data_6PF9
#
_model_server_result.job_id            HmkagosZiAALmLG-j0yYjQ 
_model_server_result.datetime_utc      '2024-11-25 08:21:43' 
_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          6pf9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Z","auth_seq_id":601}' 
#
_entry.id    6PF9 
#
_exptl.entry_id    6PF9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              745.421 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.87 
_cell.angle_gamma         90 
_cell.entry_id            6PF9 
_cell.length_a            214.201 
_cell.length_b            116.51 
_cell.length_c            221.439 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6PF9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 
PISA dimeric 2 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,F,G,H,I,J 1 1,2 
B,C,K,L,M,N,O,P,Q,R,S,T,EA,FA 2 1 
D,U,V,W,X,Y,GA 3 1 
E,Z,AA,BA,CA,DA,HA 3 3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 
3 'crystal symmetry operation' 3_555 x+1/2,y+1/2,z 1 0 0 0 1 0 0 0 1 107.1005 58.255 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 F N N 
? 2 K N N 
? 2 P N N 
? 2 U N N 
? 2 Z N N 
#
_chem_comp.formula           'C21 H30 N7 O17 P3' 
_chem_comp.formula_weight    745.421 
_chem_comp.id                NDP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_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
PA O1A NDP doub 294 n n 
PA O2A NDP sing 295 n n 
PA O5B NDP sing 296 n n 
PA O3 NDP sing 297 n n 
O2A HOA2 NDP sing 298 n n 
O5B C5B NDP sing 299 n n 
C5B C4B NDP sing 300 n n 
C5B H51A NDP sing 301 n n 
C5B H52A NDP sing 302 n n 
C4B O4B NDP sing 303 n n 
C4B C3B NDP sing 304 n n 
C4B H4B NDP sing 305 n n 
O4B C1B NDP sing 306 n n 
C3B O3B NDP sing 307 n n 
C3B C2B NDP sing 308 n n 
C3B H3B NDP sing 309 n n 
O3B HO3A NDP sing 310 n n 
C2B O2B NDP sing 311 n n 
C2B C1B NDP sing 312 n n 
C2B H2B NDP sing 313 n n 
O2B P2B NDP sing 314 n n 
C1B N9A NDP sing 315 n n 
C1B H1B NDP sing 316 n n 
N9A C8A NDP sing 317 n y 
N9A C4A NDP sing 318 n y 
C8A N7A NDP doub 319 n y 
C8A H8A NDP sing 320 n n 
N7A C5A NDP sing 321 n y 
C5A C6A NDP sing 322 n y 
C5A C4A NDP doub 323 n y 
C6A N6A NDP sing 324 n n 
C6A N1A NDP doub 325 n y 
N6A H61A NDP sing 326 n n 
N6A H62A NDP sing 327 n n 
N1A C2A NDP sing 328 n y 
C2A N3A NDP doub 329 n y 
C2A H2A NDP sing 330 n n 
N3A C4A NDP sing 331 n y 
O3 PN NDP sing 332 n n 
PN O1N NDP doub 333 n n 
PN O2N NDP sing 334 n n 
PN O5D NDP sing 335 n n 
O2N H21N NDP sing 336 n n 
O5D C5D NDP sing 337 n n 
C5D C4D NDP sing 338 n n 
C5D H51N NDP sing 339 n n 
C5D H52N NDP sing 340 n n 
C4D O4D NDP sing 341 n n 
C4D C3D NDP sing 342 n n 
C4D H4D NDP sing 343 n n 
O4D C1D NDP sing 344 n n 
C3D O3D NDP sing 345 n n 
C3D C2D NDP sing 346 n n 
C3D H3D NDP sing 347 n n 
O3D HO3N NDP sing 348 n n 
C2D O2D NDP sing 349 n n 
C2D C1D NDP sing 350 n n 
C2D H2D NDP sing 351 n n 
O2D HO2N NDP sing 352 n n 
C1D N1N NDP sing 353 n n 
C1D H1D NDP sing 354 n n 
N1N C2N NDP sing 355 n n 
N1N C6N NDP sing 356 n n 
C2N C3N NDP doub 357 n n 
C2N H2N NDP sing 358 n n 
C3N C7N NDP sing 359 n n 
C3N C4N NDP sing 360 n n 
C7N O7N NDP doub 361 n n 
C7N N7N NDP sing 362 n n 
N7N H71N NDP sing 363 n n 
N7N H72N NDP sing 364 n n 
C4N C5N NDP sing 365 n n 
C4N H41N NDP sing 366 n n 
C4N H42N NDP sing 367 n n 
C5N C6N NDP doub 368 n n 
C5N H5N NDP sing 369 n n 
C6N H6N NDP sing 370 n n 
P2B O1X NDP doub 371 n n 
P2B O2X NDP sing 372 n n 
P2B O3X NDP sing 373 n n 
O2X HOP2 NDP sing 374 n n 
O3X HOP3 NDP sing 375 n n 
#
_atom_sites.entry_id                     6PF9 
_atom_sites.fract_transf_matrix[1][1]    0.004669 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000398 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008583 
_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]    0.004532 
_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
F 2 NDP A 1 601 601 NDP NDP . 
