data_4WDU
#
_model_server_result.job_id            F8TPhEbJ2bweE1wSrsUfcw 
_model_server_result.datetime_utc      '2024-12-25 04:50:56' 
_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          4wdu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    4WDU 
#
_exptl.entry_id    4WDU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE 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            4WDU 
_cell.length_a            55.422 
_cell.length_b            62.297 
_cell.length_c            95.997 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4WDU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_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 
#
_chem_comp.formula           'C21 H28 N7 O17 P3' 
_chem_comp.formula_weight    743.405 
_chem_comp.id                NAP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" 
#
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
PA O1A NAP doub 237 n n 
PA O2A NAP sing 238 n n 
PA O5B NAP sing 239 n n 
PA O3 NAP sing 240 n n 
O2A HOA2 NAP sing 241 n n 
O5B C5B NAP sing 242 n n 
C5B C4B NAP sing 243 n n 
C5B H51A NAP sing 244 n n 
C5B H52A NAP sing 245 n n 
C4B O4B NAP sing 246 n n 
C4B C3B NAP sing 247 n n 
C4B H4B NAP sing 248 n n 
O4B C1B NAP sing 249 n n 
C3B O3B NAP sing 250 n n 
C3B C2B NAP sing 251 n n 
C3B H3B NAP sing 252 n n 
O3B HO3A NAP sing 253 n n 
C2B O2B NAP sing 254 n n 
C2B C1B NAP sing 255 n n 
C2B H2B NAP sing 256 n n 
O2B P2B NAP sing 257 n n 
C1B N9A NAP sing 258 n n 
C1B H1B NAP sing 259 n n 
N9A C8A NAP sing 260 n y 
N9A C4A NAP sing 261 n y 
C8A N7A NAP doub 262 n y 
C8A H8A NAP sing 263 n n 
N7A C5A NAP sing 264 n y 
C5A C6A NAP sing 265 n y 
C5A C4A NAP doub 266 n y 
C6A N6A NAP sing 267 n n 
C6A N1A NAP doub 268 n y 
N6A H61A NAP sing 269 n n 
N6A H62A NAP sing 270 n n 
N1A C2A NAP sing 271 n y 
C2A N3A NAP doub 272 n y 
C2A H2A NAP sing 273 n n 
N3A C4A NAP sing 274 n y 
O3 PN NAP sing 275 n n 
PN O1N NAP doub 276 n n 
PN O2N NAP sing 277 n n 
PN O5D NAP sing 278 n n 
O5D C5D NAP sing 279 n n 
C5D C4D NAP sing 280 n n 
C5D H51N NAP sing 281 n n 
C5D H52N NAP sing 282 n n 
C4D O4D NAP sing 283 n n 
C4D C3D NAP sing 284 n n 
C4D H4D NAP sing 285 n n 
O4D C1D NAP sing 286 n n 
C3D O3D NAP sing 287 n n 
C3D C2D NAP sing 288 n n 
C3D H3D NAP sing 289 n n 
O3D HO3N NAP sing 290 n n 
C2D O2D NAP sing 291 n n 
C2D C1D NAP sing 292 n n 
C2D H2D NAP sing 293 n n 
O2D HO2N NAP sing 294 n n 
C1D N1N NAP sing 295 n n 
C1D H1D NAP sing 296 n n 
N1N C2N NAP sing 297 n y 
N1N C6N NAP doub 298 n y 
C2N C3N NAP doub 299 n y 
C2N H2N NAP sing 300 n n 
C3N C7N NAP sing 301 n n 
C3N C4N NAP sing 302 n y 
C7N O7N NAP doub 303 n n 
C7N N7N NAP sing 304 n n 
N7N H71N NAP sing 305 n n 
N7N H72N NAP sing 306 n n 
C4N C5N NAP doub 307 n y 
C4N H4N NAP sing 308 n n 
C5N C6N NAP sing 309 n y 
C5N H5N NAP sing 310 n n 
C6N H6N NAP sing 311 n n 
P2B O1X NAP doub 312 n n 
P2B O2X NAP sing 313 n n 
P2B O3X NAP sing 314 n n 
O2X HOP2 NAP sing 315 n n 
O3X HOP3 NAP sing 316 n n 
#
_atom_sites.entry_id                     4WDU 
_atom_sites.fract_transf_matrix[1][1]    0.018043 
_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]    0.016052 
_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]    0.010417 
_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 NAP A 1 401 1 NAP NAD . 
