data_7RDU
#
_model_server_result.job_id            lqflNHBmctxjfzHpGz5sZA 
_model_server_result.datetime_utc      '2025-01-03 00:46:13' 
_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          7rdu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    7RDU 
#
_exptl.entry_id    7RDU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          3 
_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            7RDU 
_cell.length_a            130.108 
_cell.length_b            130.108 
_cell.length_c            130.108 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7RDU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        197 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 3' 
#
_pdbx_struct_assembly.method_details        PISA 
_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,F 
_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' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_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 OD1 ASP 191 A ASP 192 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc2 A OE2 GLU 195 A GLU 196 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? 
metalc ? metalc3 A OE2 GLU 227 A GLU 228 1_555 B MG MG . A MG 401 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc4 A OE1 GLU 231 A GLU 232 1_555 B MG MG . A MG 401 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? 
metalc ? metalc5 B MG MG . A MG 401 1_555 F O HOH . A HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc6 B MG MG . A MG 401 1_555 F O HOH . A HOH 522 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? 
metalc ? metalc7 B MG MG . A MG 401 1_555 F O HOH . A HOH 534 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? 
#
_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 237 n n 
PA O2A NAP sing 238 n n 
PA O5B NAP sing 239 n n 
PA O3 NAP sing 240 n n 
O2A HOA2 NAP sing 241 n n 
O5B C5B NAP sing 242 n n 
C5B C4B NAP sing 243 n n 
C5B H51A NAP sing 244 n n 
C5B H52A NAP sing 245 n n 
C4B O4B NAP sing 246 n n 
C4B C3B NAP sing 247 n n 
C4B H4B NAP sing 248 n n 
O4B C1B NAP sing 249 n n 
C3B O3B NAP sing 250 n n 
C3B C2B NAP sing 251 n n 
C3B H3B NAP sing 252 n n 
O3B HO3A NAP sing 253 n n 
C2B O2B NAP sing 254 n n 
C2B C1B NAP sing 255 n n 
C2B H2B NAP sing 256 n n 
O2B P2B NAP sing 257 n n 
C1B N9A NAP sing 258 n n 
C1B H1B NAP sing 259 n n 
N9A C8A NAP sing 260 n y 
N9A C4A NAP sing 261 n y 
C8A N7A NAP doub 262 n y 
C8A H8A NAP sing 263 n n 
N7A C5A NAP sing 264 n y 
C5A C6A NAP sing 265 n y 
C5A C4A NAP doub 266 n y 
C6A N6A NAP sing 267 n n 
C6A N1A NAP doub 268 n y 
N6A H61A NAP sing 269 n n 
N6A H62A NAP sing 270 n n 
N1A C2A NAP sing 271 n y 
C2A N3A NAP doub 272 n y 
C2A H2A NAP sing 273 n n 
N3A C4A NAP sing 274 n y 
O3 PN NAP sing 275 n n 
PN O1N NAP doub 276 n n 
PN O2N NAP sing 277 n n 
PN O5D NAP sing 278 n n 
O5D C5D NAP sing 279 n n 
C5D C4D NAP sing 280 n n 
C5D H51N NAP sing 281 n n 
C5D H52N NAP sing 282 n n 
C4D O4D NAP sing 283 n n 
C4D C3D NAP sing 284 n n 
C4D H4D NAP sing 285 n n 
O4D C1D NAP sing 286 n n 
C3D O3D NAP sing 287 n n 
C3D C2D NAP sing 288 n n 
C3D H3D NAP sing 289 n n 
O3D HO3N NAP sing 290 n n 
C2D O2D NAP sing 291 n n 
C2D C1D NAP sing 292 n n 
C2D H2D NAP sing 293 n n 
O2D HO2N NAP sing 294 n n 
C1D N1N NAP sing 295 n n 
C1D H1D NAP sing 296 n n 
N1N C2N NAP sing 297 n y 
N1N C6N NAP doub 298 n y 
C2N C3N NAP doub 299 n y 
C2N H2N NAP sing 300 n n 
C3N C7N NAP sing 301 n n 
C3N C4N NAP sing 302 n y 
C7N O7N NAP doub 303 n n 
C7N N7N NAP sing 304 n n 
N7N H71N NAP sing 305 n n 
N7N H72N NAP sing 306 n n 
C4N C5N NAP doub 307 n y 
C4N H4N NAP sing 308 n n 
C5N C6N NAP sing 309 n y 
C5N H5N NAP sing 310 n n 
C6N H6N NAP sing 311 n n 
P2B O1X NAP doub 312 n n 
P2B O2X NAP sing 313 n n 
P2B O3X NAP sing 314 n n 
O2X HOP2 NAP sing 315 n n 
O3X HOP3 NAP sing 316 n n 
#
_atom_sites.entry_id                     7RDU 
_atom_sites.fract_transf_matrix[1][1]    0.007686 
_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]    0.007686 
_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]    0.007686 
_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 1 401 341 MG MG . 
