data_6GWI
#
_model_server_result.job_id            rcReL3FkJ1lWSL9_yPNKJw 
_model_server_result.datetime_utc      '2025-05-23 21:33:35' 
_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          6gwi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    6GWI 
#
_exptl.entry_id    6GWI 
_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         83.45 
_cell.angle_beta          82.58 
_cell.angle_gamma         72.52 
_cell.entry_id            6GWI 
_cell.length_a            56.344 
_cell.length_b            61.875 
_cell.length_c            67.475 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6GWI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    'P 1' 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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 C N N 
? 2 D 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 285 A LYS 284 1_555 C C4A PLP . A PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale2 B NZ LYS 285 B LYS 284 1_555 D C4A PLP . B PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.232 ? 
#
_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 269 n y 
N1 C6 PLP sing 270 n y 
C2 C2A PLP sing 271 n n 
C2 C3 PLP sing 272 n y 
C2A H2A1 PLP sing 273 n n 
C2A H2A2 PLP sing 274 n n 
C2A H2A3 PLP sing 275 n n 
C3 O3 PLP sing 276 n n 
C3 C4 PLP doub 277 n y 
O3 HO3 PLP sing 278 n n 
C4 C4A PLP sing 279 n n 
C4 C5 PLP sing 280 n y 
C4A O4A PLP doub 281 n n 
C4A H4A PLP sing 282 n n 
C5 C6 PLP doub 283 n y 
C5 C5A PLP sing 284 n n 
C6 H6 PLP sing 285 n n 
C5A O4P PLP sing 286 n n 
C5A H5A1 PLP sing 287 n n 
C5A H5A2 PLP sing 288 n n 
O4P P PLP sing 289 n n 
P O1P PLP doub 290 n n 
P O2P PLP sing 291 n n 
P O3P PLP sing 292 n n 
O2P HOP2 PLP sing 293 n n 
O3P HOP3 PLP sing 294 n n 
#
_atom_sites.entry_id                     6GWI 
_atom_sites.fract_transf_matrix[1][1]    0.017748 
_atom_sites.fract_transf_matrix[1][2]    -0.005589 
_atom_sites.fract_transf_matrix[1][3]    -0.001872 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016944 
_atom_sites.fract_transf_matrix[2][3]    -0.001353 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.014993 
_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 1 501 2 PLP PLP . 
D 2 PLP B 1 501 1 PLP PLP . 
E 3 EDO B 1 502 1 EDO EDO . 
F 4 CL B 1 503 1 CL CL . 
G 5 HOH A 1 601 112 HOH HOH . 
G 5 HOH A 2 602 72 HOH HOH . 
G 5 HOH A 3 603 169 HOH HOH . 
G 5 HOH A 4 604 45 HOH HOH . 
G 5 HOH A 5 605 89 HOH HOH . 
G 5 HOH A 6 606 81 HOH HOH . 
G 5 HOH A 7 607 24 HOH HOH . 
G 5 HOH A 8 608 23 HOH HOH . 
G 5 HOH A 9 609 33 HOH HOH . 
G 5 HOH A 10 610 138 HOH HOH . 
G 5 HOH A 11 611 159 HOH HOH . 
G 5 HOH A 12 612 125 HOH HOH . 
G 5 HOH A 13 613 157 HOH HOH . 
G 5 HOH A 14 614 127 HOH HOH . 
G 5 HOH A 15 615 10 HOH HOH . 
G 5 HOH A 16 616 47 HOH HOH . 
G 5 HOH A 17 617 99 HOH HOH . 
G 5 HOH A 18 618 139 HOH HOH . 
G 5 HOH A 19 619 145 HOH HOH . 
G 5 HOH A 20 620 90 HOH HOH . 
G 5 HOH A 21 621 74 HOH HOH . 
G 5 HOH A 22 622 150 HOH HOH . 
G 5 HOH A 23 623 136 HOH HOH . 
G 5 HOH A 24 624 32 HOH HOH . 
G 5 HOH A 25 625 124 HOH HOH . 
G 5 HOH A 26 626 129 HOH HOH . 
G 5 HOH A 27 627 38 HOH HOH . 
G 5 HOH A 28 628 48 HOH HOH . 
G 5 HOH A 29 629 162 HOH HOH . 
G 5 HOH A 30 630 161 HOH HOH . 
G 5 HOH A 31 631 155 HOH HOH . 
G 5 HOH A 32 632 15 HOH HOH . 
G 5 HOH A 33 633 63 HOH HOH . 
G 5 HOH A 34 634 69 HOH HOH . 
G 5 HOH A 35 635 6 HOH HOH . 
G 5 HOH A 36 636 7 HOH HOH . 
G 5 HOH A 37 637 19 HOH HOH . 
G 5 HOH A 38 638 98 HOH HOH . 
G 5 HOH A 39 639 123 HOH HOH . 
G 5 HOH A 40 640 27 HOH HOH . 
G 5 HOH A 41 641 55 HOH HOH . 
G 5 HOH A 42 642 26 HOH HOH . 
