data_8E9T
#
_model_server_result.job_id            YT3sPoqOl5e1YPjK7QffuQ 
_model_server_result.datetime_utc      '2024-11-07 10:28:33' 
_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          8e9t 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    8E9T 
#
_exptl.entry_id    8E9T 
_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         120 
_cell.entry_id            8E9T 
_cell.length_a            143.83 
_cell.length_b            143.83 
_cell.length_c            81.57 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8E9T 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        173 
_symmetry.space_group_name_Hall    'P 6c' 
_symmetry.space_group_name_H-M     'P 63' 
#
_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,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 E N 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             256 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             LYS 
_struct_conn.ptnr1_auth_seq_id              246 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            C 
_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              401 
_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                1.63 
_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 260 n y 
N1 C6 PLP sing 261 n y 
C2 C2A PLP sing 262 n n 
C2 C3 PLP sing 263 n y 
C2A H2A1 PLP sing 264 n n 
C2A H2A2 PLP sing 265 n n 
C2A H2A3 PLP sing 266 n n 
C3 O3 PLP sing 267 n n 
C3 C4 PLP doub 268 n y 
O3 HO3 PLP sing 269 n n 
C4 C4A PLP sing 270 n n 
C4 C5 PLP sing 271 n y 
C4A O4A PLP doub 272 n n 
C4A H4A PLP sing 273 n n 
C5 C6 PLP doub 274 n y 
C5 C5A PLP sing 275 n n 
C6 H6 PLP sing 276 n n 
C5A O4P PLP sing 277 n n 
C5A H5A1 PLP sing 278 n n 
C5A H5A2 PLP sing 279 n n 
O4P P PLP sing 280 n n 
P O1P PLP doub 281 n n 
P O2P PLP sing 282 n n 
P O3P PLP sing 283 n n 
O2P HOP2 PLP sing 284 n n 
O3P HOP3 PLP sing 285 n n 
#
_atom_sites.entry_id                     8E9T 
_atom_sites.fract_transf_matrix[1][1]    0.006953 
_atom_sites.fract_transf_matrix[1][2]    0.004014 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008028 
_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]    0.012259 
_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 1 401 500 PLP PLP . 
D 3 SO4 A 1 402 600 SO4 SO4 . 
E 2 PLP B 1 401 500 PLP PLP . 
F 3 SO4 B 1 402 600 SO4 SO4 . 
G 4 HOH A 1 501 195 HOH HOH . 
G 4 HOH A 2 502 202 HOH HOH . 
G 4 HOH A 3 503 71 HOH HOH . 
G 4 HOH A 4 504 39 HOH HOH . 
G 4 HOH A 5 505 6 HOH HOH . 
G 4 HOH A 6 506 156 HOH HOH . 
G 4 HOH A 7 507 80 HOH HOH . 
G 4 HOH A 8 508 34 HOH HOH . 
G 4 HOH A 9 509 153 HOH HOH . 
G 4 HOH A 10 510 200 HOH HOH . 
G 4 HOH A 11 511 29 HOH HOH . 
G 4 HOH A 12 512 125 HOH HOH . 
G 4 HOH A 13 513 164 HOH HOH . 
G 4 HOH A 14 514 115 HOH HOH . 
G 4 HOH A 15 515 16 HOH HOH . 
G 4 HOH A 16 516 148 HOH HOH . 
G 4 HOH A 17 517 7 HOH HOH . 
G 4 HOH A 18 518 8 HOH HOH . 
G 4 HOH A 19 519 15 HOH HOH . 
G 4 HOH A 20 520 206 HOH HOH . 
G 4 HOH A 21 521 151 HOH HOH . 
G 4 HOH A 22 522 86 HOH HOH . 
G 4 HOH A 23 523 102 HOH HOH . 
G 4 HOH A 24 524 82 HOH HOH . 
G 4 HOH A 25 525 59 HOH HOH . 
G 4 HOH A 26 526 127 HOH HOH . 
G 4 HOH A 27 527 68 HOH HOH . 
