data_3D3E
#
_model_server_result.job_id            Jc3Ju_Spb9Lsyu7Cto6O4A 
_model_server_result.datetime_utc      '2024-10-18 15:32:18' 
_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          3d3e 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1}' 
#
_entry.id    3D3E 
#
_exptl.entry_id    3D3E 
_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          92.11 
_cell.angle_gamma         90 
_cell.entry_id            3D3E 
_cell.length_a            56.7 
_cell.length_b            152.846 
_cell.length_c            73.708 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3D3E 
_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,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 298 n n 
PA O2A NAP sing 299 n n 
PA O5B NAP sing 300 n n 
PA O3 NAP sing 301 n n 
O2A HOA2 NAP sing 302 n n 
O5B C5B NAP sing 303 n n 
C5B C4B NAP sing 304 n n 
C5B H51A NAP sing 305 n n 
C5B H52A NAP sing 306 n n 
C4B O4B NAP sing 307 n n 
C4B C3B NAP sing 308 n n 
C4B H4B NAP sing 309 n n 
O4B C1B NAP sing 310 n n 
C3B O3B NAP sing 311 n n 
C3B C2B NAP sing 312 n n 
C3B H3B NAP sing 313 n n 
O3B HO3A NAP sing 314 n n 
C2B O2B NAP sing 315 n n 
C2B C1B NAP sing 316 n n 
C2B H2B NAP sing 317 n n 
O2B P2B NAP sing 318 n n 
C1B N9A NAP sing 319 n n 
C1B H1B NAP sing 320 n n 
N9A C8A NAP sing 321 n y 
N9A C4A NAP sing 322 n y 
C8A N7A NAP doub 323 n y 
C8A H8A NAP sing 324 n n 
N7A C5A NAP sing 325 n y 
C5A C6A NAP sing 326 n y 
C5A C4A NAP doub 327 n y 
C6A N6A NAP sing 328 n n 
C6A N1A NAP doub 329 n y 
N6A H61A NAP sing 330 n n 
N6A H62A NAP sing 331 n n 
N1A C2A NAP sing 332 n y 
C2A N3A NAP doub 333 n y 
C2A H2A NAP sing 334 n n 
N3A C4A NAP sing 335 n y 
O3 PN NAP sing 336 n n 
PN O1N NAP doub 337 n n 
PN O2N NAP sing 338 n n 
PN O5D NAP sing 339 n n 
O5D C5D NAP sing 340 n n 
C5D C4D NAP sing 341 n n 
C5D H51N NAP sing 342 n n 
C5D H52N NAP sing 343 n n 
C4D O4D NAP sing 344 n n 
C4D C3D NAP sing 345 n n 
C4D H4D NAP sing 346 n n 
O4D C1D NAP sing 347 n n 
C3D O3D NAP sing 348 n n 
C3D C2D NAP sing 349 n n 
C3D H3D NAP sing 350 n n 
O3D HO3N NAP sing 351 n n 
C2D O2D NAP sing 352 n n 
C2D C1D NAP sing 353 n n 
C2D H2D NAP sing 354 n n 
O2D HO2N NAP sing 355 n n 
C1D N1N NAP sing 356 n n 
C1D H1D NAP sing 357 n n 
N1N C2N NAP sing 358 n y 
N1N C6N NAP doub 359 n y 
C2N C3N NAP doub 360 n y 
C2N H2N NAP sing 361 n n 
C3N C7N NAP sing 362 n n 
C3N C4N NAP sing 363 n y 
C7N O7N NAP doub 364 n n 
C7N N7N NAP sing 365 n n 
N7N H71N NAP sing 366 n n 
N7N H72N NAP sing 367 n n 
C4N C5N NAP doub 368 n y 
C4N H4N NAP sing 369 n n 
C5N C6N NAP sing 370 n y 
C5N H5N NAP sing 371 n n 
C6N H6N NAP sing 372 n n 
P2B O1X NAP doub 373 n n 
P2B O2X NAP sing 374 n n 
P2B O3X NAP sing 375 n n 
O2X HOP2 NAP sing 376 n n 
O3X HOP3 NAP sing 377 n n 
#
_atom_sites.entry_id                     3D3E 
_atom_sites.fract_transf_matrix[1][1]    0.017637 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00065 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006543 
_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]    0.013576 
_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 1 1 NAP NAP . 
F 3 D3E A 1 293 293 D3E D3E . 
G 2 NAP B 1 2 2 NAP NAP . 
H 3 D3E B 1 293 293 D3E D3E . 
I 2 NAP C 1 3 3 NAP NAP . 
J 3 D3E C 1 293 293 D3E D3E . 
K 2 NAP D 1 4 4 NAP NAP . 