C 3 WDU A 1 402 1 WDU UNL . 
D 4 HOH A 1 501 95 HOH HOH . 
D 4 HOH A 2 502 107 HOH HOH . 
D 4 HOH A 3 503 20 HOH HOH . 
D 4 HOH A 4 504 91 HOH HOH . 
D 4 HOH A 5 505 74 HOH HOH . 
D 4 HOH A 6 506 88 HOH HOH . 
D 4 HOH A 7 507 35 HOH HOH . 
D 4 HOH A 8 508 37 HOH HOH . 
D 4 HOH A 9 509 72 HOH HOH . 
D 4 HOH A 10 510 62 HOH HOH . 
D 4 HOH A 11 511 28 HOH HOH . 
D 4 HOH A 12 512 58 HOH HOH . 
D 4 HOH A 13 513 92 HOH HOH . 
D 4 HOH A 14 514 32 HOH HOH . 
D 4 HOH A 15 515 46 HOH HOH . 
D 4 HOH A 16 516 10 HOH HOH . 
D 4 HOH A 17 517 106 HOH HOH . 
D 4 HOH A 18 518 11 HOH HOH . 
D 4 HOH A 19 519 109 HOH HOH . 
D 4 HOH A 20 520 13 HOH HOH . 
D 4 HOH A 21 521 23 HOH HOH . 
D 4 HOH A 22 522 64 HOH HOH . 
D 4 HOH A 23 523 102 HOH HOH . 
D 4 HOH A 24 524 53 HOH HOH . 
D 4 HOH A 25 525 100 HOH HOH . 
D 4 HOH A 26 526 3 HOH HOH . 
D 4 HOH A 27 527 101 HOH HOH . 
D 4 HOH A 28 528 81 HOH HOH . 
D 4 HOH A 29 529 85 HOH HOH . 
D 4 HOH A 30 530 96 HOH HOH . 
D 4 HOH A 31 531 98 HOH HOH . 
D 4 HOH A 32 532 97 HOH HOH . 
D 4 HOH A 33 533 2 HOH HOH . 
D 4 HOH A 34 534 93 HOH HOH . 
D 4 HOH A 35 535 36 HOH HOH . 
D 4 HOH A 36 536 110 HOH HOH . 
D 4 HOH A 37 537 90 HOH HOH . 
D 4 HOH A 38 538 108 HOH HOH . 
D 4 HOH A 39 539 1 HOH HOH . 
D 4 HOH A 40 540 4 HOH HOH . 
D 4 HOH A 41 541 5 HOH HOH . 
D 4 HOH A 42 542 6 HOH HOH . 
D 4 HOH A 43 543 7 HOH HOH . 
D 4 HOH A 44 544 8 HOH HOH . 
D 4 HOH A 45 545 9 HOH HOH . 
D 4 HOH A 46 546 12 HOH HOH . 
D 4 HOH A 47 547 14 HOH HOH . 
D 4 HOH A 48 548 15 HOH HOH . 
D 4 HOH A 49 549 16 HOH HOH . 
D 4 HOH A 50 550 17 HOH HOH . 
D 4 HOH A 51 551 18 HOH HOH . 
D 4 HOH A 52 552 19 HOH HOH . 
D 4 HOH A 53 553 21 HOH HOH . 
D 4 HOH A 54 554 22 HOH HOH . 
D 4 HOH A 55 555 24 HOH HOH . 
D 4 HOH A 56 556 25 HOH HOH . 
D 4 HOH A 57 557 26 HOH HOH . 
D 4 HOH A 58 558 27 HOH HOH . 
D 4 HOH A 59 559 29 HOH HOH . 
D 4 HOH A 60 560 30 HOH HOH . 
D 4 HOH A 61 561 31 HOH HOH . 
D 4 HOH A 62 562 33 HOH HOH . 
D 4 HOH A 63 563 34 HOH HOH . 
D 4 HOH A 64 564 38 HOH HOH . 
D 4 HOH A 65 565 39 HOH HOH . 
D 4 HOH A 66 566 40 HOH HOH . 
D 4 HOH A 67 567 41 HOH HOH . 
D 4 HOH A 68 568 42 HOH HOH . 
D 4 HOH A 69 569 43 HOH HOH . 
D 4 HOH A 70 570 44 HOH HOH . 
D 4 HOH A 71 571 45 HOH HOH . 
D 4 HOH A 72 572 48 HOH HOH . 
