data_5WLW
#
_model_server_result.job_id            0a28vV6seHQCklbOdsvxxw 
_model_server_result.datetime_utc      '2024-11-15 18:25:16' 
_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          5wlw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":501}' 
#
_entry.id    5WLW 
#
_exptl.entry_id    5WLW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          5 
_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            5WLW 
_cell.length_a            97.529 
_cell.length_b            121.241 
_cell.length_c            151.484 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5WLW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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,N 
_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
? 5 I N N 
? 5 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 207 A LYS 258 1_555 I C4A PLP . A PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale2 C OG SER 36 C SER 36 1_555 J P24 8Q1 . C 8Q1 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.56 ? 
covale ? covale3 E NZ LYS 207 E LYS 258 1_555 L C4A PLP . E PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
metalc ? metalc1 A SG CYS 330 A CYS 381 1_555 K ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.868 ? 
metalc ? metalc2 D OD2 ASP 46 D ASP 46 1_555 K ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc3 D SG CYS 70 D CYS 70 1_555 K ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.824 ? 
metalc ? metalc4 E SG CYS 330 E CYS 381 1_555 N ZN ZN . H ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? 
metalc ? metalc5 H OD2 ASP 46 H ASP 46 1_555 N ZN ZN . H ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
metalc ? metalc6 H SG CYS 70 H CYS 70 1_555 N ZN ZN . H ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.865 ? 
#
_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 337 n y 
N1 C6 PLP sing 338 n y 
C2 C2A PLP sing 339 n n 
C2 C3 PLP sing 340 n y 
C2A H2A1 PLP sing 341 n n 
C2A H2A2 PLP sing 342 n n 
C2A H2A3 PLP sing 343 n n 
C3 O3 PLP sing 344 n n 
C3 C4 PLP doub 345 n y 
O3 HO3 PLP sing 346 n n 
C4 C4A PLP sing 347 n n 
C4 C5 PLP sing 348 n y 
C4A O4A PLP doub 349 n n 
C4A H4A PLP sing 350 n n 
C5 C6 PLP doub 351 n y 
C5 C5A PLP sing 352 n n 
C6 H6 PLP sing 353 n n 
C5A O4P PLP sing 354 n n 
C5A H5A1 PLP sing 355 n n 
C5A H5A2 PLP sing 356 n n 
O4P P PLP sing 357 n n 
P O1P PLP doub 358 n n 
P O2P PLP sing 359 n n 
P O3P PLP sing 360 n n 
O2P HOP2 PLP sing 361 n n 
O3P HOP3 PLP sing 362 n n 
#
_atom_sites.entry_id                     5WLW 
_atom_sites.fract_transf_matrix[1][1]    0.010253 
_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]    0.008248 
_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]    0.006601 
_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
I 5 PLP A 1 501 460 PLP PLP . 
J 6 8Q1 C 1 301 301 8Q1 PM8 . 
K 7 ZN D 1 201 2 ZN ZN . 
L 5 PLP E 1 501 460 PLP PLP . 
M 6 8Q1 G 1 301 301 8Q1 PM8 . 
N 7 ZN H 1 201 1 ZN ZN . 
#
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 . . . L 5 44.183 62.611 72.942 1 52.8 ? N1 PLP 501 E 1 
HETATM 2 C C2 PLP . . . L 5 44.079 63.055 74.214 1 57.88 ? C2 PLP 501 E 1 
HETATM 3 C C2A PLP . . . L 5 43.634 64.491 74.483 1 52.84 ? C2A PLP 501 E 1 
HETATM 4 C C3 PLP . . . L 5 44.379 62.208 75.269 1 70.46 ? C3 PLP 501 E 1 
HETATM 5 O O3 PLP . . . L 5 44.27 62.674 76.585 1 76.25 ? O3 PLP 501 E 1 
HETATM 6 C C4 PLP . . . L 5 44.773 60.932 75.028 1 76.07 ? C4 PLP 501 E 1 
HETATM 7 C C4A PLP . . . L 5 45.107 59.988 76.186 1 84.85 ? C4A PLP 501 E 1 
HETATM 8 C C5 PLP . . . L 5 44.876 60.49 73.75 1 69.25 ? C5 PLP 501 E 1 
HETATM 9 C C6 PLP . . . L 5 44.578 61.341 72.699 1 57.94 ? C6 PLP 501 E 1 
HETATM 10 C C5A PLP . . . L 5 45.327 59.056 73.475 1 69.39 ? C5A PLP 501 E 1 
HETATM 11 O O4P PLP . . . L 5 44.485 58.415 72.559 1 64.18 ? O4P PLP 501 E 1 
HETATM 12 P P PLP . . . L 5 44.653 56.781 72.407 1 71.81 ? P PLP 501 E 1 
HETATM 13 O O1P PLP . . . L 5 44.676 56.4 70.948 1 81.37 ? O1P PLP 501 E 1 
HETATM 14 O O2P PLP . . . L 5 43.499 56.094 73.101 1 61.64 ? O2P PLP 501 E 1 
HETATM 15 O O3P PLP . . . L 5 45.953 56.354 73.047 1 79.35 ? O3P PLP 501 E 1 
HETATM 16 H H6 PLP . . . L 5 44.649 61.037 71.823 1 70.31 ? H6 PLP 501 E 1 
#
_model_server_stats.io_time_ms              27 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           16 
#