data_1NJJ
#
_model_server_result.job_id            vhe4OuFGQu2mCvYyw8tODg 
_model_server_result.datetime_utc      '2024-11-24 03:07:27' 
_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          1njj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":602}' 
#
_entry.id    1NJJ 
#
_exptl.entry_id    1NJJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              363.303 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N~2~-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-D-ORNITHINE 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.03 
_cell.angle_gamma         90 
_cell.entry_id            1NJJ 
_cell.length_a            67.818 
_cell.length_b            88.54 
_cell.length_c            150.445 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1NJJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,L,M 1 1 
C,D,I,J,K,N,O 2 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
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 K N N 
#
_chem_comp.formula           'C13 H22 N3 O7 P' 
_chem_comp.formula_weight    363.303 
_chem_comp.id                ORX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N~2~-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-D-ORNITHINE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
OA CA ORX sing 313 n n 
OA HOA ORX sing 314 n n 
CA OXT ORX doub 315 n n 
CA CAA ORX sing 316 n n 
CAA NA ORX sing 317 n n 
CAA CBA ORX sing 318 n n 
CAA HAA ORX sing 319 n n 
NA C4A ORX sing 320 n n 
NA HNA ORX sing 321 n n 
C4A C4 ORX sing 322 n n 
C4A H4A1 ORX sing 323 n n 
C4A H4A2 ORX sing 324 n n 
C4 C5 ORX doub 325 n y 
C4 C3 ORX sing 326 n y 
C5 C6 ORX sing 327 n y 
C5 C5A ORX sing 328 n n 
C6 N1 ORX doub 329 n y 
C6 H6 ORX sing 330 n n 
N1 C2 ORX sing 331 n y 
C2 C3 ORX doub 332 n y 
C2 C2A ORX sing 333 n n 
C3 O3 ORX sing 334 n n 
O3 HO3 ORX sing 335 n n 
C2A H2A1 ORX sing 336 n n 
C2A H2A2 ORX sing 337 n n 
C2A H2A3 ORX sing 338 n n 
C5A OP4 ORX sing 339 n n 
C5A H5A1 ORX sing 340 n n 
C5A H5A2 ORX sing 341 n n 
OP4 P ORX sing 342 n n 
P OP1 ORX doub 343 n n 
P OP2 ORX sing 344 n n 
P OP3 ORX sing 345 n n 
OP2 HP2 ORX sing 346 n n 
OP3 HP3 ORX sing 347 n n 
CBA CGA ORX sing 348 n n 
CBA HBA1 ORX sing 349 n n 
CBA HBA2 ORX sing 350 n n 
CGA CDA ORX sing 351 n n 
CGA HGA1 ORX sing 352 n n 
CGA HGA2 ORX sing 353 n n 
CDA NE ORX sing 354 n n 
CDA HDA1 ORX sing 355 n n 
CDA HDA2 ORX sing 356 n n 
NE HNE1 ORX sing 357 n n 
NE HNE2 ORX sing 358 n n 
#
_atom_sites.entry_id                     1NJJ 
_atom_sites.fract_transf_matrix[1][1]    0.014745 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000008 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011294 
_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]    0.006647 
_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
E 2 GET A 1 601 600 GET GFO . 
F 3 ORX A 1 602 4 ORX PDO . 
G 2 GET B 1 602 600 GET GFO . 
H 3 ORX B 1 603 4 ORX PDO . 
I 2 GET C 1 603 600 GET GFO . 
J 3 ORX C 1 604 4 ORX PDO . 
K 3 ORX D 1 426 4 ORX PDO . 
L 4 HOH A 1 603 9 HOH WAT . 
L 4 HOH A 2 604 10 HOH WAT . 
L 4 HOH A 3 605 14 HOH WAT . 
L 4 HOH A 4 606 20 HOH WAT . 
L 4 HOH A 5 607 28 HOH WAT . 
