data_9KRO
#
_model_server_result.job_id            gg8KnSqSl08rRZfvs20L_Q 
_model_server_result.datetime_utc      '2025-06-23 18:41:02' 
_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          9kro 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":501}' 
#
_entry.id    9KRO 
#
_exptl.entry_id    9KRO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              336.235 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE' 
_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            9KRO 
_cell.length_a            118.82 
_cell.length_b            118.82 
_cell.length_c            163.6 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9KRO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    'P 4abw 2nw' 
_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,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 
#
_chem_comp.formula           'C11 H17 N2 O8 P' 
_chem_comp.formula_weight    336.235 
_chem_comp.id                PLS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     PYRIDOXYL-SERINE-5-MONOPHOSPHATE 
#
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
N CA PLS sing 311 n n 
N C4A PLS sing 312 n n 
N HN PLS sing 313 n n 
CA CB PLS sing 314 n n 
CA C PLS sing 315 n n 
CA HA PLS sing 316 n n 
CB OG PLS sing 317 n n 
CB HB1 PLS sing 318 n n 
CB HB2 PLS sing 319 n n 
OG HOG PLS sing 320 n n 
C O PLS doub 321 n n 
C OXT PLS sing 322 n n 
OXT HXT PLS sing 323 n n 
N1 C2 PLS doub 324 n y 
N1 C6 PLS sing 325 n y 
C2 C2A PLS sing 326 n n 
C2 C3 PLS sing 327 n y 
C2A H2A1 PLS sing 328 n n 
C2A H2A2 PLS sing 329 n n 
C2A H2A3 PLS sing 330 n n 
C3 O3 PLS sing 331 n n 
C3 C4 PLS doub 332 n y 
O3 HO3 PLS sing 333 n n 
C4 C4A PLS sing 334 n n 
C4 C5 PLS sing 335 n y 
C4A H4A1 PLS sing 336 n n 
C4A H4A2 PLS sing 337 n n 
C5 C6 PLS doub 338 n y 
C5 C5A PLS sing 339 n n 
C6 H6 PLS sing 340 n n 
C5A O4P PLS sing 341 n n 
C5A H5A1 PLS sing 342 n n 
C5A H5A2 PLS sing 343 n n 
O4P P PLS sing 344 n n 
P O1P PLS doub 345 n n 
P O2P PLS sing 346 n n 
P O3P PLS sing 347 n n 
O2P HOP2 PLS sing 348 n n 
O3P HOP3 PLS sing 349 n n 
#
_atom_sites.entry_id                     9KRO 
_atom_sites.fract_transf_matrix[1][1]    0.008416 
_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]    0.008416 
_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]    0.006112 
_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 PLS A 1 501 502 PLS PLS . 
D 3 HZI A 1 502 503 HZI HZI . 
E 2 PLS B 1 501 502 PLS PLS . 
F 3 HZI B 1 502 503 HZI HZI . 
G 4 HOH A 1 601 145 HOH HOH . 
G 4 HOH A 2 602 159 HOH HOH . 
G 4 HOH A 3 603 126 HOH HOH . 
G 4 HOH A 4 604 167 HOH HOH . 
G 4 HOH A 5 605 187 HOH HOH . 
G 4 HOH A 6 606 3 HOH HOH . 
G 4 HOH A 7 607 61 HOH HOH . 
G 4 HOH A 8 608 64 HOH HOH . 
G 4 HOH A 9 609 164 HOH HOH . 
G 4 HOH A 10 610 8 HOH HOH . 
G 4 HOH A 11 611 37 HOH HOH . 
G 4 HOH A 12 612 56 HOH HOH . 
G 4 HOH A 13 613 160 HOH HOH . 
G 4 HOH A 14 614 139 HOH HOH . 
G 4 HOH A 15 615 49 HOH HOH . 
G 4 HOH A 16 616 82 HOH HOH . 
G 4 HOH A 17 617 154 HOH HOH . 
G 4 HOH A 18 618 168 HOH HOH . 
G 4 HOH A 19 619 68 HOH HOH . 
G 4 HOH A 20 620 4 HOH HOH . 
G 4 HOH A 21 621 17 HOH HOH . 
G 4 HOH A 22 622 98 HOH HOH . 
G 4 HOH A 23 623 46 HOH HOH . 
G 4 HOH A 24 624 31 HOH HOH . 
G 4 HOH A 25 625 121 HOH HOH . 
G 4 HOH A 26 626 13 HOH HOH . 