D 4 HOH A 73 573 49 HOH HOH . 
D 4 HOH A 74 574 50 HOH HOH . 
D 4 HOH A 75 575 51 HOH HOH . 
D 4 HOH A 76 576 52 HOH HOH . 
D 4 HOH A 77 577 54 HOH HOH . 
D 4 HOH A 78 578 55 HOH HOH . 
D 4 HOH A 79 579 56 HOH HOH . 
D 4 HOH A 80 580 57 HOH HOH . 
D 4 HOH A 81 581 59 HOH HOH . 
D 4 HOH A 82 582 60 HOH HOH . 
D 4 HOH A 83 583 61 HOH HOH . 
D 4 HOH A 84 584 63 HOH HOH . 
D 4 HOH A 85 585 65 HOH HOH . 
D 4 HOH A 86 586 66 HOH HOH . 
D 4 HOH A 87 587 67 HOH HOH . 
D 4 HOH A 88 588 68 HOH HOH . 
D 4 HOH A 89 589 69 HOH HOH . 
D 4 HOH A 90 590 70 HOH HOH . 
D 4 HOH A 91 591 71 HOH HOH . 
D 4 HOH A 92 592 73 HOH HOH . 
D 4 HOH A 93 593 75 HOH HOH . 
D 4 HOH A 94 594 76 HOH HOH . 
D 4 HOH A 95 595 77 HOH HOH . 
D 4 HOH A 96 596 78 HOH HOH . 
D 4 HOH A 97 597 79 HOH HOH . 
D 4 HOH A 98 598 80 HOH HOH . 
D 4 HOH A 99 599 82 HOH HOH . 
D 4 HOH A 100 600 83 HOH HOH . 
D 4 HOH A 101 601 84 HOH HOH . 
D 4 HOH A 102 602 86 HOH HOH . 
D 4 HOH A 103 603 87 HOH HOH . 
D 4 HOH A 104 604 89 HOH HOH . 
D 4 HOH A 105 605 94 HOH HOH . 
D 4 HOH A 106 606 99 HOH HOH . 
D 4 HOH A 107 607 103 HOH HOH . 
D 4 HOH A 108 608 104 HOH HOH . 
D 4 HOH A 109 609 105 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 P PA NAP . . . B 2 1.201 28.338 45.049 1 8.76 ? PA NAP 401 A 1 
HETATM 2 O O1A NAP . . . B 2 0.611 26.991 45.165 1 8.36 ? O1A NAP 401 A 1 
HETATM 3 O O2A NAP . . . B 2 2.676 28.557 44.999 1 8.11 ? O2A NAP 401 A 1 
HETATM 4 O O5B NAP . . . B 2 0.654 29.218 46.25 1 9.38 ? O5B NAP 401 A 1 
HETATM 5 C C5B NAP . . . B 2 -0.792 29.228 46.439 1 9.32 ? C5B NAP 401 A 1 
HETATM 6 C C4B NAP . . . B 2 -1.079 30.262 47.544 1 9.74 ? C4B NAP 401 A 1 
HETATM 7 O O4B NAP . . . B 2 -0.248 30.016 48.694 1 9.34 ? O4B NAP 401 A 1 
HETATM 8 C C3B NAP . . . B 2 -0.727 31.688 47.076 1 10.25 ? C3B NAP 401 A 1 
HETATM 9 O O3B NAP . . . B 2 -1.859 32.317 46.49 1 11.39 ? O3B NAP 401 A 1 
HETATM 10 C C2B NAP . . . B 2 -0.293 32.386 48.349 1 10.02 ? C2B NAP 401 A 1 
HETATM 11 O O2B NAP . . . B 2 -1.233 33.408 48.788 1 11.6 ? O2B NAP 401 A 1 
HETATM 12 C C1B NAP . . . B 2 -0.202 31.289 49.425 1 9.42 ? C1B NAP 401 A 1 
HETATM 13 N N9A NAP . . . B 2 1.015 31.328 50.224 1 9.27 ? N9A NAP 401 A 1 
HETATM 14 C C8A NAP . . . B 2 2.296 31.565 49.758 1 9.77 ? C8A NAP 401 A 1 
HETATM 15 N N7A NAP . . . B 2 3.168 31.521 50.723 1 9.59 ? N7A NAP 401 A 1 
HETATM 16 C C5A NAP . . . B 2 2.468 31.209 51.864 1 10.12 ? C5A NAP 401 A 1 
HETATM 17 C C6A NAP . . . B 2 2.858 31.026 53.169 1 10.14 ? C6A NAP 401 A 1 