C 2 MG A 1 402 342 MG MG . 
D 3 NAP A 1 403 1 NAP RED . 
E 4 NDP A 1 404 1 NDP NDP . 
F 5 HOH A 1 501 27 HOH HOH . 
F 5 HOH A 2 502 38 HOH HOH . 
F 5 HOH A 3 503 2 HOH HOH . 
F 5 HOH A 4 504 37 HOH HOH . 
F 5 HOH A 5 505 45 HOH HOH . 
F 5 HOH A 6 506 24 HOH HOH . 
F 5 HOH A 7 507 36 HOH HOH . 
F 5 HOH A 8 508 13 HOH HOH . 
F 5 HOH A 9 509 25 HOH HOH . 
F 5 HOH A 10 510 1 HOH HOH . 
F 5 HOH A 11 511 4 HOH HOH . 
F 5 HOH A 12 512 26 HOH HOH . 
F 5 HOH A 13 513 10 HOH HOH . 
F 5 HOH A 14 514 30 HOH HOH . 
F 5 HOH A 15 515 15 HOH HOH . 
F 5 HOH A 16 516 16 HOH HOH . 
F 5 HOH A 17 517 6 HOH HOH . 
F 5 HOH A 18 518 20 HOH HOH . 
F 5 HOH A 19 519 22 HOH HOH . 
F 5 HOH A 20 520 11 HOH HOH . 
F 5 HOH A 21 521 14 HOH HOH . 
F 5 HOH A 22 522 42 HOH HOH . 
F 5 HOH A 23 523 19 HOH HOH . 
F 5 HOH A 24 524 5 HOH HOH . 
F 5 HOH A 25 525 23 HOH HOH . 
F 5 HOH A 26 526 34 HOH HOH . 
F 5 HOH A 27 527 7 HOH HOH . 
F 5 HOH A 28 528 8 HOH HOH . 
F 5 HOH A 29 529 35 HOH HOH . 
F 5 HOH A 30 530 31 HOH HOH . 
F 5 HOH A 31 531 17 HOH HOH . 
F 5 HOH A 32 532 9 HOH HOH . 
F 5 HOH A 33 533 12 HOH HOH . 
F 5 HOH A 34 534 43 HOH HOH . 
F 5 HOH A 35 535 32 HOH HOH . 
F 5 HOH A 36 536 39 HOH HOH . 
F 5 HOH A 37 537 21 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 . A . D 3 -12.817 46.218 -17.008 0.51 75.81 ? PA NAP 403 A 1 
HETATM 2 O O1A NAP . A . D 3 -13.873 45.289 -16.511 0.51 74.79 ? O1A NAP 403 A 1 
HETATM 3 O O2A NAP . A . D 3 -13.009 47.382 -16.102 0.51 74.73 -1 O2A NAP 403 A 1 
HETATM 4 O O5B NAP . A . D 3 -13.052 46.622 -18.535 0.51 75.5 ? O5B NAP 403 A 1 
HETATM 5 C C5B NAP . A . D 3 -14.329 46.437 -19.125 0.51 75.22 ? C5B NAP 403 A 1 
HETATM 6 C C4B NAP . A . D 3 -14.541 47.468 -20.189 0.51 75.82 ? C4B NAP 403 A 1 
HETATM 7 O O4B NAP . A . D 3 -15.151 46.819 -21.365 0.51 76.01 ? O4B NAP 403 A 1 
HETATM 8 C C3B NAP . A . D 3 -15.487 48.516 -19.791 0.51 75.95 ? C3B NAP 403 A 1 
HETATM 9 O O3B NAP . A . D 3 -15.441 48.809 -18.382 0.51 76.86 ? O3B NAP 403 A 1 
HETATM 10 C C2B NAP . A . D 3 -16.802 47.971 -20.2 0.51 76 ? C2B NAP 403 A 1 
HETATM 11 O O2B NAP . A . D 3 -17.793 49.025 -20.321 0.51 76.85 ? O2B NAP 403 A 1 
HETATM 12 C C1B NAP . A . D 3 -16.502 47.364 -21.5 0.51 76.25 ? C1B NAP 403 A 1 
HETATM 13 N N9A NAP . A . D 3 -17.425 46.335 -21.885 0.51 75.95 ? N9A NAP 403 A 1 
HETATM 14 C C8A NAP . A . D 3 -17.793 45.339 -21.105 0.51 76.07 ? C8A NAP 403 A 1 
HETATM 15 N N7A NAP . A . D 3 -18.682 44.499 -21.741 0.51 75.94 ? N7A NAP 403 A 1 
HETATM 16 C C5A NAP . A . D 3 -18.815 45.133 -23.081 0.51 76.25 ? C5A NAP 403 A 1 
HETATM 17 C C6A NAP . A . D 3 -19.526 44.861 -24.247 0.51 77.04 ? C6A NAP 403 A 1 