G 5 HOH A 43 643 21 HOH HOH . 
G 5 HOH A 44 644 97 HOH HOH . 
G 5 HOH A 45 645 137 HOH HOH . 
G 5 HOH A 46 646 73 HOH HOH . 
G 5 HOH A 47 647 64 HOH HOH . 
G 5 HOH A 48 648 13 HOH HOH . 
G 5 HOH A 49 649 93 HOH HOH . 
G 5 HOH A 50 650 4 HOH HOH . 
G 5 HOH A 51 651 134 HOH HOH . 
G 5 HOH A 52 652 11 HOH HOH . 
G 5 HOH A 53 653 140 HOH HOH . 
G 5 HOH A 54 654 18 HOH HOH . 
G 5 HOH A 55 655 34 HOH HOH . 
G 5 HOH A 56 656 42 HOH HOH . 
G 5 HOH A 57 657 120 HOH HOH . 
G 5 HOH A 58 658 151 HOH HOH . 
G 5 HOH A 59 659 83 HOH HOH . 
G 5 HOH A 60 660 3 HOH HOH . 
G 5 HOH A 61 661 142 HOH HOH . 
G 5 HOH A 62 662 152 HOH HOH . 
G 5 HOH A 63 663 70 HOH HOH . 
G 5 HOH A 64 664 49 HOH HOH . 
G 5 HOH A 65 665 119 HOH HOH . 
G 5 HOH A 66 666 133 HOH HOH . 
G 5 HOH A 67 667 122 HOH HOH . 
G 5 HOH A 68 668 128 HOH HOH . 
G 5 HOH A 69 669 1 HOH HOH . 
G 5 HOH A 70 670 156 HOH HOH . 
G 5 HOH A 71 671 121 HOH HOH . 
G 5 HOH A 72 672 158 HOH HOH . 
G 5 HOH A 73 673 56 HOH HOH . 
G 5 HOH A 74 674 80 HOH HOH . 
G 5 HOH A 75 675 164 HOH HOH . 
G 5 HOH A 76 676 163 HOH HOH . 
G 5 HOH A 77 677 135 HOH HOH . 
G 5 HOH A 78 678 17 HOH HOH . 
G 5 HOH A 79 679 35 HOH HOH . 
G 5 HOH A 80 680 168 HOH HOH . 
G 5 HOH A 81 681 75 HOH HOH . 
G 5 HOH A 82 682 147 HOH HOH . 
G 5 HOH A 83 683 91 HOH HOH . 
G 5 HOH A 84 684 126 HOH HOH . 
G 5 HOH A 85 685 12 HOH HOH . 
G 5 HOH A 86 686 165 HOH HOH . 
G 5 HOH A 87 687 92 HOH HOH . 
G 5 HOH A 88 688 166 HOH HOH . 
H 5 HOH B 1 601 116 HOH HOH . 
H 5 HOH B 2 602 102 HOH HOH . 
H 5 HOH B 3 603 41 HOH HOH . 
H 5 HOH B 4 604 8 HOH HOH . 
H 5 HOH B 5 605 39 HOH HOH . 
H 5 HOH B 6 606 115 HOH HOH . 
H 5 HOH B 7 607 117 HOH HOH . 
H 5 HOH B 8 608 113 HOH HOH . 
H 5 HOH B 9 609 14 HOH HOH . 
H 5 HOH B 10 610 40 HOH HOH . 
H 5 HOH B 11 611 107 HOH HOH . 
H 5 HOH B 12 612 86 HOH HOH . 
H 5 HOH B 13 613 67 HOH HOH . 
H 5 HOH B 14 614 132 HOH HOH . 
H 5 HOH B 15 615 111 HOH HOH . 
H 5 HOH B 16 616 5 HOH HOH . 
H 5 HOH B 17 617 61 HOH HOH . 
H 5 HOH B 18 618 131 HOH HOH . 
H 5 HOH B 19 619 65 HOH HOH . 
H 5 HOH B 20 620 110 HOH HOH . 
H 5 HOH B 21 621 62 HOH HOH . 
H 5 HOH B 22 622 28 HOH HOH . 
H 5 HOH B 23 623 103 HOH HOH . 
H 5 HOH B 24 624 146 HOH HOH . 
H 5 HOH B 25 625 170 HOH HOH . 
H 5 HOH B 26 626 68 HOH HOH . 
H 5 HOH B 27 627 20 HOH HOH . 
H 5 HOH B 28 628 58 HOH HOH . 
H 5 HOH B 29 629 101 HOH HOH . 
H 5 HOH B 30 630 96 HOH HOH . 
H 5 HOH B 31 631 95 HOH HOH . 
H 5 HOH B 32 632 153 HOH HOH . 
H 5 HOH B 33 633 106 HOH HOH . 
H 5 HOH B 34 634 77 HOH HOH . 
H 5 HOH B 35 635 114 HOH HOH . 
H 5 HOH B 36 636 100 HOH HOH . 
H 5 HOH B 37 637 16 HOH HOH . 
H 5 HOH B 38 638 84 HOH HOH . 
