data_5WT2
#
_model_server_result.job_id            Ijq0hIbnhDc2L3WbnXx0PQ 
_model_server_result.datetime_utc      '2024-10-10 15:23:03' 
_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          5wt2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    5WT2 
#
_exptl.entry_id    5WT2 
_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            5WT2 
_cell.length_a            103.01 
_cell.length_b            103.01 
_cell.length_c            133.65 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5WT2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_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 
_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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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             206 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             LYS 
_struct_conn.ptnr1_auth_seq_id              206 
_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              501 
_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                1.421 
_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 271 n y 
N1 C6 PLP sing 272 n y 
C2 C2A PLP sing 273 n n 
C2 C3 PLP sing 274 n y 
C2A H2A1 PLP sing 275 n n 
C2A H2A2 PLP sing 276 n n 
C2A H2A3 PLP sing 277 n n 
C3 O3 PLP sing 278 n n 
C3 C4 PLP doub 279 n y 
O3 HO3 PLP sing 280 n n 
C4 C4A PLP sing 281 n n 
C4 C5 PLP sing 282 n y 
C4A O4A PLP doub 283 n n 
C4A H4A PLP sing 284 n n 
C5 C6 PLP doub 285 n y 
C5 C5A PLP sing 286 n n 
C6 H6 PLP sing 287 n n 
C5A O4P PLP sing 288 n n 
C5A H5A1 PLP sing 289 n n 
C5A H5A2 PLP sing 290 n n 
O4P P PLP sing 291 n n 
P O1P PLP doub 292 n n 
P O2P PLP sing 293 n n 
P O3P PLP sing 294 n n 
O2P HOP2 PLP sing 295 n n 
O3P HOP3 PLP sing 296 n n 
#
_atom_sites.entry_id                     5WT2 
_atom_sites.fract_transf_matrix[1][1]    0.009708 
_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]    0.009708 
_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]    0.007482 
_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 1 501 1 PLP PLP . 
C 3 IPA A 1 502 1 IPA IPA . 
D 4 CL A 1 503 1 CL CL . 
E 5 HOH A 1 601 48 HOH HOH . 
E 5 HOH A 2 602 6 HOH HOH . 
E 5 HOH A 3 603 29 HOH HOH . 
E 5 HOH A 4 604 18 HOH HOH . 
E 5 HOH A 5 605 28 HOH HOH . 
E 5 HOH A 6 606 34 HOH HOH . 
E 5 HOH A 7 607 61 HOH HOH . 
E 5 HOH A 8 608 52 HOH HOH . 
E 5 HOH A 9 609 56 HOH HOH . 
E 5 HOH A 10 610 26 HOH HOH . 
E 5 HOH A 11 611 51 HOH HOH . 
E 5 HOH A 12 612 55 HOH HOH . 
E 5 HOH A 13 613 58 HOH HOH . 
E 5 HOH A 14 614 19 HOH HOH . 
E 5 HOH A 15 615 25 HOH HOH . 
E 5 HOH A 16 616 66 HOH HOH . 
E 5 HOH A 17 617 8 HOH HOH . 
E 5 HOH A 18 618 57 HOH HOH . 
E 5 HOH A 19 619 38 HOH HOH . 
E 5 HOH A 20 620 22 HOH HOH . 
E 5 HOH A 21 621 37 HOH HOH . 
E 5 HOH A 22 622 16 HOH HOH . 
E 5 HOH A 23 623 10 HOH HOH . 
E 5 HOH A 24 624 41 HOH HOH . 
E 5 HOH A 25 625 24 HOH HOH . 
E 5 HOH A 26 626 33 HOH HOH . 
E 5 HOH A 27 627 2 HOH HOH . 
E 5 HOH A 28 628 7 HOH HOH . 
E 5 HOH A 29 629 68 HOH HOH . 
E 5 HOH A 30 630 20 HOH HOH . 
E 5 HOH A 31 631 47 HOH HOH . 
E 5 HOH A 32 632 1 HOH HOH . 
E 5 HOH A 33 633 17 HOH HOH . 
E 5 HOH A 34 634 40 HOH HOH . 
E 5 HOH A 35 635 14 HOH HOH . 
E 5 HOH A 36 636 15 HOH HOH . 
E 5 HOH A 37 637 67 HOH HOH . 