L 4 HOH A 6 608 31 HOH WAT . 
L 4 HOH A 7 609 48 HOH WAT . 
L 4 HOH A 8 610 51 HOH WAT . 
L 4 HOH A 9 611 53 HOH WAT . 
L 4 HOH A 10 612 55 HOH WAT . 
L 4 HOH A 11 613 57 HOH WAT . 
L 4 HOH A 12 614 61 HOH WAT . 
L 4 HOH A 13 615 65 HOH WAT . 
L 4 HOH A 14 616 79 HOH WAT . 
L 4 HOH A 15 617 80 HOH WAT . 
L 4 HOH A 16 618 88 HOH WAT . 
L 4 HOH A 17 619 90 HOH WAT . 
L 4 HOH A 18 620 95 HOH WAT . 
L 4 HOH A 19 621 97 HOH WAT . 
L 4 HOH A 20 622 102 HOH WAT . 
L 4 HOH A 21 623 111 HOH WAT . 
L 4 HOH A 22 624 114 HOH WAT . 
L 4 HOH A 23 625 124 HOH WAT . 
L 4 HOH A 24 626 131 HOH WAT . 
L 4 HOH A 25 627 145 HOH WAT . 
L 4 HOH A 26 628 146 HOH WAT . 
L 4 HOH A 27 629 147 HOH WAT . 
L 4 HOH A 28 630 148 HOH WAT . 
L 4 HOH A 29 631 149 HOH WAT . 
L 4 HOH A 30 632 150 HOH WAT . 
L 4 HOH A 31 633 154 HOH WAT . 
L 4 HOH A 32 634 155 HOH WAT . 
L 4 HOH A 33 635 157 HOH WAT . 
L 4 HOH A 34 636 164 HOH WAT . 
L 4 HOH A 35 637 168 HOH WAT . 
L 4 HOH A 36 638 169 HOH WAT . 
L 4 HOH A 37 639 174 HOH WAT . 
L 4 HOH A 38 640 176 HOH WAT . 
L 4 HOH A 39 641 178 HOH WAT . 
L 4 HOH A 40 642 185 HOH WAT . 
L 4 HOH A 41 643 189 HOH WAT . 
L 4 HOH A 42 644 193 HOH WAT . 
L 4 HOH A 43 645 200 HOH WAT . 
L 4 HOH A 44 646 206 HOH WAT . 
L 4 HOH A 45 647 209 HOH WAT . 
L 4 HOH A 46 648 213 HOH WAT . 
L 4 HOH A 47 649 237 HOH WAT . 
L 4 HOH A 48 650 238 HOH WAT . 
L 4 HOH A 49 651 239 HOH WAT . 
L 4 HOH A 50 652 252 HOH WAT . 
L 4 HOH A 51 653 253 HOH WAT . 
M 4 HOH B 1 604 3 HOH WAT . 
M 4 HOH B 2 605 11 HOH WAT . 
M 4 HOH B 3 606 12 HOH WAT . 
M 4 HOH B 4 607 17 HOH WAT . 
M 4 HOH B 5 608 18 HOH WAT . 
M 4 HOH B 6 609 21 HOH WAT . 
M 4 HOH B 7 610 22 HOH WAT . 
M 4 HOH B 8 611 25 HOH WAT . 
M 4 HOH B 9 612 30 HOH WAT . 
M 4 HOH B 10 613 44 HOH WAT . 
M 4 HOH B 11 614 45 HOH WAT . 
M 4 HOH B 12 615 46 HOH WAT . 
M 4 HOH B 13 616 52 HOH WAT . 
M 4 HOH B 14 617 58 HOH WAT . 
M 4 HOH B 15 618 59 HOH WAT . 
M 4 HOH B 16 619 64 HOH WAT . 
M 4 HOH B 17 620 67 HOH WAT . 
M 4 HOH B 18 621 78 HOH WAT . 
M 4 HOH B 19 622 84 HOH WAT . 
