data_5PGX
#
_model_server_result.job_id            eUI_J8OQvnyP2At5uIgXVA 
_model_server_result.datetime_utc      '2024-12-21 18:54:03' 
_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          5pgx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":301}' 
#
_entry.id    5PGX 
#
_exptl.entry_id    5PGX 
_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    4 
_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            5PGX 
_cell.length_a            74.6 
_cell.length_b            93.3 
_cell.length_c            168.5 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5PGX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
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,M,N 1 1 
C,D,I,J,K,L,O,P 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
? 2 E N N 
? 2 G N N 
? 2 I N N 
? 2 K N 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 296 n n 
PA O2A NAP sing 297 n n 
PA O5B NAP sing 298 n n 
PA O3 NAP sing 299 n n 
O2A HOA2 NAP sing 300 n n 
O5B C5B NAP sing 301 n n 
C5B C4B NAP sing 302 n n 
C5B H51A NAP sing 303 n n 
C5B H52A NAP sing 304 n n 
C4B O4B NAP sing 305 n n 
C4B C3B NAP sing 306 n n 
C4B H4B NAP sing 307 n n 
O4B C1B NAP sing 308 n n 
C3B O3B NAP sing 309 n n 
C3B C2B NAP sing 310 n n 
C3B H3B NAP sing 311 n n 
O3B HO3A NAP sing 312 n n 
C2B O2B NAP sing 313 n n 
C2B C1B NAP sing 314 n n 
C2B H2B NAP sing 315 n n 
O2B P2B NAP sing 316 n n 
C1B N9A NAP sing 317 n n 
C1B H1B NAP sing 318 n n 
N9A C8A NAP sing 319 n y 
N9A C4A NAP sing 320 n y 
C8A N7A NAP doub 321 n y 
C8A H8A NAP sing 322 n n 
N7A C5A NAP sing 323 n y 
C5A C6A NAP sing 324 n y 
C5A C4A NAP doub 325 n y 
C6A N6A NAP sing 326 n n 
C6A N1A NAP doub 327 n y 
N6A H61A NAP sing 328 n n 
N6A H62A NAP sing 329 n n 
N1A C2A NAP sing 330 n y 
C2A N3A NAP doub 331 n y 
C2A H2A NAP sing 332 n n 
N3A C4A NAP sing 333 n y 
O3 PN NAP sing 334 n n 
PN O1N NAP doub 335 n n 
PN O2N NAP sing 336 n n 
PN O5D NAP sing 337 n n 
O5D C5D NAP sing 338 n n 
C5D C4D NAP sing 339 n n 
C5D H51N NAP sing 340 n n 
C5D H52N NAP sing 341 n n 
C4D O4D NAP sing 342 n n 
C4D C3D NAP sing 343 n n 
C4D H4D NAP sing 344 n n 
O4D C1D NAP sing 345 n n 
C3D O3D NAP sing 346 n n 
C3D C2D NAP sing 347 n n 
C3D H3D NAP sing 348 n n 
O3D HO3N NAP sing 349 n n 
C2D O2D NAP sing 350 n n 
C2D C1D NAP sing 351 n n 
C2D H2D NAP sing 352 n n 
O2D HO2N NAP sing 353 n n 
C1D N1N NAP sing 354 n n 
C1D H1D NAP sing 355 n n 
N1N C2N NAP sing 356 n y 
N1N C6N NAP doub 357 n y 
C2N C3N NAP doub 358 n y 
C2N H2N NAP sing 359 n n 
C3N C7N NAP sing 360 n n 
C3N C4N NAP sing 361 n y 
C7N O7N NAP doub 362 n n 
C7N N7N NAP sing 363 n n 
N7N H71N NAP sing 364 n n 
N7N H72N NAP sing 365 n n 
C4N C5N NAP doub 366 n y 
C4N H4N NAP sing 367 n n 
C5N C6N NAP sing 368 n y 
C5N H5N NAP sing 369 n n 
C6N H6N NAP sing 370 n n 
P2B O1X NAP doub 371 n n 
P2B O2X NAP sing 372 n n 
P2B O3X NAP sing 373 n n 
O2X HOP2 NAP sing 374 n n 
O3X HOP3 NAP sing 375 n n 
#
_atom_sites.entry_id                     5PGX 
_atom_sites.fract_transf_matrix[1][1]    0.013405 
_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]    0.010718 
_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]    0.005935 
_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 NAP A 1 301 301 NAP NAP . 