G 4 HOH A 27 627 182 HOH HOH . 
G 4 HOH A 28 628 65 HOH HOH . 
G 4 HOH A 29 629 21 HOH HOH . 
G 4 HOH A 30 630 147 HOH HOH . 
G 4 HOH A 31 631 88 HOH HOH . 
G 4 HOH A 32 632 158 HOH HOH . 
G 4 HOH A 33 633 86 HOH HOH . 
G 4 HOH A 34 634 18 HOH HOH . 
G 4 HOH A 35 635 59 HOH HOH . 
G 4 HOH A 36 636 103 HOH HOH . 
G 4 HOH A 37 637 116 HOH HOH . 
G 4 HOH A 38 638 14 HOH HOH . 
G 4 HOH A 39 639 11 HOH HOH . 
G 4 HOH A 40 640 50 HOH HOH . 
G 4 HOH A 41 641 120 HOH HOH . 
G 4 HOH A 42 642 117 HOH HOH . 
G 4 HOH A 43 643 66 HOH HOH . 
G 4 HOH A 44 644 132 HOH HOH . 
G 4 HOH A 45 645 105 HOH HOH . 
G 4 HOH A 46 646 7 HOH HOH . 
G 4 HOH A 47 647 39 HOH HOH . 
G 4 HOH A 48 648 22 HOH HOH . 
G 4 HOH A 49 649 89 HOH HOH . 
G 4 HOH A 50 650 165 HOH HOH . 
G 4 HOH A 51 651 90 HOH HOH . 
G 4 HOH A 52 652 93 HOH HOH . 
G 4 HOH A 53 653 28 HOH HOH . 
G 4 HOH A 54 654 104 HOH HOH . 
G 4 HOH A 55 655 20 HOH HOH . 
G 4 HOH A 56 656 109 HOH HOH . 
G 4 HOH A 57 657 72 HOH HOH . 
G 4 HOH A 58 658 45 HOH HOH . 
G 4 HOH A 59 659 67 HOH HOH . 
G 4 HOH A 60 660 92 HOH HOH . 
G 4 HOH A 61 661 38 HOH HOH . 
G 4 HOH A 62 662 40 HOH HOH . 
G 4 HOH A 63 663 41 HOH HOH . 
G 4 HOH A 64 664 25 HOH HOH . 
G 4 HOH A 65 665 108 HOH HOH . 
G 4 HOH A 66 666 84 HOH HOH . 
G 4 HOH A 67 667 74 HOH HOH . 
G 4 HOH A 68 668 53 HOH HOH . 
G 4 HOH A 69 669 135 HOH HOH . 
G 4 HOH A 70 670 181 HOH HOH . 
G 4 HOH A 71 671 33 HOH HOH . 
G 4 HOH A 72 672 173 HOH HOH . 
G 4 HOH A 73 673 176 HOH HOH . 
G 4 HOH A 74 674 156 HOH HOH . 
G 4 HOH A 75 675 194 HOH HOH . 
G 4 HOH A 76 676 150 HOH HOH . 
G 4 HOH A 77 677 143 HOH HOH . 
G 4 HOH A 78 678 197 HOH HOH . 
G 4 HOH A 79 679 87 HOH HOH . 
G 4 HOH A 80 680 102 HOH HOH . 
G 4 HOH A 81 681 113 HOH HOH . 
G 4 HOH A 82 682 100 HOH HOH . 
G 4 HOH A 83 683 131 HOH HOH . 
G 4 HOH A 84 684 118 HOH HOH . 
G 4 HOH A 85 685 157 HOH HOH . 
G 4 HOH A 86 686 171 HOH HOH . 
G 4 HOH A 87 687 133 HOH HOH . 
G 4 HOH A 88 688 151 HOH HOH . 
G 4 HOH A 89 689 170 HOH HOH . 
G 4 HOH A 90 690 172 HOH HOH . 
G 4 HOH A 91 691 179 HOH HOH . 
G 4 HOH A 92 692 119 HOH HOH . 
G 4 HOH A 93 693 166 HOH HOH . 
G 4 HOH A 94 694 146 HOH HOH . 
G 4 HOH A 95 695 184 HOH HOH . 
G 4 HOH A 96 696 188 HOH HOH . 
G 4 HOH A 97 697 196 HOH HOH . 
G 4 HOH A 98 698 141 HOH HOH . 
G 4 HOH A 99 699 110 HOH HOH . 
G 4 HOH A 100 700 192 HOH HOH . 
G 4 HOH A 101 701 177 HOH HOH . 