G 4 HOH A 28 528 12 HOH HOH . 
G 4 HOH A 29 529 189 HOH HOH . 
G 4 HOH A 30 530 116 HOH HOH . 
G 4 HOH A 31 531 10 HOH HOH . 
G 4 HOH A 32 532 50 HOH HOH . 
G 4 HOH A 33 533 17 HOH HOH . 
G 4 HOH A 34 534 38 HOH HOH . 
G 4 HOH A 35 535 85 HOH HOH . 
G 4 HOH A 36 536 154 HOH HOH . 
G 4 HOH A 37 537 186 HOH HOH . 
G 4 HOH A 38 538 204 HOH HOH . 
G 4 HOH A 39 539 119 HOH HOH . 
G 4 HOH A 40 540 33 HOH HOH . 
G 4 HOH A 41 541 173 HOH HOH . 
G 4 HOH A 42 542 21 HOH HOH . 
G 4 HOH A 43 543 191 HOH HOH . 
G 4 HOH A 44 544 35 HOH HOH . 
G 4 HOH A 45 545 193 HOH HOH . 
G 4 HOH A 46 546 183 HOH HOH . 
G 4 HOH A 47 547 141 HOH HOH . 
G 4 HOH A 48 548 20 HOH HOH . 
G 4 HOH A 49 549 92 HOH HOH . 
G 4 HOH A 50 550 188 HOH HOH . 
G 4 HOH A 51 551 18 HOH HOH . 
G 4 HOH A 52 552 60 HOH HOH . 
G 4 HOH A 53 553 61 HOH HOH . 
G 4 HOH A 54 554 63 HOH HOH . 
G 4 HOH A 55 555 46 HOH HOH . 
G 4 HOH A 56 556 95 HOH HOH . 
G 4 HOH A 57 557 133 HOH HOH . 
G 4 HOH A 58 558 26 HOH HOH . 
G 4 HOH A 59 559 84 HOH HOH . 
G 4 HOH A 60 560 91 HOH HOH . 
G 4 HOH A 61 561 1 HOH HOH . 
G 4 HOH A 62 562 14 HOH HOH . 
G 4 HOH A 63 563 2 HOH HOH . 
G 4 HOH A 64 564 11 HOH HOH . 
G 4 HOH A 65 565 174 HOH HOH . 
G 4 HOH A 66 566 93 HOH HOH . 
G 4 HOH A 67 567 3 HOH HOH . 
G 4 HOH A 68 568 112 HOH HOH . 
G 4 HOH A 69 569 42 HOH HOH . 
G 4 HOH A 70 570 170 HOH HOH . 
G 4 HOH A 71 571 64 HOH HOH . 
G 4 HOH A 72 572 123 HOH HOH . 
G 4 HOH A 73 573 24 HOH HOH . 
G 4 HOH A 74 574 41 HOH HOH . 
G 4 HOH A 75 575 75 HOH HOH . 
G 4 HOH A 76 576 106 HOH HOH . 
G 4 HOH A 77 577 22 HOH HOH . 
G 4 HOH A 78 578 134 HOH HOH . 
G 4 HOH A 79 579 104 HOH HOH . 
G 4 HOH A 80 580 96 HOH HOH . 
G 4 HOH A 81 581 149 HOH HOH . 
G 4 HOH A 82 582 172 HOH HOH . 
G 4 HOH A 83 583 144 HOH HOH . 
G 4 HOH A 84 584 97 HOH HOH . 
G 4 HOH A 85 585 146 HOH HOH . 
G 4 HOH A 86 586 57 HOH HOH . 
G 4 HOH A 87 587 162 HOH HOH . 
G 4 HOH A 88 588 114 HOH HOH . 
G 4 HOH A 89 589 160 HOH HOH . 
G 4 HOH A 90 590 76 HOH HOH . 
G 4 HOH A 91 591 161 HOH HOH . 
G 4 HOH A 92 592 187 HOH HOH . 
G 4 HOH A 93 593 129 HOH HOH . 
G 4 HOH A 94 594 197 HOH HOH . 
