data_1IDE
#
_model_server_result.job_id            wULDgj41jZTfy229_D_xLg 
_model_server_result.datetime_utc      '2024-12-26 16:24:01' 
_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          1ide 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":419}' 
#
_entry.id    1IDE 
#
_exptl.entry_id    1IDE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          4 
_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            1IDE 
_cell.length_a            105.1 
_cell.length_b            105.1 
_cell.length_c            150.3 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1IDE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,E 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 A OD2 ASP 283 A ASP 283 7_555 B MG MG . A MG 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? 
metalc ? metalc2 A OD1 ASP 307 A ASP 307 1_555 B MG MG . A MG 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
metalc ? metalc3 B MG MG . A MG 417 1_555 C O7 ICT . A ICT 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc4 B MG MG . A MG 417 1_555 C O2 ICT . A ICT 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? 
metalc ? metalc5 B MG MG . A MG 417 1_555 E O HOH . A HOH 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? 
metalc ? metalc6 B MG MG . A MG 417 1_555 E O HOH . A HOH 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? 
#
_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 257 n n 
PA O2A NAP sing 258 n n 
PA O5B NAP sing 259 n n 
PA O3 NAP sing 260 n n 
O2A HOA2 NAP sing 261 n n 
O5B C5B NAP sing 262 n n 
C5B C4B NAP sing 263 n n 
C5B H51A NAP sing 264 n n 
C5B H52A NAP sing 265 n n 
C4B O4B NAP sing 266 n n 
C4B C3B NAP sing 267 n n 
C4B H4B NAP sing 268 n n 
O4B C1B NAP sing 269 n n 
C3B O3B NAP sing 270 n n 
C3B C2B NAP sing 271 n n 
C3B H3B NAP sing 272 n n 
O3B HO3A NAP sing 273 n n 
C2B O2B NAP sing 274 n n 
C2B C1B NAP sing 275 n n 
C2B H2B NAP sing 276 n n 
O2B P2B NAP sing 277 n n 
C1B N9A NAP sing 278 n n 
C1B H1B NAP sing 279 n n 
N9A C8A NAP sing 280 n y 
N9A C4A NAP sing 281 n y 
C8A N7A NAP doub 282 n y 
C8A H8A NAP sing 283 n n 
N7A C5A NAP sing 284 n y 
C5A C6A NAP sing 285 n y 
C5A C4A NAP doub 286 n y 
C6A N6A NAP sing 287 n n 
C6A N1A NAP doub 288 n y 
N6A H61A NAP sing 289 n n 
N6A H62A NAP sing 290 n n 
N1A C2A NAP sing 291 n y 
C2A N3A NAP doub 292 n y 
C2A H2A NAP sing 293 n n 
N3A C4A NAP sing 294 n y 
O3 PN NAP sing 295 n n 
PN O1N NAP doub 296 n n 
PN O2N NAP sing 297 n n 
PN O5D NAP sing 298 n n 
O5D C5D NAP sing 299 n n 
C5D C4D NAP sing 300 n n 
C5D H51N NAP sing 301 n n 
C5D H52N NAP sing 302 n n 
C4D O4D NAP sing 303 n n 
C4D C3D NAP sing 304 n n 
C4D H4D NAP sing 305 n n 
O4D C1D NAP sing 306 n n 
C3D O3D NAP sing 307 n n 
C3D C2D NAP sing 308 n n 
C3D H3D NAP sing 309 n n 
O3D HO3N NAP sing 310 n n 
C2D O2D NAP sing 311 n n 
C2D C1D NAP sing 312 n n 
C2D H2D NAP sing 313 n n 
O2D HO2N NAP sing 314 n n 
C1D N1N NAP sing 315 n n 
C1D H1D NAP sing 316 n n 
N1N C2N NAP sing 317 n y 
N1N C6N NAP doub 318 n y 
C2N C3N NAP doub 319 n y 
C2N H2N NAP sing 320 n n 
C3N C7N NAP sing 321 n n 
C3N C4N NAP sing 322 n y 
C7N O7N NAP doub 323 n n 
C7N N7N NAP sing 324 n n 
N7N H71N NAP sing 325 n n 
N7N H72N NAP sing 326 n n 
C4N C5N NAP doub 327 n y 
C4N H4N NAP sing 328 n n 
C5N C6N NAP sing 329 n y 
C5N H5N NAP sing 330 n n 
C6N H6N NAP sing 331 n n 
P2B O1X NAP doub 332 n n 
P2B O2X NAP sing 333 n n 
P2B O3X NAP sing 334 n n 
O2X HOP2 NAP sing 335 n n 
O3X HOP3 NAP sing 336 n n 
#
_atom_sites.entry_id                     1IDE 
_atom_sites.fract_transf_matrix[1][1]    0.009515 
_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]    0.009515 
_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]    0.006653 
_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 MG A 1 417 1 MG MG . 
