data_3D5Q
#
_model_server_result.job_id            7Kj2fvrR9brpuHZDWyEnmg 
_model_server_result.datetime_utc      '2024-12-22 01:38:09' 
_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          3d5q 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":2}' 
#
_entry.id    3D5Q 
#
_exptl.entry_id    3D5Q 
_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          92.2 
_cell.angle_gamma         90 
_cell.entry_id            3D5Q 
_cell.length_a            56.675 
_cell.length_b            153.319 
_cell.length_c            73.601 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3D5Q 
_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 tetrameric 4 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,B,C,D,E,F,G,H,I,J,K,L 1 1 
A,B,E,F,G,H 2 1 
C,D,I,J,K,L 3 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 235 n n 
PA O2A NAP sing 236 n n 
PA O5B NAP sing 237 n n 
PA O3 NAP sing 238 n n 
O2A HOA2 NAP sing 239 n n 
O5B C5B NAP sing 240 n n 
C5B C4B NAP sing 241 n n 
C5B H51A NAP sing 242 n n 
C5B H52A NAP sing 243 n n 
C4B O4B NAP sing 244 n n 
C4B C3B NAP sing 245 n n 
C4B H4B NAP sing 246 n n 
O4B C1B NAP sing 247 n n 
C3B O3B NAP sing 248 n n 
C3B C2B NAP sing 249 n n 
C3B H3B NAP sing 250 n n 
O3B HO3A NAP sing 251 n n 
C2B O2B NAP sing 252 n n 
C2B C1B NAP sing 253 n n 
C2B H2B NAP sing 254 n n 
O2B P2B NAP sing 255 n n 
C1B N9A NAP sing 256 n n 
C1B H1B NAP sing 257 n n 
N9A C8A NAP sing 258 n y 
N9A C4A NAP sing 259 n y 
C8A N7A NAP doub 260 n y 
C8A H8A NAP sing 261 n n 
N7A C5A NAP sing 262 n y 
C5A C6A NAP sing 263 n y 
C5A C4A NAP doub 264 n y 
C6A N6A NAP sing 265 n n 
C6A N1A NAP doub 266 n y 
N6A H61A NAP sing 267 n n 
N6A H62A NAP sing 268 n n 
N1A C2A NAP sing 269 n y 
C2A N3A NAP doub 270 n y 
C2A H2A NAP sing 271 n n 
N3A C4A NAP sing 272 n y 
O3 PN NAP sing 273 n n 
PN O1N NAP doub 274 n n 
PN O2N NAP sing 275 n n 
PN O5D NAP sing 276 n n 
O5D C5D NAP sing 277 n n 
C5D C4D NAP sing 278 n n 
C5D H51N NAP sing 279 n n 
C5D H52N NAP sing 280 n n 
C4D O4D NAP sing 281 n n 
C4D C3D NAP sing 282 n n 
C4D H4D NAP sing 283 n n 
O4D C1D NAP sing 284 n n 
C3D O3D NAP sing 285 n n 
C3D C2D NAP sing 286 n n 
C3D H3D NAP sing 287 n n 
O3D HO3N NAP sing 288 n n 
C2D O2D NAP sing 289 n n 
C2D C1D NAP sing 290 n n 
C2D H2D NAP sing 291 n n 
O2D HO2N NAP sing 292 n n 
C1D N1N NAP sing 293 n n 
C1D H1D NAP sing 294 n n 
N1N C2N NAP sing 295 n y 
N1N C6N NAP doub 296 n y 
C2N C3N NAP doub 297 n y 
C2N H2N NAP sing 298 n n 
C3N C7N NAP sing 299 n n 
C3N C4N NAP sing 300 n y 
C7N O7N NAP doub 301 n n 
C7N N7N NAP sing 302 n n 
N7N H71N NAP sing 303 n n 
N7N H72N NAP sing 304 n n 
C4N C5N NAP doub 305 n y 
C4N H4N NAP sing 306 n n 
C5N C6N NAP sing 307 n y 
C5N H5N NAP sing 308 n n 
C6N H6N NAP sing 309 n n 
P2B O1X NAP doub 310 n n 
P2B O2X NAP sing 311 n n 
P2B O3X NAP sing 312 n n 
O2X HOP2 NAP sing 313 n n 
O3X HOP3 NAP sing 314 n n 
#
_atom_sites.entry_id                     3D5Q 
_atom_sites.fract_transf_matrix[1][1]    0.017644 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000678 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006522 
_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]    0.013597 
_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 T30 A 1 293 290 T30 T30 . 