F 3 8KD A 1 302 302 8KD LG1 . 
G 2 NAP B 1 301 301 NAP NAP . 
H 3 8KD B 1 302 302 8KD LG1 . 
I 2 NAP D 1 301 301 NAP NAP . 
J 3 8KD D 1 302 302 8KD LG1 . 
K 2 NAP E 1 301 301 NAP NAP . 
L 3 8KD E 1 302 302 8KD LG1 . 
M 4 HOH A 1 401 9 HOH HOH . 
M 4 HOH A 2 402 3 HOH HOH . 
M 4 HOH A 3 403 30 HOH HOH . 
M 4 HOH A 4 404 8 HOH HOH . 
M 4 HOH A 5 405 5 HOH HOH . 
M 4 HOH A 6 406 18 HOH HOH . 
N 4 HOH B 1 401 35 HOH HOH . 
N 4 HOH B 2 402 19 HOH HOH . 
N 4 HOH B 3 403 14 HOH HOH . 
N 4 HOH B 4 404 31 HOH HOH . 
N 4 HOH B 5 405 11 HOH HOH . 
N 4 HOH B 6 406 23 HOH HOH . 
N 4 HOH B 7 407 2 HOH HOH . 
N 4 HOH B 8 408 10 HOH HOH . 
N 4 HOH B 9 409 24 HOH HOH . 
N 4 HOH B 10 410 33 HOH HOH . 
N 4 HOH B 11 411 32 HOH HOH . 
O 4 HOH D 1 401 7 HOH HOH . 
O 4 HOH D 2 402 4 HOH HOH . 
O 4 HOH D 3 403 37 HOH HOH . 
O 4 HOH D 4 404 16 HOH HOH . 
O 4 HOH D 5 405 12 HOH HOH . 
O 4 HOH D 6 406 1 HOH HOH . 
O 4 HOH D 7 407 13 HOH HOH . 
O 4 HOH D 8 408 6 HOH HOH . 
O 4 HOH D 9 409 29 HOH HOH . 
O 4 HOH D 10 410 15 HOH HOH . 
O 4 HOH D 11 411 22 HOH HOH . 
O 4 HOH D 12 412 28 HOH HOH . 
O 4 HOH D 13 413 17 HOH HOH . 
O 4 HOH D 14 414 36 HOH HOH . 
O 4 HOH D 15 415 25 HOH HOH . 
P 4 HOH E 1 401 39 HOH HOH . 
P 4 HOH E 2 402 20 HOH HOH . 
P 4 HOH E 3 403 21 HOH HOH . 
P 4 HOH E 4 404 38 HOH HOH . 
P 4 HOH E 5 405 34 HOH HOH . 
P 4 HOH E 6 406 27 HOH HOH . 
P 4 HOH E 7 407 26 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 . . . K 2 13.142 76.809 117.867 1 38.2 ? PA NAP 301 E 1 
HETATM 2 O O1A NAP . . . K 2 12.483 77.544 116.765 1 42.16 ? O1A NAP 301 E 1 
HETATM 3 O O2A NAP . . . K 2 14.204 77.66 118.59 1 36.53 ? O2A NAP 301 E 1 
HETATM 4 O O5B NAP . . . K 2 12.118 76.297 118.99 1 39.86 ? O5B NAP 301 E 1 
HETATM 5 C C5B NAP . . . K 2 12.478 76.077 120.382 1 40.8 ? C5B NAP 301 E 1 
HETATM 6 C C4B NAP . . . K 2 11.294 75.553 121.161 1 39.71 ? C4B NAP 301 E 1 
HETATM 7 O O4B NAP . . . K 2 11.699 75.166 122.501 1 38.92 ? O4B NAP 301 E 1 
HETATM 8 C C3B NAP . . . K 2 10.157 76.551 121.359 1 39.91 ? C3B NAP 301 E 1 
HETATM 9 O O3B NAP . . . K 2 8.925 75.871 121.564 1 40.74 ? O3B NAP 301 E 1 
HETATM 10 C C2B NAP . . . K 2 10.579 77.216 122.663 1 40.2 ? C2B NAP 301 E 1 
HETATM 11 O O2B NAP . . . K 2 9.483 77.971 123.225 1 40.55 ? O2B NAP 301 E 1 
HETATM 12 C C1B NAP . . . K 2 11.043 75.987 123.453 1 37.73 ? C1B NAP 301 E 1 
HETATM 13 N N9A NAP . . . K 2 11.94 76.21 124.589 1 31.86 ? N9A NAP 301 E 1 
HETATM 14 C C8A NAP . . . K 2 12.978 77.104 124.661 1 27.44 ? C8A NAP 301 E 1 
