51 HOH HOH . 
M 3 HOH E 52 519 52 HOH HOH . 
M 3 HOH E 53 520 53 HOH HOH . 
M 3 HOH E 54 521 54 HOH HOH . 
M 3 HOH E 55 522 55 HOH HOH . 
M 3 HOH E 56 523 56 HOH HOH . 
M 3 HOH E 57 524 57 HOH HOH . 
M 3 HOH E 58 525 58 HOH HOH . 
M 3 HOH E 59 526 59 HOH HOH . 
M 3 HOH E 60 527 60 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 PLR . . . L 2 22.408 29.345 15.151 1 6.5 ? N1 PLR 500 F 1 
HETATM 2 C C2 PLR . . . L 2 22.972 28.232 15.716 1 13.97 ? C2 PLR 500 F 1 
HETATM 3 C C2A PLR . . . L 2 23.564 28.226 17.114 1 5.89 ? C2A PLR 500 F 1 
HETATM 4 C C3 PLR . . . L 2 22.993 27.044 15 1 6.23 ? C3 PLR 500 F 1 
HETATM 5 O O3 PLR . . . L 2 23.558 25.951 15.572 1 14.79 ? O3 PLR 500 F 1 
HETATM 6 C C4 PLR . . . L 2 22.451 26.982 13.726 1 10.73 ? C4 PLR 500 F 1 
HETATM 7 C C4A PLR . . . L 2 22.158 25.708 13.071 1 4.79 ? C4A PLR 500 F 1 
HETATM 8 C C5 PLR . . . L 2 21.885 28.116 13.152 1 5.64 ? C5 PLR 500 F 1 
HETATM 9 C C6 PLR . . . L 2 21.883 29.304 13.906 1 11.09 ? C6 PLR 500 F 1 
HETATM 10 C C5A PLR . . . L 2 21.289 28.054 11.741 1 9.7 ? C5A PLR 500 F 1 
HETATM 11 O O4P PLR . . . L 2 19.996 27.417 11.776 1 3.19 ? O4P PLR 500 F 1 
HETATM 12 P P PLR . . . L 2 19.285 26.634 10.559 1 6.55 ? P PLR 500 F 1 
HETATM 13 O O1P PLR . . . L 2 17.986 26.101 11.115 1 2 ? O1P PLR 500 F 1 
HETATM 14 O O2P PLR . . . L 2 20.308 25.561 10.21 1 2 ? O2P PLR 500 F 1 
HETATM 15 O O3P PLR . . . L 2 19.13 27.784 9.58 1 2 ? O3P PLR 500 F 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           15 
#