L 3 D3E D 1 293 293 D3E D3E . 
M 4 HOH A 1 294 294 HOH HOH . 
M 4 HOH A 2 295 295 HOH HOH . 
M 4 HOH A 3 296 296 HOH HOH . 
M 4 HOH A 4 297 297 HOH HOH . 
M 4 HOH A 5 298 298 HOH HOH . 
M 4 HOH A 6 299 299 HOH HOH . 
M 4 HOH A 7 300 300 HOH HOH . 
M 4 HOH A 8 301 301 HOH HOH . 
M 4 HOH A 9 302 302 HOH HOH . 
M 4 HOH A 10 303 303 HOH HOH . 
N 4 HOH B 1 294 294 HOH HOH . 
N 4 HOH B 2 295 295 HOH HOH . 
N 4 HOH B 3 296 296 HOH HOH . 
N 4 HOH B 4 297 297 HOH HOH . 
N 4 HOH B 5 298 298 HOH HOH . 
N 4 HOH B 6 299 299 HOH HOH . 
N 4 HOH B 7 300 300 HOH HOH . 
N 4 HOH B 8 302 302 HOH HOH . 
N 4 HOH B 9 303 303 HOH HOH . 
N 4 HOH B 10 304 304 HOH HOH . 
N 4 HOH B 11 305 305 HOH HOH . 
N 4 HOH B 12 307 307 HOH HOH . 
N 4 HOH B 13 308 308 HOH HOH . 
N 4 HOH B 14 309 309 HOH HOH . 
N 4 HOH B 15 310 310 HOH HOH . 
N 4 HOH B 16 311 311 HOH HOH . 
N 4 HOH B 17 312 312 HOH HOH . 
N 4 HOH B 18 313 313 HOH HOH . 
N 4 HOH B 19 314 314 HOH HOH . 
O 4 HOH C 1 294 294 HOH HOH . 
O 4 HOH C 2 295 295 HOH HOH . 
O 4 HOH C 3 296 296 HOH HOH . 
O 4 HOH C 4 299 299 HOH HOH . 
O 4 HOH C 5 300 300 HOH HOH . 
O 4 HOH C 6 301 301 HOH HOH . 
O 4 HOH C 7 302 302 HOH HOH . 
O 4 HOH C 8 303 303 HOH HOH . 
O 4 HOH C 9 304 304 HOH HOH . 
O 4 HOH C 10 305 305 HOH HOH . 
O 4 HOH C 11 306 306 HOH HOH . 
O 4 HOH C 12 307 307 HOH HOH . 
P 4 HOH D 1 294 294 HOH HOH . 
P 4 HOH D 2 295 295 HOH HOH . 
P 4 HOH D 3 296 296 HOH HOH . 
P 4 HOH D 4 297 297 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 . . . E 2 9.353 -4.765 23.459 1 47.61 ? PA NAP 1 A 1 
HETATM 2 O O1A NAP . . . E 2 10.451 -3.954 24.03 1 48.44 ? O1A NAP 1 A 1 
HETATM 3 O O2A NAP . . . E 2 9.774 -5.562 22.289 1 46.02 ? O2A NAP 1 A 1 
HETATM 4 O O5B NAP . . . E 2 8.762 -5.71 24.612 1 46.82 ? O5B NAP 1 A 1 
HETATM 5 C C5B NAP . . . E 2 7.581 -6.434 24.388 1 45.32 ? C5B NAP 1 A 1 
HETATM 6 C C4B NAP . . . E 2 7.12 -6.883 25.757 1 44.31 ? C4B NAP 1 A 1 
HETATM 7 O O4B NAP . . . E 2 5.909 -7.616 25.659 1 43.81 ? O4B NAP 1 A 1 
HETATM 8 C C3B NAP . . . E 2 8.177 -7.801 26.351 1 43.58 ? C3B NAP 1 A 1 
HETATM 9 O O3B NAP . . . E 2 8.288 -7.555 27.733 1 42.94 ? O3B NAP 1 A 1 
HETATM 10 C C2B NAP . . . E 2 7.614 -9.181 26.132 1 43.16 ? C2B NAP 1 A 1 
HETATM 11 O O2B NAP . . . E 2 8.041 -10.058 27.149 1 43.48 ? O2B NAP 1 A 1 
HETATM 12 C C1B NAP . . . E 2 6.115 -8.903 26.198 1 42.46 ? C1B NAP 1 A 1 
HETATM 13 N N9A NAP . . . E 2 5.361 -9.948 25.507 1 40.17 ? N9A NAP 1 A 1 
HETATM 14 C C8A NAP . . . E 2 5.573 -10.512 24.275 1 39.64 ? C8A NAP 1 A 1 
HETATM 15 N N7A NAP . . . E 2 4.634 -11.467 24.081 1 39.43 ? N7A NAP 1 A 1 