G 4 HOH A 95 595 90 HOH HOH . 
G 4 HOH A 96 596 36 HOH HOH . 
G 4 HOH A 97 597 53 HOH HOH . 
G 4 HOH A 98 598 157 HOH HOH . 
G 4 HOH A 99 599 168 HOH HOH . 
G 4 HOH A 100 600 207 HOH HOH . 
G 4 HOH A 101 601 147 HOH HOH . 
G 4 HOH A 102 602 138 HOH HOH . 
H 4 HOH B 1 501 118 HOH HOH . 
H 4 HOH B 2 502 192 HOH HOH . 
H 4 HOH B 3 503 199 HOH HOH . 
H 4 HOH B 4 504 51 HOH HOH . 
H 4 HOH B 5 505 43 HOH HOH . 
H 4 HOH B 6 506 196 HOH HOH . 
H 4 HOH B 7 507 169 HOH HOH . 
H 4 HOH B 8 508 48 HOH HOH . 
H 4 HOH B 9 509 110 HOH HOH . 
H 4 HOH B 10 510 67 HOH HOH . 
H 4 HOH B 11 511 56 HOH HOH . 
H 4 HOH B 12 512 25 HOH HOH . 
H 4 HOH B 13 513 99 HOH HOH . 
H 4 HOH B 14 514 9 HOH HOH . 
H 4 HOH B 15 515 5 HOH HOH . 
H 4 HOH B 16 516 19 HOH HOH . 
H 4 HOH B 17 517 69 HOH HOH . 
H 4 HOH B 18 518 145 HOH HOH . 
H 4 HOH B 19 519 111 HOH HOH . 
H 4 HOH B 20 520 4 HOH HOH . 
H 4 HOH B 21 521 194 HOH HOH . 
H 4 HOH B 22 522 55 HOH HOH . 
H 4 HOH B 23 523 107 HOH HOH . 
H 4 HOH B 24 524 13 HOH HOH . 
H 4 HOH B 25 525 23 HOH HOH . 
H 4 HOH B 26 526 98 HOH HOH . 
H 4 HOH B 27 527 44 HOH HOH . 
H 4 HOH B 28 528 87 HOH HOH . 
H 4 HOH B 29 529 198 HOH HOH . 
H 4 HOH B 30 530 205 HOH HOH . 
H 4 HOH B 31 531 103 HOH HOH . 
H 4 HOH B 32 532 73 HOH HOH . 
H 4 HOH B 33 533 30 HOH HOH . 
H 4 HOH B 34 534 58 HOH HOH . 
H 4 HOH B 35 535 74 HOH HOH . 
H 4 HOH B 36 536 126 HOH HOH . 
H 4 HOH B 37 537 155 HOH HOH . 
H 4 HOH B 38 538 45 HOH HOH . 
H 4 HOH B 39 539 108 HOH HOH . 
H 4 HOH B 40 540 28 HOH HOH . 
H 4 HOH B 41 541 100 HOH HOH . 
H 4 HOH B 42 542 79 HOH HOH . 
H 4 HOH B 43 543 49 HOH HOH . 
H 4 HOH B 44 544 81 HOH HOH . 
H 4 HOH B 45 545 31 HOH HOH . 
H 4 HOH B 46 546 62 HOH HOH . 
H 4 HOH B 47 547 47 HOH HOH . 
H 4 HOH B 48 548 78 HOH HOH . 
H 4 HOH B 49 549 27 HOH HOH . 
H 4 HOH B 50 550 105 HOH HOH . 
H 4 HOH B 51 551 137 HOH HOH . 
H 4 HOH B 52 552 159 HOH HOH . 
H 4 HOH B 53 553 182 HOH HOH . 
H 4 HOH B 54 554 136 HOH HOH . 
H 4 HOH B 55 555 66 HOH HOH . 
H 4 HOH B 56 556 130 HOH HOH . 
H 4 HOH B 57 557 83 HOH HOH . 
H 4 HOH B 58 558 176 HOH HOH . 
H 4 HOH B 59 559 113 HOH HOH . 