HETATM 18 N N6A NAP . A . D 3 -20.378 43.712 -24.299 0.51 76.74 ? N6A NAP 403 A 1 
HETATM 19 N N1A NAP . A . D 3 -19.435 45.631 -25.301 0.51 77.17 ? N1A NAP 403 A 1 
HETATM 20 C C2A NAP . A . D 3 -18.604 46.709 -25.186 0.51 76.7 ? C2A NAP 403 A 1 
HETATM 21 N N3A NAP . A . D 3 -17.85 47.116 -24.141 0.51 76.12 ? N3A NAP 403 A 1 
HETATM 22 C C4A NAP . A . D 3 -17.969 46.309 -23.088 0.51 76.03 ? C4A NAP 403 A 1 
HETATM 23 O O3 NAP . A . D 3 -11.342 45.567 -16.813 0.51 74.24 ? O3 NAP 403 A 1 
HETATM 24 P PN NAP . A . D 3 -10.07 45.763 -17.835 0.51 72.29 ? PN NAP 403 A 1 
HETATM 25 O O1N NAP . A . D 3 -8.797 45.964 -17.082 0.51 71.82 ? O1N NAP 403 A 1 
HETATM 26 O O2N NAP . A . D 3 -10.161 47.034 -18.61 0.51 73.71 -1 O2N NAP 403 A 1 
HETATM 27 O O5D NAP . A . D 3 -9.947 44.489 -18.8 0.51 71.16 ? O5D NAP 403 A 1 
HETATM 28 C C5D NAP . A . D 3 -8.75 44.327 -19.571 0.51 70.3 ? C5D NAP 403 A 1 
HETATM 29 C C4D NAP . A . D 3 -8.104 43.066 -19.124 0.51 70.04 ? C4D NAP 403 A 1 
HETATM 30 O O4D NAP . A . D 3 -7.323 43.301 -17.915 0.51 70.18 ? O4D NAP 403 A 1 
HETATM 31 C C3D NAP . A . D 3 -7.15 42.568 -20.129 0.51 68.42 ? C3D NAP 403 A 1 
HETATM 32 O O3D NAP . A . D 3 -7.736 41.49 -20.819 0.51 67.06 ? O3D NAP 403 A 1 
HETATM 33 C C2D NAP . A . D 3 -5.921 42.134 -19.364 0.51 68.1 ? C2D NAP 403 A 1 
HETATM 34 O O2D NAP . A . D 3 -5.695 40.759 -19.546 0.51 67.02 ? O2D NAP 403 A 1 
HETATM 35 C C1D NAP . A . D 3 -6.192 42.386 -17.927 0.51 69 ? C1D NAP 403 A 1 
HETATM 36 N N1N NAP . A . D 3 -5.117 42.936 -17.238 0.51 69.47 ? N1N NAP 403 A 1 
HETATM 37 C C2N NAP . A . D 3 -3.828 42.629 -17.549 0.51 67.95 ? C2N NAP 403 A 1 
HETATM 38 C C3N NAP . A . D 3 -2.865 42.817 -16.648 0.51 67.59 ? C3N NAP 403 A 1 
HETATM 39 C C7N NAP . A . D 3 -1.741 41.807 -16.497 0.51 64.69 ? C7N NAP 403 A 1 
HETATM 40 O O7N NAP . A . D 3 -1.152 41.719 -15.454 0.51 64.15 ? O7N NAP 403 A 1 
HETATM 41 N N7N NAP . A . D 3 -1.361 40.945 -17.604 0.51 62.79 ? N7N NAP 403 A 1 
HETATM 42 C C4N NAP . A . D 3 -2.792 44.081 -15.905 0.51 67.45 ? C4N NAP 403 A 1 
HETATM 43 C C5N NAP . A . D 3 -4.337 44.412 -15.519 0.51 69.2 ? C5N NAP 403 A 1 
HETATM 44 C C6N NAP . A . D 3 -5.377 43.792 -16.207 0.51 69.73 ? C6N NAP 403 A 1 
HETATM 45 P P2B NAP . A . D 3 -18.779 49.272 -19.109 0.51 77.38 ? P2B NAP 403 A 1 
HETATM 46 O O1X NAP . A . D 3 -18.225 50.158 -18.046 0.51 75.04 ? O1X NAP 403 A 1 
HETATM 47 O O2X NAP . A . D 3 -19.178 48.047 -18.397 0.51 76.95 -1 O2X NAP 403 A 1 
HETATM 48 O O3X NAP . A . D 3 -20.052 49.898 -19.489 0.51 77.82 -1 O3X NAP 403 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           48 
#