G 2 NAP B 1 2 2 NAP NAP . 
H 3 T30 B 1 1 1 T30 T30 . 
I 2 NAP C 1 3 3 NAP NAP . 
J 3 T30 C 1 1 1 T30 T30 . 
K 2 NAP D 1 4 4 NAP NAP . 
L 3 T30 D 1 1 1 T30 T30 . 
#
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 . . . G 2 -27.99 -5.321 8.682 1 53.79 ? PA NAP 2 B 1 
HETATM 2 O O1A NAP . . . G 2 -29.16 -4.845 7.908 1 57.11 ? O1A NAP 2 B 1 
HETATM 3 O O2A NAP . . . G 2 -28.372 -5.792 10.026 1 54.2 ? O2A NAP 2 B 1 
HETATM 4 O O5B NAP . . . G 2 -27.158 -6.398 7.844 1 52.55 ? O5B NAP 2 B 1 
HETATM 5 C C5B NAP . . . G 2 -26.584 -7.488 8.51 1 51.24 ? C5B NAP 2 B 1 
HETATM 6 C C4B NAP . . . G 2 -26.276 -8.559 7.476 1 51.23 ? C4B NAP 2 B 1 
HETATM 7 O O4B NAP . . . G 2 -25.227 -9.386 7.945 1 49.61 ? O4B NAP 2 B 1 
HETATM 8 C C3B NAP . . . G 2 -27.461 -9.488 7.239 1 50.53 ? C3B NAP 2 B 1 
HETATM 9 O O3B NAP . . . G 2 -27.363 -9.962 5.915 1 49.13 ? O3B NAP 2 B 1 
HETATM 10 C C2B NAP . . . G 2 -27.197 -10.617 8.205 1 49.42 ? C2B NAP 2 B 1 
HETATM 11 O O2B NAP . . . G 2 -27.884 -11.79 7.829 1 50.67 ? O2B NAP 2 B 1 
HETATM 12 C C1B NAP . . . G 2 -25.675 -10.716 8.086 1 47.44 ? C1B NAP 2 B 1 
HETATM 13 N N9A NAP . . . G 2 -25.056 -11.394 9.24 1 44.18 ? N9A NAP 2 B 1 
HETATM 14 C C8A NAP . . . G 2 -25.305 -11.179 10.576 1 44.36 ? C8A NAP 2 B 1 
HETATM 15 N N7A NAP . . . G 2 -24.539 -12.033 11.3 1 43.92 ? N7A NAP 2 B 1 
HETATM 16 C C5A NAP . . . G 2 -23.796 -12.78 10.439 1 43.6 ? C5A NAP 2 B 1 
HETATM 17 C C6A NAP . . . G 2 -22.852 -13.793 10.627 1 43.51 ? C6A NAP 2 B 1 
HETATM 18 N N6A NAP . . . G 2 -22.53 -14.199 11.859 1 43.43 ? N6A NAP 2 B 1 
HETATM 19 N N1A NAP . . . G 2 -22.257 -14.393 9.533 1 41.82 ? N1A NAP 2 B 1 
HETATM 20 C C2A NAP . . . G 2 -22.6 -13.977 8.276 1 41.62 ? C2A NAP 2 B 1 
HETATM 21 N N3A NAP . . . G 2 -23.535 -12.974 8.112 1 41.16 ? N3A NAP 2 B 1 
HETATM 22 C C4A NAP . . . G 2 -24.126 -12.389 9.155 1 41.86 ? C4A NAP 2 B 1 
HETATM 23 O O3 NAP . . . G 2 -26.946 -4.132 8.767 1 52.5 ? O3 NAP 2 B 1 