E 5 HOH A 38 638 5 HOH HOH . 
E 5 HOH A 39 639 60 HOH HOH . 
E 5 HOH A 40 640 32 HOH HOH . 
E 5 HOH A 41 641 39 HOH HOH . 
E 5 HOH A 42 642 59 HOH HOH . 
E 5 HOH A 43 643 3 HOH HOH . 
E 5 HOH A 44 644 13 HOH HOH . 
E 5 HOH A 45 645 4 HOH HOH . 
E 5 HOH A 46 646 73 HOH HOH . 
E 5 HOH A 47 647 64 HOH HOH . 
E 5 HOH A 48 648 62 HOH HOH . 
E 5 HOH A 49 649 21 HOH HOH . 
E 5 HOH A 50 650 23 HOH HOH . 
E 5 HOH A 51 651 9 HOH HOH . 
E 5 HOH A 52 652 45 HOH HOH . 
E 5 HOH A 53 653 27 HOH HOH . 
E 5 HOH A 54 654 54 HOH HOH . 
E 5 HOH A 55 655 11 HOH HOH . 
E 5 HOH A 56 656 30 HOH HOH . 
E 5 HOH A 57 657 50 HOH HOH . 
E 5 HOH A 58 658 36 HOH HOH . 
E 5 HOH A 59 659 12 HOH HOH . 
E 5 HOH A 60 660 46 HOH HOH . 
E 5 HOH A 61 661 31 HOH HOH . 
E 5 HOH A 62 662 63 HOH HOH . 
E 5 HOH A 63 663 53 HOH HOH . 
E 5 HOH A 64 664 35 HOH HOH . 
E 5 HOH A 65 665 70 HOH HOH . 
E 5 HOH A 66 666 65 HOH HOH . 
E 5 HOH A 67 667 49 HOH HOH . 
E 5 HOH A 68 668 71 HOH HOH . 
E 5 HOH A 69 669 43 HOH HOH . 
E 5 HOH A 70 670 42 HOH HOH . 
E 5 HOH A 71 671 72 HOH HOH . 
E 5 HOH A 72 672 44 HOH HOH . 
E 5 HOH A 73 673 69 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 . . . B 2 -18.509 -18.531 -14.592 1 66.72 ? N1 PLP 501 A 1 
HETATM 2 C C2 PLP . . . B 2 -19.152 -19.091 -15.642 1 69.59 ? C2 PLP 501 A 1 
HETATM 3 C C2A PLP . . . B 2 -18.4 -19.363 -16.943 1 68.35 ? C2A PLP 501 A 1 
HETATM 4 C C3 PLP . . . B 2 -20.493 -19.42 -15.54 1 66.39 ? C3 PLP 501 A 1 
HETATM 5 O O3 PLP . . . B 2 -21.16 -20.001 -16.626 1 55.55 ? O3 PLP 501 A 1 
HETATM 6 C C4 PLP . . . B 2 -21.163 -19.18 -14.386 1 59.08 ? C4 PLP 501 A 1 
HETATM 7 C C4A PLP . . . B 2 -22.642 -19.549 -14.281 1 47.12 ? C4A PLP 501 A 1 
HETATM 8 C C5 PLP . . . B 2 -20.515 -18.619 -13.332 1 64.21 ? C5 PLP 501 A 1 
HETATM 9 C C6 PLP . . . B 2 -19.172 -18.292 -13.439 1 64.32 ? C6 PLP 501 A 1 
HETATM 10 C C5A PLP . . . B 2 -21.263 -18.339 -12.03 1 54.05 ? C5A PLP 501 A 1 
HETATM 11 O O4P PLP . . . B 2 -21.281 -19.473 -11.212 1 49.22 ? O4P PLP 501 A 1 
HETATM 12 P P PLP . . . B 2 -22.029 -19.334 -9.749 1 43.59 ? P PLP 501 A 1 
HETATM 13 O O1P PLP . . . B 2 -23.252 -18.46 -9.883 1 41.53 ? O1P PLP 501 A 1 
HETATM 14 O O2P PLP . . . B 2 -21.078 -18.706 -8.76 1 47.71 ? O2P PLP 501 A 1 
HETATM 15 O O3P PLP . . . B 2 -22.442 -20.708 -9.274 1 35.16 ? O3P PLP 501 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           264 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           15 
#