C 3 ICT A 1 418 1 ICT ICT . 
D 4 NAP A 1 419 2 NAP NAP . 
E 5 HOH A 1 458 458 HOH HOH . 
E 5 HOH A 2 562 562 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 . . . D 4 91.825 69.632 -4.073 1 55.62 ? PA NAP 419 A 1 
HETATM 2 O O1A NAP . . . D 4 92.084 69.271 -2.66 1 51.58 ? O1A NAP 419 A 1 
HETATM 3 O O2A NAP . . . D 4 90.557 70.379 -4.372 1 54.85 ? O2A NAP 419 A 1 
HETATM 4 O O5B NAP . . . D 4 93.044 70.529 -4.536 1 54.94 ? O5B NAP 419 A 1 
HETATM 5 C C5B NAP . . . D 4 93.355 71.792 -3.995 1 53 ? C5B NAP 419 A 1 
HETATM 6 C C4B NAP . . . D 4 94.607 72.477 -4.598 1 51.32 ? C4B NAP 419 A 1 
HETATM 7 O O4B NAP . . . D 4 94.977 73.665 -3.966 1 50.88 ? O4B NAP 419 A 1 
HETATM 8 C C3B NAP . . . D 4 95.905 71.672 -4.452 1 50.58 ? C3B NAP 419 A 1 
HETATM 9 O O3B NAP . . . D 4 96.067 70.505 -5.247 1 47.37 ? O3B NAP 419 A 1 
HETATM 10 C C2B NAP . . . D 4 96.963 72.739 -4.56 1 52.45 ? C2B NAP 419 A 1 
HETATM 11 O O2B NAP . . . D 4 97.041 73.406 -5.839 1 56.67 ? O2B NAP 419 A 1 
HETATM 12 C C1B NAP . . . D 4 96.297 73.654 -3.519 1 51.1 ? C1B NAP 419 A 1 
HETATM 13 N N9A NAP . . . D 4 96.624 73.254 -2.11 1 48.95 ? N9A NAP 419 A 1 
HETATM 14 C C8A NAP . . . D 4 95.81 72.513 -1.275 1 48.22 ? C8A NAP 419 A 1 
HETATM 15 N N7A NAP . . . D 4 96.425 71.524 -0.69 1 47.39 ? N7A NAP 419 A 1 
HETATM 16 C C5A NAP . . . D 4 97.742 71.897 -0.823 1 45.72 ? C5A NAP 419 A 1 
HETATM 17 C C6A NAP . . . D 4 98.896 71.368 -0.281 1 44.22 ? C6A NAP 419 A 1 
HETATM 18 N N6A NAP . . . D 4 98.839 70.303 0.492 1 37.72 ? N6A NAP 419 A 1 
HETATM 19 N N1A NAP . . . D 4 100.046 71.914 -0.627 1 42.66 ? N1A NAP 419 A 1 
HETATM 20 C C2A NAP . . . D 4 100.105 72.945 -1.478 1 41.47 ? C2A NAP 419 A 1 
HETATM 21 N N3A NAP . . . D 4 99.03 73.579 -1.925 1 43.5 ? N3A NAP 419 A 1 
HETATM 22 C C4A NAP . . . D 4 97.87 73.013 -1.599 1 46.62 ? C4A NAP 419 A 1 
HETATM 23 O O3 NAP . . . D 4 92.207 68.245 -4.878 1 57.24 ? O3 NAP 419 A 1 
HETATM 24 P PN NAP . . . D 4 92.373 67.808 -6.457 1 57.23 ? PN NAP 419 A 1 
HETATM 25 O O1N NAP . . . D 4 91.148 67.906 -7.327 1 56.89 ? O1N NAP 419 A 1 
HETATM 26 O O2N NAP . . . D 4 93.676 68.323 -6.946 1 56.91 ? O2N NAP 419 A 1 
HETATM 27 O O5D NAP . . . D 4 92.634 66.174 -6.44 1 57.41 ? O5D NAP 419 A 1 
HETATM 28 C C5D NAP . . . D 4 93.14 65.271 -5.435 1 54.78 ? C5D NAP 419 A 1 