G 4 HOH A 102 702 189 HOH HOH . 
G 4 HOH A 103 703 174 HOH HOH . 
G 4 HOH A 104 704 138 HOH HOH . 
G 4 HOH A 105 705 44 HOH HOH . 
G 4 HOH A 106 706 128 HOH HOH . 
G 4 HOH A 107 707 161 HOH HOH . 
G 4 HOH A 108 708 193 HOH HOH . 
H 4 HOH B 1 601 175 HOH HOH . 
H 4 HOH B 2 602 114 HOH HOH . 
H 4 HOH B 3 603 125 HOH HOH . 
H 4 HOH B 4 604 9 HOH HOH . 
H 4 HOH B 5 605 178 HOH HOH . 
H 4 HOH B 6 606 24 HOH HOH . 
H 4 HOH B 7 607 195 HOH HOH . 
H 4 HOH B 8 608 12 HOH HOH . 
H 4 HOH B 9 609 112 HOH HOH . 
H 4 HOH B 10 610 6 HOH HOH . 
H 4 HOH B 11 611 51 HOH HOH . 
H 4 HOH B 12 612 54 HOH HOH . 
H 4 HOH B 13 613 96 HOH HOH . 
H 4 HOH B 14 614 71 HOH HOH . 
H 4 HOH B 15 615 2 HOH HOH . 
H 4 HOH B 16 616 85 HOH HOH . 
H 4 HOH B 17 617 122 HOH HOH . 
H 4 HOH B 18 618 35 HOH HOH . 
H 4 HOH B 19 619 5 HOH HOH . 
H 4 HOH B 20 620 58 HOH HOH . 
H 4 HOH B 21 621 76 HOH HOH . 
H 4 HOH B 22 622 16 HOH HOH . 
H 4 HOH B 23 623 1 HOH HOH . 
H 4 HOH B 24 624 69 HOH HOH . 
H 4 HOH B 25 625 23 HOH HOH . 
H 4 HOH B 26 626 107 HOH HOH . 
H 4 HOH B 27 627 42 HOH HOH . 
H 4 HOH B 28 628 36 HOH HOH . 
H 4 HOH B 29 629 30 HOH HOH . 
H 4 HOH B 30 630 75 HOH HOH . 
H 4 HOH B 31 631 77 HOH HOH . 
H 4 HOH B 32 632 63 HOH HOH . 
H 4 HOH B 33 633 94 HOH HOH . 
H 4 HOH B 34 634 62 HOH HOH . 
H 4 HOH B 35 635 73 HOH HOH . 
H 4 HOH B 36 636 19 HOH HOH . 
H 4 HOH B 37 637 83 HOH HOH . 
H 4 HOH B 38 638 70 HOH HOH . 
H 4 HOH B 39 639 32 HOH HOH . 
H 4 HOH B 40 640 183 HOH HOH . 
H 4 HOH B 41 641 29 HOH HOH . 
H 4 HOH B 42 642 27 HOH HOH . 
H 4 HOH B 43 643 80 HOH HOH . 
H 4 HOH B 44 644 15 HOH HOH . 
H 4 HOH B 45 645 47 HOH HOH . 
H 4 HOH B 46 646 115 HOH HOH . 
H 4 HOH B 47 647 34 HOH HOH . 
H 4 HOH B 48 648 81 HOH HOH . 
H 4 HOH B 49 649 169 HOH HOH . 
H 4 HOH B 50 650 60 HOH HOH . 
H 4 HOH B 51 651 95 HOH HOH . 
H 4 HOH B 52 652 57 HOH HOH . 
H 4 HOH B 53 653 140 HOH HOH . 
H 4 HOH B 54 654 48 HOH HOH . 
H 4 HOH B 55 655 97 HOH HOH . 
H 4 HOH B 56 656 148 HOH HOH . 
H 4 HOH B 57 657 26 HOH HOH . 
H 4 HOH B 58 658 10 HOH HOH . 
H 4 HOH B 59 659 79 HOH HOH . 
H 4 HOH B 60 660 52 HOH HOH . 
H 4 HOH B 61 661 155 HOH HOH . 
H 4 HOH B 62 662 99 HOH HOH . 
H 4 HOH B 63 663 55 HOH HOH . 
H 4 HOH B 64 664 190 HOH HOH . 
H 4 HOH B 65 665 106 HOH HOH . 
H 4 HOH B 66 666 124 HOH HOH . 
H 4 HOH B 67 667 43 HOH HOH . 