HETATM 18 N N6A NAP . . . B 2 4.199 31.14 53.471 1 11.04 ? N6A NAP 401 A 1 
HETATM 19 N N1A NAP . . . B 2 1.882 30.78 54.117 1 10.87 ? N1A NAP 401 A 1 
HETATM 20 C C2A NAP . . . B 2 0.633 30.681 53.687 1 10.67 ? C2A NAP 401 A 1 
HETATM 21 N N3A NAP . . . B 2 0.142 30.819 52.453 1 10.03 ? N3A NAP 401 A 1 
HETATM 22 C C4A NAP . . . B 2 1.124 31.119 51.573 1 9.4 ? C4A NAP 401 A 1 
HETATM 23 O O3 NAP . . . B 2 0.476 29.034 43.802 1 8.83 ? O3 NAP 401 A 1 
HETATM 24 P PN NAP . . . B 2 0.379 28.801 42.255 1 9.95 ? PN NAP 401 A 1 
HETATM 25 O O1N NAP . . . B 2 -0.653 27.762 41.876 1 10.12 ? O1N NAP 401 A 1 
HETATM 26 O O2N NAP . . . B 2 0.296 30.133 41.708 1 9.28 ? O2N NAP 401 A 1 
HETATM 27 O O5D NAP . . . B 2 1.785 28.184 41.787 1 8.17 ? O5D NAP 401 A 1 
HETATM 28 C C5D NAP . . . B 2 2.954 28.997 41.843 1 8.86 ? C5D NAP 401 A 1 
HETATM 29 C C4D NAP . . . B 2 3.485 29.459 40.466 1 8.03 ? C4D NAP 401 A 1 
HETATM 30 O O4D NAP . . . B 2 3.66 28.348 39.593 1 8.79 ? O4D NAP 401 A 1 
HETATM 31 C C3D NAP . . . B 2 2.492 30.331 39.703 1 9.11 ? C3D NAP 401 A 1 
HETATM 32 O O3D NAP . . . B 2 2.553 31.655 40.258 1 8.86 ? O3D NAP 401 A 1 
HETATM 33 C C2D NAP . . . B 2 3.062 30.24 38.332 1 8.25 ? C2D NAP 401 A 1 
HETATM 34 O O2D NAP . . . B 2 4.263 31.055 38.285 1 9.02 ? O2D NAP 401 A 1 
HETATM 35 C C1D NAP . . . B 2 3.389 28.735 38.211 1 8.3 ? C1D NAP 401 A 1 
HETATM 36 N N1N NAP . . . B 2 2.277 27.916 37.627 1 8.17 ? N1N NAP 401 A 1 
HETATM 37 C C2N NAP . . . B 2 2.507 27.323 36.479 1 8.57 ? C2N NAP 401 A 1 
HETATM 38 C C3N NAP . . . B 2 1.55 26.527 35.866 1 8.51 ? C3N NAP 401 A 1 
HETATM 39 C C7N NAP . . . B 2 1.792 25.846 34.588 1 9.49 ? C7N NAP 401 A 1 
HETATM 40 O O7N NAP . . . B 2 0.873 25.372 33.901 1 9.33 ? O7N NAP 401 A 1 
HETATM 41 N N7N NAP . . . B 2 3.14 25.664 34.256 1 8.17 ? N7N NAP 401 A 1 
HETATM 42 C C4N NAP . . . B 2 0.302 26.386 36.512 1 7.95 ? C4N NAP 401 A 1 
HETATM 43 C C5N NAP . . . B 2 0.088 27.016 37.712 1 8.39 ? C5N NAP 401 A 1 
HETATM 44 C C6N NAP . . . B 2 1.108 27.786 38.274 1 9.35 ? C6N NAP 401 A 1 
HETATM 45 P P2B NAP . . . B 2 -0.56 34.886 49.052 1 11.83 ? P2B NAP 401 A 1 
HETATM 46 O O1X NAP . . . B 2 -0.198 35.448 47.716 1 12.05 ? O1X NAP 401 A 1 
HETATM 47 O O2X NAP . . . B 2 -1.812 35.578 49.64 1 13.69 ? O2X NAP 401 A 1 
HETATM 48 O O3X NAP . . . B 2 0.514 34.743 50.042 1 11.93 ? O3X NAP 401 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           48 
#