M 4 HOH B 20 623 91 HOH WAT . 
M 4 HOH B 21 624 94 HOH WAT . 
M 4 HOH B 22 625 113 HOH WAT . 
M 4 HOH B 23 626 119 HOH WAT . 
M 4 HOH B 24 627 130 HOH WAT . 
M 4 HOH B 25 628 142 HOH WAT . 
M 4 HOH B 26 629 143 HOH WAT . 
M 4 HOH B 27 630 156 HOH WAT . 
M 4 HOH B 28 631 175 HOH WAT . 
M 4 HOH B 29 632 194 HOH WAT . 
M 4 HOH B 30 633 195 HOH WAT . 
M 4 HOH B 31 634 196 HOH WAT . 
M 4 HOH B 32 635 203 HOH WAT . 
M 4 HOH B 33 636 205 HOH WAT . 
M 4 HOH B 34 637 217 HOH WAT . 
M 4 HOH B 35 638 218 HOH WAT . 
M 4 HOH B 36 639 219 HOH WAT . 
M 4 HOH B 37 640 220 HOH WAT . 
M 4 HOH B 38 641 221 HOH WAT . 
M 4 HOH B 39 642 223 HOH WAT . 
M 4 HOH B 40 643 232 HOH WAT . 
M 4 HOH B 41 644 233 HOH WAT . 
M 4 HOH B 42 645 234 HOH WAT . 
M 4 HOH B 43 646 235 HOH WAT . 
M 4 HOH B 44 647 236 HOH WAT . 
M 4 HOH B 45 648 255 HOH WAT . 
M 4 HOH B 46 649 256 HOH WAT . 
M 4 HOH B 47 650 268 HOH WAT . 
M 4 HOH B 48 651 271 HOH WAT . 
N 4 HOH C 1 605 1 HOH WAT . 
N 4 HOH C 2 606 4 HOH WAT . 
N 4 HOH C 3 607 7 HOH WAT . 
N 4 HOH C 4 608 8 HOH WAT . 
N 4 HOH C 5 609 23 HOH WAT . 
N 4 HOH C 6 610 33 HOH WAT . 
N 4 HOH C 7 611 34 HOH WAT . 
N 4 HOH C 8 612 36 HOH WAT . 
N 4 HOH C 9 613 37 HOH WAT . 
N 4 HOH C 10 614 40 HOH WAT . 
N 4 HOH C 11 615 49 HOH WAT . 
N 4 HOH C 12 616 60 HOH WAT . 
N 4 HOH C 13 617 62 HOH WAT . 
N 4 HOH C 14 618 68 HOH WAT . 
N 4 HOH C 15 619 74 HOH WAT . 
N 4 HOH C 16 620 76 HOH WAT . 
N 4 HOH C 17 621 77 HOH WAT . 
N 4 HOH C 18 622 81 HOH WAT . 
N 4 HOH C 19 623 101 HOH WAT . 
N 4 HOH C 20 624 105 HOH WAT . 
N 4 HOH C 21 625 108 HOH WAT . 
N 4 HOH C 22 626 121 HOH WAT . 
N 4 HOH C 23 627 127 HOH WAT . 
N 4 HOH C 24 628 132 HOH WAT . 
N 4 HOH C 25 629 133 HOH WAT . 
N 4 HOH C 26 630 134 HOH WAT . 
N 4 HOH C 27 631 135 HOH WAT . 
N 4 HOH C 28 632 136 HOH WAT . 
N 4 HOH C 29 633 137 HOH WAT . 
N 4 HOH C 30 634 138 HOH WAT . 
N 4 HOH C 31 635 139 HOH WAT . 
N 4 HOH C 32 636 140 HOH WAT . 
N 4 HOH C 33 637 141 HOH WAT . 
N 4 HOH C 34 638 160 HOH WAT . 
N 4 HOH C 35 639 161 HOH WAT . 