HETATM 15 N N7A NAP . . . K 2 13.539 77.177 125.845 1 24.12 ? N7A NAP 301 E 1 
HETATM 16 C C5A NAP . . . K 2 12.832 76.257 126.603 1 23.97 ? C5A NAP 301 E 1 
HETATM 17 C C6A NAP . . . K 2 12.927 75.862 127.959 1 27.18 ? C6A NAP 301 E 1 
HETATM 18 N N6A NAP . . . K 2 13.871 76.299 128.805 1 22.92 ? N6A NAP 301 E 1 
HETATM 19 N N1A NAP . . . K 2 12.042 74.938 128.408 1 30.11 ? N1A NAP 301 E 1 
HETATM 20 C C2A NAP . . . K 2 11.146 74.434 127.551 1 27.52 ? C2A NAP 301 E 1 
HETATM 21 N N3A NAP . . . K 2 10.98 74.711 126.254 1 27.45 ? N3A NAP 301 E 1 
HETATM 22 C C4A NAP . . . K 2 11.851 75.644 125.84 1 28 ? C4A NAP 301 E 1 
HETATM 23 O O3 NAP . . . K 2 13.882 75.46 117.434 1 38.1 ? O3 NAP 301 E 1 
HETATM 24 P PN NAP . . . K 2 14.051 74.633 116.075 1 34.52 ? PN NAP 301 E 1 
HETATM 25 O O1N NAP . . . K 2 15.004 75.344 115.196 1 34.85 ? O1N NAP 301 E 1 
HETATM 26 O O2N NAP . . . K 2 12.706 74.313 115.551 1 34.07 ? O2N NAP 301 E 1 
HETATM 27 O O5D NAP . . . K 2 14.791 73.326 116.613 1 32.81 ? O5D NAP 301 E 1 
HETATM 28 C C5D NAP . . . K 2 14.11 72.313 117.392 1 32.7 ? C5D NAP 301 E 1 
HETATM 29 C C4D NAP . . . K 2 14.991 71.094 117.555 1 32.31 ? C4D NAP 301 E 1 
HETATM 30 O O4D NAP . . . K 2 15.594 70.758 116.286 1 34.34 ? O4D NAP 301 E 1 
HETATM 31 C C3D NAP . . . K 2 16.161 71.236 118.521 1 31.16 ? C3D NAP 301 E 1 
HETATM 32 O O3D NAP . . . K 2 16.355 70.089 119.347 1 29.05 ? O3D NAP 301 E 1 
HETATM 33 C C2D NAP . . . K 2 17.323 71.473 117.562 1 32.19 ? C2D NAP 301 E 1 
HETATM 34 O O2D NAP . . . K 2 18.599 71.087 118.055 1 31.62 ? O2D NAP 301 E 1 
HETATM 35 C C1D NAP . . . K 2 16.963 70.502 116.442 1 33.31 ? C1D NAP 301 E 1 
HETATM 36 N N1N NAP . . . K 2 17.749 70.956 115.228 1 31.63 ? N1N NAP 301 E 1 
HETATM 37 C C2N NAP . . . K 2 17.33 72.069 114.48 1 29.25 ? C2N NAP 301 E 1 
HETATM 38 C C3N NAP . . . K 2 18.138 72.565 113.471 1 28.37 ? C3N NAP 301 E 1 
HETATM 39 C C7N NAP . . . K 2 17.855 73.863 112.745 1 29.88 ? C7N NAP 301 E 1 
HETATM 40 O O7N NAP . . . K 2 18.667 74.276 111.884 1 31.44 ? O7N NAP 301 E 1 
HETATM 41 N N7N NAP . . . K 2 16.764 74.569 113.096 1 28.93 ? N7N NAP 301 E 1 
HETATM 42 C C4N NAP . . . K 2 19.336 71.909 113.196 1 27.34 ? C4N NAP 301 E 1 
HETATM 43 C C5N NAP . . . K 2 19.727 70.813 113.945 1 27.05 ? C5N NAP 301 E 1 
HETATM 44 C C6N NAP . . . K 2 18.926 70.358 114.966 1 28.93 ? C6N NAP 301 E 1 
HETATM 45 P P2B NAP . . . K 2 9.604 78.918 124.509 1 43.99 ? P2B NAP 301 E 1 
HETATM 46 O O1X NAP . . . K 2 9.753 78.067 125.676 1 46.07 ? O1X NAP 301 E 1 