G 3 UFP A 1 602 602 UFP UFP . 
H 4 OF7 A 1 603 603 OF7 M80 . 
I 5 MTX A 1 604 604 MTX MTX . 
J 6 SO4 A 1 605 5 SO4 SO4 . 
K 2 NDP B 1 601 601 NDP NDP . 
L 3 UFP B 1 602 602 UFP UFP . 
M 4 OF7 B 1 603 603 OF7 M80 . 
N 5 MTX B 1 604 604 MTX MTX . 
O 6 SO4 B 1 605 1 SO4 SO4 . 
P 2 NDP C 1 601 601 NDP NDP . 
Q 3 UFP C 1 602 602 UFP UFP . 
R 4 OF7 C 1 603 603 OF7 M80 . 
S 5 MTX C 1 604 604 MTX MTX . 
T 6 SO4 C 1 605 4 SO4 SO4 . 
U 2 NDP D 1 601 601 NDP NDP . 
V 3 UFP D 1 602 602 UFP UFP . 
W 4 OF7 D 1 603 603 OF7 M80 . 
X 5 MTX D 1 604 604 MTX MTX . 
Y 6 SO4 D 1 605 2 SO4 SO4 . 
Z 2 NDP E 1 601 601 NDP NDP . 
AA 3 UFP E 1 602 602 UFP UFP . 
BA 4 OF7 E 1 603 603 OF7 M80 . 
CA 5 MTX E 1 604 604 MTX MTX . 
DA 6 SO4 E 1 605 3 SO4 SO4 . 
EA 7 HOH B 1 701 3 HOH HOH . 
FA 7 HOH C 1 701 9 HOH HOH . 
FA 7 HOH C 2 702 7 HOH HOH . 
FA 7 HOH C 3 703 6 HOH HOH . 
FA 7 HOH C 4 704 12 HOH HOH . 
GA 7 HOH D 1 701 5 HOH HOH . 
GA 7 HOH D 2 702 10 HOH HOH . 
GA 7 HOH D 3 703 4 HOH HOH . 
GA 7 HOH D 4 704 1 HOH HOH . 
GA 7 HOH D 5 705 11 HOH HOH . 
HA 7 HOH E 1 701 8 HOH HOH . 
HA 7 HOH E 2 702 2 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 NDP . . . Z 2 7.652 -35.2 87.245 1 70.28 ? PA NDP 601 E 1 
HETATM 2 O O1A NDP . . . Z 2 6.602 -35.464 86.19 1 77.47 ? O1A NDP 601 E 1 
HETATM 3 O O2A NDP . . . Z 2 7.064 -35.448 88.603 1 74.89 ? O2A NDP 601 E 1 
HETATM 4 O O5B NDP . . . Z 2 8.807 -36.185 87.036 1 64.29 ? O5B NDP 601 E 1 
HETATM 5 C C5B NDP . . . Z 2 9.846 -35.927 86.133 1 56.73 ? C5B NDP 601 E 1 
HETATM 6 C C4B NDP . . . Z 2 10.884 -36.964 86.037 1 62.05 ? C4B NDP 601 E 1 
HETATM 7 O O4B NDP . . . Z 2 10.3 -38.195 85.675 1 62.49 ? O4B NDP 601 E 1 
HETATM 8 C C3B NDP . . . Z 2 11.871 -36.695 84.99 1 63.63 ? C3B NDP 601 E 1 
HETATM 9 O O3B NDP . . . Z 2 12.883 -35.865 85.442 1 63.98 ? O3B NDP 601 E 1 
HETATM 10 C C2B NDP . . . Z 2 12.365 -38.017 84.682 1 62.35 ? C2B NDP 601 E 1 
HETATM 11 O O2B NDP . . . Z 2 13.28 -38.463 85.641 1 77.72 ? O2B NDP 601 E 1 
HETATM 12 C C1B NDP . . . Z 2 11.18 -38.849 84.776 1 62.67 ? C1B NDP 601 E 1 
HETATM 13 N N9A NDP . . . Z 2 10.576 -38.992 83.498 1 70.62 ? N9A NDP 601 E 1 
HETATM 14 C C8A NDP . . . Z 2 9.528 -38.276 83.023 1 72.8 ? C8A NDP 601 E 1 
HETATM 15 N N7A NDP . . . Z 2 9.231 -38.693 81.776 1 90.64 ? N7A NDP 601 E 1 
HETATM 16 C C5A NDP . . . Z 2 10.106 -39.7 81.441 1 78.21 ? C5A NDP 601 E 1 
HETATM 17 C C6A NDP . . . Z 2 10.29 -40.511 80.295 1 70.61 ? C6A NDP 601 E 1 
HETATM 18 N N6A NDP . . . Z 2 9.398 -40.329 79.123 1 87.25 ? N6A NDP 601 E 1 