HETATM 16 C C5A NAP . . . E 2 3.845 -11.519 25.189 1 40.08 ? C5A NAP 1 A 1 
HETATM 17 C C6A NAP . . . E 2 2.752 -12.293 25.556 1 39.16 ? C6A NAP 1 A 1 
HETATM 18 N N6A NAP . . . E 2 2.264 -13.217 24.74 1 39.15 ? N6A NAP 1 A 1 
HETATM 19 N N1A NAP . . . E 2 2.163 -12.096 26.781 1 39.17 ? N1A NAP 1 A 1 
HETATM 20 C C2A NAP . . . E 2 2.642 -11.145 27.648 1 39.46 ? C2A NAP 1 A 1 
HETATM 21 N N3A NAP . . . E 2 3.725 -10.384 27.29 1 40.22 ? N3A NAP 1 A 1 
HETATM 22 C C4A NAP . . . E 2 4.303 -10.57 26.085 1 40.09 ? C4A NAP 1 A 1 
HETATM 23 O O3 NAP . . . E 2 8.176 -3.743 23.107 1 46.57 ? O3 NAP 1 A 1 
HETATM 24 P PN NAP . . . E 2 8.383 -2.172 22.92 1 47.39 ? PN NAP 1 A 1 
HETATM 25 O O1N NAP . . . E 2 8.906 -1.672 24.219 1 47.19 ? O1N NAP 1 A 1 
HETATM 26 O O2N NAP . . . E 2 9.118 -1.951 21.651 1 45.91 ? O2N NAP 1 A 1 
HETATM 27 O O5D NAP . . . E 2 6.887 -1.605 22.735 1 46.3 ? O5D NAP 1 A 1 
HETATM 28 C C5D NAP . . . E 2 6.018 -1.546 23.846 1 45.21 ? C5D NAP 1 A 1 
HETATM 29 C C4D NAP . . . E 2 4.681 -0.904 23.49 1 44.82 ? C4D NAP 1 A 1 
HETATM 30 O O4D NAP . . . E 2 4.871 0.319 22.804 1 44.73 ? O4D NAP 1 A 1 
HETATM 31 C C3D NAP . . . E 2 3.831 -1.788 22.59 1 43.97 ? C3D NAP 1 A 1 
HETATM 32 O O3D NAP . . . E 2 2.51 -1.665 23.036 1 42.77 ? O3D NAP 1 A 1 
HETATM 33 C C2D NAP . . . E 2 3.954 -1.146 21.23 1 43.56 ? C2D NAP 1 A 1 
HETATM 34 O O2D NAP . . . E 2 2.784 -1.341 20.475 1 41.82 ? O2D NAP 1 A 1 
HETATM 35 C C1D NAP . . . E 2 4.148 0.311 21.592 1 44.07 ? C1D NAP 1 A 1 
HETATM 36 N N1N NAP . . . E 2 4.906 0.981 20.53 1 44.74 ? N1N NAP 1 A 1 
HETATM 37 C C2N NAP . . . E 2 6.226 0.684 20.352 1 45.24 ? C2N NAP 1 A 1 
HETATM 38 C C3N NAP . . . E 2 6.938 1.328 19.336 1 46.25 ? C3N NAP 1 A 1 
HETATM 39 C C7N NAP . . . E 2 8.417 1.121 19.169 1 47.1 ? C7N NAP 1 A 1 
HETATM 40 O O7N NAP . . . E 2 8.999 1.426 17.923 1 46.91 ? O7N NAP 1 A 1 
HETATM 41 N N7N NAP . . . E 2 9.147 0.66 20.185 1 47.5 ? N7N NAP 1 A 1 
HETATM 42 C C4N NAP . . . E 2 6.3 2.247 18.507 1 45.16 ? C4N NAP 1 A 1 
HETATM 43 C C5N NAP . . . E 2 4.954 2.53 18.696 1 44.86 ? C5N NAP 1 A 1 
HETATM 44 C C6N NAP . . . E 2 4.27 1.888 19.725 1 44.62 ? C6N NAP 1 A 1 
HETATM 45 P P2B NAP . . . E 2 8.154 -11.647 26.9 1 44.31 ? P2B NAP 1 A 1 
HETATM 46 O O1X NAP . . . E 2 8.992 -12.276 27.988 1 46.68 ? O1X NAP 1 A 1 
HETATM 47 O O2X NAP . . . E 2 6.766 -12.229 27.001 1 44.8 ? O2X NAP 1 A 1 
HETATM 48 O O3X NAP . . . E 2 8.791 -11.963 25.575 1 43.95 ? O3X NAP 1 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           48 
#