HETATM 47 O O2X NAP . . . K 2 10.782 79.931 124.354 1 45.83 ? O2X NAP 301 E 1 
HETATM 48 O O3X NAP . . . K 2 8.306 79.698 124.562 1 44.97 ? O3X NAP 301 E 1 
HETATM 49 H HOA2 NAP . . . K 2 14.86 77.427 119.298 0 36.63 ? HOA2 NAP 301 E 1 
HETATM 50 H H51A NAP . . . K 2 13.256 75.316 120.339 0 40.8 ? H51A NAP 301 E 1 
HETATM 51 H H52A NAP . . . K 2 12.909 76.969 120.834 0 40.8 ? H52A NAP 301 E 1 
HETATM 52 H H4B NAP . . . K 2 10.949 74.617 120.724 0 39.71 ? H4B NAP 301 E 1 
HETATM 53 H H3B NAP . . . K 2 10.097 77.247 120.524 0 39.93 ? H3B NAP 301 E 1 
HETATM 54 H HO3A NAP . . . K 2 8.548 75.741 120.654 0 40.77 ? HO3A NAP 301 E 1 
HETATM 55 H H2B NAP . . . K 2 11.399 77.898 122.443 0 40.22 ? H2B NAP 301 E 1 
HETATM 56 H H1B NAP . . . K 2 10.204 75.409 123.836 0 37.76 ? H1B NAP 301 E 1 
HETATM 57 H H8A NAP . . . K 2 13.311 77.699 123.813 0 27.45 ? H8A NAP 301 E 1 
HETATM 58 H H61A NAP . . . K 2 14.581 76.955 128.494 0 22.94 ? H61A NAP 301 E 1 
HETATM 59 H H62A NAP . . . K 2 13.909 75.991 129.771 0 22.94 ? H62A NAP 301 E 1 
HETATM 60 H H2A NAP . . . K 2 10.426 73.731 127.965 0 27.51 ? H2A NAP 301 E 1 
HETATM 61 H H51N NAP . . . K 2 13.137 72.032 116.994 0 32.68 ? H51N NAP 301 E 1 
HETATM 62 H H52N NAP . . . K 2 13.913 72.801 118.345 0 32.68 ? H52N NAP 301 E 1 
HETATM 63 H H4D NAP . . . K 2 14.377 70.237 117.824 0 32.31 ? H4D NAP 301 E 1 
HETATM 64 H H3D NAP . . . K 2 16.062 72.116 119.151 0 31.14 ? H3D NAP 301 E 1 
HETATM 65 H HO3N NAP . . . K 2 16.263 69.281 118.779 0 29.04 ? HO3N NAP 301 E 1 
HETATM 66 H H2D NAP . . . K 2 17.365 72.507 117.225 0 32.16 ? H2D NAP 301 E 1 
HETATM 67 H HO2N NAP . . . K 2 18.712 71.484 118.958 0 31.55 ? HO2N NAP 301 E 1 
HETATM 68 H H1D NAP . . . K 2 17.158 69.443 116.599 0 33.3 ? H1D NAP 301 E 1 
HETATM 69 H H2N NAP . . . K 2 16.377 72.528 114.733 0 29.24 ? H2N NAP 301 E 1 
HETATM 70 H H71N NAP . . . K 2 16.544 75.431 112.61 0 28.98 ? H71N NAP 301 E 1 
HETATM 71 H H72N NAP . . . K 2 16.107 74.334 113.832 0 28.98 ? H72N NAP 301 E 1 
HETATM 72 H H4N NAP . . . K 2 19.997 72.226 112.391 0 27.41 ? H4N NAP 301 E 1 
HETATM 73 H H5N NAP . . . K 2 20.666 70.304 113.734 0 27.12 ? H5N NAP 301 E 1 
HETATM 74 H H6N NAP . . . K 2 19.282 69.568 115.623 0 28.96 ? H6N NAP 301 E 1 
HETATM 75 H HOP2 NAP . . . K 2 11.011 80.23 123.436 0 45.81 ? HOP2 NAP 301 E 1 
HETATM 76 H HOP3 NAP . . . K 2 7.484 79.449 124.064 0 45.04 ? HOP3 NAP 301 E 1 
#
_model_server_stats.io_time_ms              51 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          16 
_model_server_stats.element_count           76 
#