H 5 HOH B 39 639 36 HOH HOH . 
H 5 HOH B 40 640 51 HOH HOH . 
H 5 HOH B 41 641 71 HOH HOH . 
H 5 HOH B 42 642 109 HOH HOH . 
H 5 HOH B 43 643 22 HOH HOH . 
H 5 HOH B 44 644 54 HOH HOH . 
H 5 HOH B 45 645 29 HOH HOH . 
H 5 HOH B 46 646 66 HOH HOH . 
H 5 HOH B 47 647 30 HOH HOH . 
H 5 HOH B 48 648 37 HOH HOH . 
H 5 HOH B 49 649 50 HOH HOH . 
H 5 HOH B 50 650 59 HOH HOH . 
H 5 HOH B 51 651 31 HOH HOH . 
H 5 HOH B 52 652 43 HOH HOH . 
H 5 HOH B 53 653 130 HOH HOH . 
H 5 HOH B 54 654 57 HOH HOH . 
H 5 HOH B 55 655 2 HOH HOH . 
H 5 HOH B 56 656 79 HOH HOH . 
H 5 HOH B 57 657 82 HOH HOH . 
H 5 HOH B 58 658 53 HOH HOH . 
H 5 HOH B 59 659 154 HOH HOH . 
H 5 HOH B 60 660 149 HOH HOH . 
H 5 HOH B 61 661 60 HOH HOH . 
H 5 HOH B 62 662 167 HOH HOH . 
H 5 HOH B 63 663 85 HOH HOH . 
H 5 HOH B 64 664 46 HOH HOH . 
H 5 HOH B 65 665 108 HOH HOH . 
H 5 HOH B 66 666 52 HOH HOH . 
H 5 HOH B 67 667 105 HOH HOH . 
H 5 HOH B 68 668 148 HOH HOH . 
H 5 HOH B 69 669 104 HOH HOH . 
H 5 HOH B 70 670 144 HOH HOH . 
H 5 HOH B 71 671 143 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 . . . D 2 -18.902 15.666 17.423 1 27.25 ? N1 PLP 501 B 1 
HETATM 2 C C2 PLP . . . D 2 -18.962 16.049 18.746 1 25.75 ? C2 PLP 501 B 1 
HETATM 3 C C2A PLP . . . D 2 -20.209 16.702 19.279 1 19.04 ? C2A PLP 501 B 1 
HETATM 4 C C3 PLP . . . D 2 -17.87 15.826 19.581 1 28.49 ? C3 PLP 501 B 1 
HETATM 5 O O3 PLP . . . D 2 -17.951 16.214 20.893 1 22.72 ? O3 PLP 501 B 1 
HETATM 6 C C4 PLP . . . D 2 -16.711 15.208 19.099 1 32.11 ? C4 PLP 501 B 1 
HETATM 7 C C4A PLP . . . D 2 -15.882 14.418 20.078 1 33.98 ? C4A PLP 501 B 1 
HETATM 8 C C5 PLP . . . D 2 -16.667 14.836 17.752 1 27.59 ? C5 PLP 501 B 1 
HETATM 9 C C6 PLP . . . D 2 -17.763 15.065 16.926 1 29.53 ? C6 PLP 501 B 1 
HETATM 10 C C5A PLP . . . D 2 -15.442 14.178 17.154 1 23.92 ? C5A PLP 501 B 1 
HETATM 11 O O4P PLP . . . D 2 -15.332 12.822 17.52 1 22.66 ? O4P PLP 501 B 1 
HETATM 12 P P PLP . . . D 2 -13.903 12.099 17.345 1 21.27 ? P PLP 501 B 1 
HETATM 13 O O1P PLP . . . D 2 -13.485 12.167 15.895 1 19.43 ? O1P PLP 501 B 1 
HETATM 14 O O2P PLP . . . D 2 -14.018 10.665 17.805 1 22.77 ? O2P PLP 501 B 1 
HETATM 15 O O3P PLP . . . D 2 -12.886 12.817 18.193 1 16.68 ? O3P PLP 501 B 1 
HETATM 16 H H2A1 PLP . . . D 2 -20.065 16.956 20.329 1 22.89 ? H2A1 PLP 501 B 1 
HETATM 17 H H2A2 PLP . . . D 2 -21.048 16.013 19.184 1 22.89 ? H2A2 PLP 501 B 1 
HETATM 18 H H2A3 PLP . . . D 2 -20.415 17.608 18.711 1 22.89 ? H2A3 PLP 501 B 1 
HETATM 19 H HO3 PLP . . . D 2 -17.081 16.088 21.326 1 27.3 ? HO3 PLP 501 B 1 
HETATM 20 H H6 PLP . . . D 2 -17.722 14.767 15.878 1 35.48 ? H6 PLP 501 B 1 
HETATM 21 H H5A1 PLP . . . D 2 -14.552 14.711 17.487 1 28.75 ? H5A1 PLP 501 B 1 
HETATM 22 H H5A2 PLP . . . D 2 -15.491 14.252 16.068 1 28.75 ? H5A2 PLP 501 B 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           22 
#