N 4 HOH C 36 640 177 HOH WAT . 
N 4 HOH C 37 641 179 HOH WAT . 
N 4 HOH C 38 642 190 HOH WAT . 
N 4 HOH C 39 643 191 HOH WAT . 
N 4 HOH C 40 644 198 HOH WAT . 
N 4 HOH C 41 645 202 HOH WAT . 
N 4 HOH C 42 646 204 HOH WAT . 
N 4 HOH C 43 647 212 HOH WAT . 
N 4 HOH C 44 648 240 HOH WAT . 
N 4 HOH C 45 649 241 HOH WAT . 
N 4 HOH C 46 650 242 HOH WAT . 
N 4 HOH C 47 651 243 HOH WAT . 
N 4 HOH C 48 652 245 HOH WAT . 
N 4 HOH C 49 653 247 HOH WAT . 
N 4 HOH C 50 654 248 HOH WAT . 
N 4 HOH C 51 655 249 HOH WAT . 
N 4 HOH C 52 656 250 HOH WAT . 
N 4 HOH C 53 657 258 HOH WAT . 
N 4 HOH C 54 658 259 HOH WAT . 
N 4 HOH C 55 659 260 HOH WAT . 
N 4 HOH C 56 660 262 HOH WAT . 
N 4 HOH C 57 661 263 HOH WAT . 
N 4 HOH C 58 662 270 HOH WAT . 
N 4 HOH C 59 663 273 HOH WAT . 
O 4 HOH D 1 427 2 HOH WAT . 
O 4 HOH D 2 428 6 HOH WAT . 
O 4 HOH D 3 429 16 HOH WAT . 
O 4 HOH D 4 430 19 HOH WAT . 
O 4 HOH D 5 431 32 HOH WAT . 
O 4 HOH D 6 432 35 HOH WAT . 
O 4 HOH D 7 433 39 HOH WAT . 
O 4 HOH D 8 434 42 HOH WAT . 
O 4 HOH D 9 435 43 HOH WAT . 
O 4 HOH D 10 436 50 HOH WAT . 
O 4 HOH D 11 437 54 HOH WAT . 
O 4 HOH D 12 438 56 HOH WAT . 
O 4 HOH D 13 439 63 HOH WAT . 
O 4 HOH D 14 440 69 HOH WAT . 
O 4 HOH D 15 441 70 HOH WAT . 
O 4 HOH D 16 442 72 HOH WAT . 
O 4 HOH D 17 443 75 HOH WAT . 
O 4 HOH D 18 444 83 HOH WAT . 
O 4 HOH D 19 445 92 HOH WAT . 
O 4 HOH D 20 446 93 HOH WAT . 
O 4 HOH D 21 447 100 HOH WAT . 
O 4 HOH D 22 448 112 HOH WAT . 
O 4 HOH D 23 449 118 HOH WAT . 
O 4 HOH D 24 450 123 HOH WAT . 
O 4 HOH D 25 451 125 HOH WAT . 
O 4 HOH D 26 452 126 HOH WAT . 
O 4 HOH D 27 453 129 HOH WAT . 
O 4 HOH D 28 454 151 HOH WAT . 
O 4 HOH D 29 455 152 HOH WAT . 
O 4 HOH D 30 456 166 HOH WAT . 
O 4 HOH D 31 457 170 HOH WAT . 
O 4 HOH D 32 458 173 HOH WAT . 
O 4 HOH D 33 459 181 HOH WAT . 
O 4 HOH D 34 460 182 HOH WAT . 
O 4 HOH D 35 461 184 HOH WAT . 
O 4 HOH D 36 462 188 HOH WAT . 
O 4 HOH D 37 463 197 HOH WAT . 
O 4 HOH D 38 464 199 HOH WAT . 
O 4 HOH D 39 465 207 HOH WAT . 
O 4 HOH D 40 466 211 HOH WAT . 