H 4 HOH B 60 560 184 HOH HOH . 
H 4 HOH B 61 561 32 HOH HOH . 
H 4 HOH B 62 562 101 HOH HOH . 
H 4 HOH B 63 563 203 HOH HOH . 
H 4 HOH B 64 564 40 HOH HOH . 
H 4 HOH B 65 565 190 HOH HOH . 
H 4 HOH B 66 566 139 HOH HOH . 
H 4 HOH B 67 567 120 HOH HOH . 
H 4 HOH B 68 568 179 HOH HOH . 
H 4 HOH B 69 569 175 HOH HOH . 
H 4 HOH B 70 570 77 HOH HOH . 
H 4 HOH B 71 571 128 HOH HOH . 
H 4 HOH B 72 572 180 HOH HOH . 
H 4 HOH B 73 573 72 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 39.929 -46.999 0.715 1 27.37 ? N1 PLP 401 A 1 
HETATM 2 C C2 PLP . . . C 2 39.879 -48.376 0.776 1 30.44 ? C2 PLP 401 A 1 
HETATM 3 C C2A PLP . . . C 2 40.367 -49.181 -0.393 1 31.32 ? C2A PLP 401 A 1 
HETATM 4 C C3 PLP . . . C 2 39.381 -49.008 1.913 1 35.01 ? C3 PLP 401 A 1 
HETATM 5 O O3 PLP . . . C 2 39.33 -50.375 1.962 1 38.14 ? O3 PLP 401 A 1 
HETATM 6 C C4 PLP . . . C 2 38.929 -48.256 2.995 1 35.68 ? C4 PLP 401 A 1 
HETATM 7 C C4A PLP . . . C 2 38.434 -48.947 4.242 1 34.8 ? C4A PLP 401 A 1 
HETATM 8 C C5 PLP . . . C 2 38.992 -46.864 2.924 1 35.12 ? C5 PLP 401 A 1 
HETATM 9 C C6 PLP . . . C 2 39.474 -46.246 1.775 1 33.12 ? C6 PLP 401 A 1 
HETATM 10 C C5A PLP . . . C 2 38.49 -45.994 4.053 1 37.68 ? C5A PLP 401 A 1 
HETATM 11 O O4P PLP . . . C 2 39.516 -45.584 4.92 1 36.54 ? O4P PLP 401 A 1 
HETATM 12 P P PLP . . . C 2 39.075 -44.772 6.233 1 28.03 ? P PLP 401 A 1 
HETATM 13 O O1P PLP . . . C 2 38.336 -43.524 5.827 1 25.29 ? O1P PLP 401 A 1 
HETATM 14 O O2P PLP . . . C 2 40.315 -44.428 7.019 1 31.27 ? O2P PLP 401 A 1 
HETATM 15 O O3P PLP . . . C 2 38.156 -45.626 7.067 1 23.86 ? O3P PLP 401 A 1 
HETATM 16 H H2A1 PLP . . . C 2 40.189 -50.239 -0.205 1 37.59 ? H2A1 PLP 401 A 1 
HETATM 17 H H2A2 PLP . . . C 2 41.435 -49.011 -0.531 1 37.59 ? H2A2 PLP 401 A 1 
HETATM 18 H H2A3 PLP . . . C 2 39.832 -48.877 -1.293 1 37.59 ? H2A3 PLP 401 A 1 
HETATM 19 H HO3 PLP . . . C 2 38.578 -50.654 2.526 1 45.77 ? HO3 PLP 401 A 1 
HETATM 20 H H6 PLP . . . C 2 39.491 -45.158 1.713 1 39.74 ? H6 PLP 401 A 1 
HETATM 21 H H5A1 PLP . . . C 2 37.743 -46.546 4.623 1 45.22 ? H5A1 PLP 401 A 1 
HETATM 22 H H5A2 PLP . . . C 2 38.006 -45.112 3.633 1 45.22 ? H5A2 PLP 401 A 1 
#
_model_server_stats.io_time_ms              122 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    28 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           22 
#