HETATM 29 C C4D NAP . . . D 4 92.091 64.534 -4.566 1 52.55 ? C4D NAP 419 A 1 
HETATM 30 O O4D NAP . . . D 4 92.102 64.771 -3.201 1 51.31 ? O4D NAP 419 A 1 
HETATM 31 C C3D NAP . . . D 4 90.622 64.576 -4.977 1 51.99 ? C3D NAP 419 A 1 
HETATM 32 O O3D NAP . . . D 4 90.196 65.903 -5.288 1 52.44 ? O3D NAP 419 A 1 
HETATM 33 C C2D NAP . . . D 4 89.892 64.195 -3.699 1 50.25 ? C2D NAP 419 A 1 
HETATM 34 O O2D NAP . . . D 4 89.466 62.834 -3.581 1 44.93 ? O2D NAP 419 A 1 
HETATM 35 C C1D NAP . . . D 4 90.878 64.526 -2.588 1 50.5 ? C1D NAP 419 A 1 
HETATM 36 N N1N NAP . . . D 4 90.323 65.162 -1.373 1 48.83 ? N1N NAP 419 A 1 
HETATM 37 C C2N NAP . . . D 4 90.74 64.757 -0.139 1 48.26 ? C2N NAP 419 A 1 
HETATM 38 C C3N NAP . . . D 4 90.225 65.426 1.041 1 46.52 ? C3N NAP 419 A 1 
HETATM 39 C C7N NAP . . . D 4 90.637 65.092 2.346 1 43.57 ? C7N NAP 419 A 1 
HETATM 40 O O7N NAP . . . D 4 91.449 64.199 2.526 1 37.13 ? O7N NAP 419 A 1 
HETATM 41 N N7N NAP . . . D 4 90.12 65.74 3.469 1 38.96 ? N7N NAP 419 A 1 
HETATM 42 C C4N NAP . . . D 4 89.255 66.463 0.848 1 49.58 ? C4N NAP 419 A 1 
HETATM 43 C C5N NAP . . . D 4 88.863 66.783 -0.396 1 48.73 ? C5N NAP 419 A 1 
HETATM 44 C C6N NAP . . . D 4 89.348 66.125 -1.47 1 48.01 ? C6N NAP 419 A 1 
HETATM 45 P P2B NAP . . . D 4 97.633 72.714 -7.17 1 58.24 ? P2B NAP 419 A 1 
HETATM 46 O O1X NAP . . . D 4 97.448 73.748 -8.22 1 57.39 ? O1X NAP 419 A 1 
HETATM 47 O O2X NAP . . . D 4 96.863 71.461 -7.391 1 57.85 ? O2X NAP 419 A 1 
HETATM 48 O O3X NAP . . . D 4 99.013 72.516 -6.743 1 56.23 ? O3X NAP 419 A 1 
HETATM 49 H HO3A NAP . . . D 4 96.158 70.836 -6.163 1 0 ? HO3A NAP 419 A 1 
HETATM 50 H H61A NAP . . . D 4 97.913 69.914 0.614 1 0 ? H61A NAP 419 A 1 
HETATM 51 H H62A NAP . . . D 4 99.681 69.915 0.895 1 0 ? H62A NAP 419 A 1 
HETATM 52 H HO3N NAP . . . D 4 90.653 66.19 -6.094 1 0 ? HO3N NAP 419 A 1 
HETATM 53 H HO2N NAP . . . D 4 88.96 62.819 -2.756 1 0 ? HO2N NAP 419 A 1 
HETATM 54 H H71N NAP . . . D 4 90.592 65.673 4.361 1 0 ? H71N NAP 419 A 1 
HETATM 55 H H72N NAP . . . D 4 89.242 66.235 3.395 1 0 ? H72N NAP 419 A 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           44 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           544 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           55 
#