O 4 HOH D 41 467 214 HOH WAT . 
O 4 HOH D 42 468 225 HOH WAT . 
O 4 HOH D 43 469 226 HOH WAT . 
O 4 HOH D 44 470 228 HOH WAT . 
O 4 HOH D 45 471 229 HOH WAT . 
O 4 HOH D 46 472 261 HOH WAT . 
O 4 HOH D 47 473 266 HOH WAT . 
O 4 HOH D 48 474 267 HOH WAT . 
O 4 HOH D 49 475 272 HOH WAT . 
#
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 O OA ORX . . . F 3 51.169 78.242 107.905 1 46.51 ? OA ORX 602 A 1 
HETATM 2 C CA ORX . . . F 3 52.111 79.006 107.293 1 45.27 ? CA ORX 602 A 1 
HETATM 3 O OXT ORX . . . F 3 52.99 78.419 106.425 1 46.48 ? OXT ORX 602 A 1 
HETATM 4 C CAA ORX . . . F 3 52.176 80.533 107.587 1 43.66 ? CAA ORX 602 A 1 
HETATM 5 N NA ORX . . . F 3 52.254 81.385 106.274 1 43.62 ? NA ORX 602 A 1 
HETATM 6 C C4A ORX . . . F 3 53.533 81.155 105.465 1 39.35 ? C4A ORX 602 A 1 
HETATM 7 C C4 ORX . . . F 3 53.43 81.659 103.972 1 40.14 ? C4 ORX 602 A 1 
HETATM 8 C C5 ORX . . . F 3 54.538 82.236 103.24 1 39.27 ? C5 ORX 602 A 1 
HETATM 9 C C6 ORX . . . F 3 54.551 82.711 101.937 1 38.44 ? C6 ORX 602 A 1 
HETATM 10 N N1 ORX . . . F 3 53.412 82.64 101.181 1 37.67 ? N1 ORX 602 A 1 
HETATM 11 C C2 ORX . . . F 3 52.239 82.099 101.716 1 39.91 ? C2 ORX 602 A 1 
HETATM 12 C C3 ORX . . . F 3 52.263 81.615 103.128 1 39.74 ? C3 ORX 602 A 1 
HETATM 13 O O3 ORX . . . F 3 51.057 81.107 103.513 1 36.91 ? O3 ORX 602 A 1 
HETATM 14 C C2A ORX . . . F 3 51.165 82.161 100.644 1 40.01 ? C2A ORX 602 A 1 
HETATM 15 C C5A ORX . . . F 3 55.875 82.395 103.87 1 36.73 ? C5A ORX 602 A 1 
HETATM 16 O OP4 ORX . . . F 3 56.367 81.292 104.503 1 35.65 ? OP4 ORX 602 A 1 
HETATM 17 P P ORX . . . F 3 57.825 81.291 105.089 1 33.25 ? P ORX 602 A 1 
HETATM 18 O OP1 ORX . . . F 3 58.122 80.053 105.754 1 29.8 ? OP1 ORX 602 A 1 
HETATM 19 O OP2 ORX . . . F 3 57.91 82.613 105.846 1 29.1 ? OP2 ORX 602 A 1 
HETATM 20 O OP3 ORX . . . F 3 58.7 81.302 103.857 1 34.89 ? OP3 ORX 602 A 1 
HETATM 21 C CBA ORX . . . F 3 53.322 80.774 108.609 1 43.51 ? CBA ORX 602 A 1 
HETATM 22 C CGA ORX . . . F 3 52.951 80.59 110.076 1 40.28 ? CGA ORX 602 A 1 
HETATM 23 C CDA ORX . . . F 3 53.222 81.858 110.887 1 41.18 ? CDA ORX 602 A 1 
HETATM 24 N NE ORX . . . F 3 52.887 81.615 112.306 1 40.69 ? NE ORX 602 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    45 
_model_server_stats.query_time_ms           342 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           24 
#