H 4 HOH B 68 668 180 HOH HOH . 
H 4 HOH B 69 669 137 HOH HOH . 
H 4 HOH B 70 670 185 HOH HOH . 
H 4 HOH B 71 671 130 HOH HOH . 
H 4 HOH B 72 672 101 HOH HOH . 
H 4 HOH B 73 673 144 HOH HOH . 
H 4 HOH B 74 674 129 HOH HOH . 
H 4 HOH B 75 675 78 HOH HOH . 
H 4 HOH B 76 676 186 HOH HOH . 
H 4 HOH B 77 677 163 HOH HOH . 
H 4 HOH B 78 678 142 HOH HOH . 
H 4 HOH B 79 679 123 HOH HOH . 
H 4 HOH B 80 680 91 HOH HOH . 
H 4 HOH B 81 681 127 HOH HOH . 
H 4 HOH B 82 682 149 HOH HOH . 
H 4 HOH B 83 683 136 HOH HOH . 
H 4 HOH B 84 684 134 HOH HOH . 
H 4 HOH B 85 685 153 HOH HOH . 
H 4 HOH B 86 686 191 HOH HOH . 
H 4 HOH B 87 687 162 HOH HOH . 
H 4 HOH B 88 688 152 HOH HOH . 
H 4 HOH B 89 689 199 HOH HOH . 
H 4 HOH B 90 690 111 HOH HOH . 
H 4 HOH B 91 691 198 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 N PLS . . . E 2 20.856 21.114 39.301 1 66.44 ? N PLS 501 B 1 
HETATM 2 C CA PLS . . . E 2 21.933 21.199 38.278 1 62.81 ? CA PLS 501 B 1 
HETATM 3 C CB PLS . . . E 2 22.542 22.59 38.21 1 66.55 ? CB PLS 501 B 1 
HETATM 4 O OG PLS . . . E 2 21.814 23.53 37.415 1 69.79 ? OG PLS 501 B 1 
HETATM 5 C C PLS . . . E 2 23.031 20.201 38.634 1 50.26 ? C PLS 501 B 1 
HETATM 6 O O PLS . . . E 2 23.775 19.682 37.782 1 58.9 ? O PLS 501 B 1 
HETATM 7 O OXT PLS . . . E 2 23.21 19.896 39.834 1 53.33 ? OXT PLS 501 B 1 
HETATM 8 N N1 PLS . . . E 2 16.591 21.607 41.822 1 54.64 ? N1 PLS 501 B 1 
HETATM 9 C C2 PLS . . . E 2 17.841 21.174 42.194 1 54.6 ? C2 PLS 501 B 1 
HETATM 10 C C2A PLS . . . E 2 18.238 21.034 43.675 1 51.39 ? C2A PLS 501 B 1 
HETATM 11 C C3 PLS . . . E 2 18.767 20.849 41.21 1 57.03 ? C3 PLS 501 B 1 
HETATM 12 O O3 PLS . . . E 2 20.072 20.394 41.651 1 55.19 ? O3 PLS 501 B 1 
HETATM 13 C C4 PLS . . . E 2 18.455 20.953 39.879 1 56.64 ? C4 PLS 501 B 1 
HETATM 14 C C4A PLS . . . E 2 19.528 20.601 38.814 1 60.82 ? C4A PLS 501 B 1 
HETATM 15 C C5 PLS . . . E 2 17.17 21.389 39.512 1 51.75 ? C5 PLS 501 B 1 
HETATM 16 C C6 PLS . . . E 2 16.258 21.722 40.495 1 52.87 ? C6 PLS 501 B 1 
HETATM 17 C C5A PLS . . . E 2 16.747 21.565 37.988 1 55.85 ? C5A PLS 501 B 1 
HETATM 18 O O4P PLS . . . E 2 16.226 20.395 37.427 1 52.85 ? O4P PLS 501 B 1 
HETATM 19 P P PLS . . . E 2 16.093 20.342 35.789 1 47.49 ? P PLS 501 B 1 
HETATM 20 O O1P PLS . . . E 2 15.531 19.002 35.483 1 45.87 ? O1P PLS 501 B 1 
HETATM 21 O O2P PLS . . . E 2 17.425 20.551 35.148 1 48.45 ? O2P PLS 501 B 1 
HETATM 22 O O3P PLS . . . E 2 15.174 21.484 35.359 1 43.9 ? O3P PLS 501 B 1 
#
_model_server_stats.io_time_ms              68 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           251 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           22 
#