HETATM 19 N N1A NDP . . . Z 2 11.275 -41.45 80.273 1 73.61 ? N1A NDP 601 E 1 
HETATM 20 C C2A NDP . . . Z 2 12.077 -41.595 81.363 1 81.54 ? C2A NDP 601 E 1 
HETATM 21 N N3A NDP . . . Z 2 11.943 -40.855 82.467 1 72.91 ? N3A NDP 601 E 1 
HETATM 22 C C4A NDP . . . Z 2 10.955 -39.889 82.535 1 71.82 ? C4A NDP 601 E 1 
HETATM 23 O O3 NDP . . . Z 2 8.154 -33.689 87.171 1 68.02 ? O3 NDP 601 E 1 
HETATM 24 P PN NDP . . . Z 2 7.135 -32.471 87.028 1 75.88 ? PN NDP 601 E 1 
HETATM 25 O O1N NDP . . . Z 2 7.875 -31.128 87.095 1 84.76 ? O1N NDP 601 E 1 
HETATM 26 O O2N NDP . . . Z 2 6.437 -32.559 85.688 1 73.4 ? O2N NDP 601 E 1 
HETATM 27 O O5D NDP . . . Z 2 6.05 -32.547 88.231 1 64.66 ? O5D NDP 601 E 1 
HETATM 28 C C5D NDP . . . Z 2 6.375 -32.063 89.508 1 69.61 ? C5D NDP 601 E 1 
HETATM 29 C C4D NDP . . . Z 2 5.555 -30.987 90.04 1 75.3 ? C4D NDP 601 E 1 
HETATM 30 O O4D NDP . . . Z 2 4.179 -31.347 89.926 1 65.19 ? O4D NDP 601 E 1 
HETATM 31 C C3D NDP . . . Z 2 5.823 -30.772 91.469 1 64.91 ? C3D NDP 601 E 1 
HETATM 32 O O3D NDP . . . Z 2 5.714 -29.42 91.778 1 63.77 ? O3D NDP 601 E 1 
HETATM 33 C C2D NDP . . . Z 2 4.782 -31.483 92.128 1 75.85 ? C2D NDP 601 E 1 
HETATM 34 O O2D NDP . . . Z 2 4.52 -30.921 93.378 1 65.47 ? O2D NDP 601 E 1 
HETATM 35 C C1D NDP . . . Z 2 3.639 -31.317 91.204 1 67.61 ? C1D NDP 601 E 1 
HETATM 36 N N1N NDP . . . Z 2 2.677 -32.357 91.415 1 64.02 ? N1N NDP 601 E 1 
HETATM 37 C C2N NDP . . . Z 2 1.388 -32.012 91.58 1 59.49 ? C2N NDP 601 E 1 
HETATM 38 C C3N NDP . . . Z 2 0.406 -32.989 91.793 1 60.39 ? C3N NDP 601 E 1 
HETATM 39 C C7N NDP . . . Z 2 -1.037 -32.552 91.973 1 70.33 ? C7N NDP 601 E 1 
HETATM 40 O O7N NDP . . . Z 2 -1.93 -33.413 92.026 1 75.56 ? O7N NDP 601 E 1 
HETATM 41 N N7N NDP . . . Z 2 -1.382 -31.164 92.089 1 68.59 ? N7N NDP 601 E 1 
HETATM 42 C C4N NDP . . . Z 2 0.768 -34.348 91.838 1 65.03 ? C4N NDP 601 E 1 
HETATM 43 C C5N NDP . . . Z 2 2.12 -34.669 91.666 1 61.71 ? C5N NDP 601 E 1 
HETATM 44 C C6N NDP . . . Z 2 3.066 -33.669 91.453 1 65.1 ? C6N NDP 601 E 1 
HETATM 45 P P2B NDP . . . Z 2 14.816 -38.462 85.364 1 77.71 ? P2B NDP 601 E 1 
HETATM 46 O O1X NDP . . . Z 2 15.223 -37.065 84.857 1 65.8 ? O1X NDP 601 E 1 
HETATM 47 O O2X NDP . . . Z 2 15.532 -38.776 86.609 1 52.11 ? O2X NDP 601 E 1 
HETATM 48 O O3X NDP . . . Z 2 15.17 -39.5 84.347 1 87.09 ? O3X NDP 601 E 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    49 
_model_server_stats.query_time_ms           347 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           48 
#