HETATM 24 P PN NAP . . . G 2 -26.765 -2.867 7.823 1 52.1 ? PN NAP 2 B 1 
HETATM 25 O O1N NAP . . . G 2 -27.295 -3.197 6.477 1 50.54 ? O1N NAP 2 B 1 
HETATM 26 O O2N NAP . . . G 2 -27.236 -1.733 8.653 1 49.87 ? O2N NAP 2 B 1 
HETATM 27 O O5D NAP . . . G 2 -25.155 -2.702 7.704 1 50.94 ? O5D NAP 2 B 1 
HETATM 28 C C5D NAP . . . G 2 -24.407 -3.216 6.623 1 50.42 ? C5D NAP 2 B 1 
HETATM 29 C C4D NAP . . . G 2 -22.994 -2.657 6.743 1 50.11 ? C4D NAP 2 B 1 
HETATM 30 O O4D NAP . . . G 2 -23.04 -1.242 6.829 1 49.89 ? O4D NAP 2 B 1 
HETATM 31 C C3D NAP . . . G 2 -22.305 -3.14 8.016 1 48.51 ? C3D NAP 2 B 1 
HETATM 32 O O3D NAP . . . G 2 -20.969 -3.413 7.691 1 45.84 ? O3D NAP 2 B 1 
HETATM 33 C C2D NAP . . . G 2 -22.331 -1.947 8.943 1 47.78 ? C2D NAP 2 B 1 
HETATM 34 O O2D NAP . . . G 2 -21.205 -1.925 9.783 1 46.26 ? O2D NAP 2 B 1 
HETATM 35 C C1D NAP . . . G 2 -22.317 -0.789 7.966 1 49.12 ? C1D NAP 2 B 1 
HETATM 36 N N1N NAP . . . G 2 -22.893 0.436 8.57 1 50.18 ? N1N NAP 2 B 1 
HETATM 37 C C2N NAP . . . G 2 -24.242 0.576 8.713 1 49.27 ? C2N NAP 2 B 1 
HETATM 38 C C3N NAP . . . G 2 -24.773 1.731 9.283 1 51.21 ? C3N NAP 2 B 1 
HETATM 39 C C7N NAP . . . G 2 -26.274 1.862 9.434 1 51.95 ? C7N NAP 2 B 1 
HETATM 40 O O7N NAP . . . G 2 -26.843 2.857 10.252 1 53.54 ? O7N NAP 2 B 1 
HETATM 41 N N7N NAP . . . G 2 -27.083 1.021 8.799 1 51.37 ? N7N NAP 2 B 1 
HETATM 42 C C4N NAP . . . G 2 -23.923 2.751 9.706 1 49.39 ? C4N NAP 2 B 1 
HETATM 43 C C5N NAP . . . G 2 -22.553 2.602 9.536 1 49.33 ? C5N NAP 2 B 1 
HETATM 44 C C6N NAP . . . G 2 -22.042 1.438 8.977 1 49.34 ? C6N NAP 2 B 1 
HETATM 45 P P2B NAP . . . G 2 -27.952 -13.083 8.784 1 54.62 ? P2B NAP 2 B 1 
HETATM 46 O O1X NAP . . . G 2 -29.073 -13.994 8.322 1 56.23 ? O1X NAP 2 B 1 
HETATM 47 O O2X NAP . . . G 2 -26.643 -13.826 8.653 1 53.83 ? O2X NAP 2 B 1 
HETATM 48 O O3X NAP . . . G 2 -28.176 -12.711 10.229 1 53.42 ? O3X NAP 2 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           48 
#