data_7D4L # _model_server_result.job_id RT3ASAdNjL6lXEF2vxxOTQ _model_server_result.datetime_utc '2025-09-18 10:05:03' _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 7d4l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 7D4L # _exptl.entry_id 7D4L _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 7D4L _cell.length_a 34.293 _cell.length_b 45.625 _cell.length_c 98.974 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7D4L _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 O ASP 116 A ASP 116 1_555 D MN MN . A MN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc2 A ND1 HIS 149 A HIS 149 1_555 D MN MN . A MN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc3 A O ARG 159 A ARG 159 1_555 D MN MN . A MN 203 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc4 D MN MN . A MN 203 1_555 E O HOH . A HOH 317 3_745 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc5 D MN MN . A MN 203 1_555 E O HOH . A HOH 355 3_745 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc6 D MN MN . A MN 203 1_555 E O HOH . A HOH 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? # _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 290 n n PA O2A NAP sing 291 n n PA O5B NAP sing 292 n n PA O3 NAP sing 293 n n O2A HOA2 NAP sing 294 n n O5B C5B NAP sing 295 n n C5B C4B NAP sing 296 n n C5B H51A NAP sing 297 n n C5B H52A NAP sing 298 n n C4B O4B NAP sing 299 n n C4B C3B NAP sing 300 n n C4B H4B NAP sing 301 n n O4B C1B NAP sing 302 n n C3B O3B NAP sing 303 n n C3B C2B NAP sing 304 n n C3B H3B NAP sing 305 n n O3B HO3A NAP sing 306 n n C2B O2B NAP sing 307 n n C2B C1B NAP sing 308 n n C2B H2B NAP sing 309 n n O2B P2B NAP sing 310 n n C1B N9A NAP sing 311 n n C1B H1B NAP sing 312 n n N9A C8A NAP sing 313 n y N9A C4A NAP sing 314 n y C8A N7A NAP doub 315 n y C8A H8A NAP sing 316 n n N7A C5A NAP sing 317 n y C5A C6A NAP sing 318 n y C5A C4A NAP doub 319 n y C6A N6A NAP sing 320 n n C6A N1A NAP doub 321 n y N6A H61A NAP sing 322 n n N6A H62A NAP sing 323 n n N1A C2A NAP sing 324 n y C2A N3A NAP doub 325 n y C2A H2A NAP sing 326 n n N3A C4A NAP sing 327 n y O3 PN NAP sing 328 n n PN O1N NAP doub 329 n n PN O2N NAP sing 330 n n PN O5D NAP sing 331 n n O5D C5D NAP sing 332 n n C5D C4D NAP sing 333 n n C5D H51N NAP sing 334 n n C5D H52N NAP sing 335 n n C4D O4D NAP sing 336 n n C4D C3D NAP sing 337 n n C4D H4D NAP sing 338 n n O4D C1D NAP sing 339 n n C3D O3D NAP sing 340 n n C3D C2D NAP sing 341 n n C3D H3D NAP sing 342 n n O3D HO3N NAP sing 343 n n C2D O2D NAP sing 344 n n C2D C1D NAP sing 345 n n C2D H2D NAP sing 346 n n O2D HO2N NAP sing 347 n n C1D N1N NAP sing 348 n n C1D H1D NAP sing 349 n n N1N C2N NAP sing 350 n y N1N C6N NAP doub 351 n y C2N C3N NAP doub 352 n y C2N H2N NAP sing 353 n n C3N C7N NAP sing 354 n n C3N C4N NAP sing 355 n y C7N O7N NAP doub 356 n n C7N N7N NAP sing 357 n n N7N H71N NAP sing 358 n n N7N H72N NAP sing 359 n n C4N C5N NAP doub 360 n y C4N H4N NAP sing 361 n n C5N C6N NAP sing 362 n y C5N H5N NAP sing 363 n n C6N H6N NAP sing 364 n n P2B O1X NAP doub 365 n n P2B O2X NAP sing 366 n n P2B O3X NAP sing 367 n n O2X HOP2 NAP sing 368 n n O3X HOP3 NAP sing 369 n n # _atom_sites.entry_id 7D4L _atom_sites.fract_transf_matrix[1][1] 0.02916 _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] 0.021918 _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] 0.010104 _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 FOL A 1 201 161 FOL FOL . C 3 NAP A 1 202 164 NAP NAP . D 4 MN A 1 203 1 MN MN . E 5 HOH A 1 301 3 HOH HOH . E 5 HOH A 2 302 29 HOH HOH . E 5 HOH A 3 303 61 HOH HOH . E 5 HOH A 4 304 9 HOH HOH . E 5 HOH A 5 305 38 HOH HOH . E 5 HOH A 6 306 70 HOH HOH . E 5 HOH A 7 307 30 HOH HOH . E 5 HOH A 8 308 99 HOH HOH . E 5 HOH A 9 309 24 HOH HOH . E 5 HOH A 10 310 42 HOH HOH . E 5 HOH A 11 311 5 HOH HOH . E 5 HOH A 12 312 39 HOH HOH . E 5 HOH A 13 313 111 HOH HOH . E 5 HOH A 14 314 52 HOH HOH . E 5 HOH A 15 315 21 HOH HOH . E 5 HOH A 16 316 27 HOH HOH . E 5 HOH A 17 317 36 HOH HOH . E 5 HOH A 18 318 7 HOH HOH . E 5 HOH A 19 319 57 HOH HOH . E 5 HOH A 20 320 11 HOH HOH . E 5 HOH A 21 321 56 HOH HOH . E 5 HOH A 22 322 31 HOH HOH . E 5 HOH A 23 323 35 HOH HOH . E 5 HOH A 24 324 91 HOH HOH . E 5 HOH A 25 325 119 HOH HOH . E 5 HOH A 26 326 26 HOH HOH . E 5 HOH A 27 327 59 HOH HOH . E 5 HOH A 28 328 25 HOH HOH . E 5 HOH A 29 329 18 HOH HOH . E 5 HOH A 30 330 66 HOH HOH . E 5 HOH A 31 331 69 HOH HOH . E 5 HOH A 32 332 108 HOH HOH . E 5 HOH A 33 333 64 HOH HOH . E 5 HOH A 34 334 74 HOH HOH . E 5 HOH A 35 335 17 HOH HOH . E 5 HOH A 36 336 8 HOH HOH . E 5 HOH A 37 337 34 HOH HOH . E 5 HOH A 38 338 123 HOH HOH . E 5 HOH A 39 339 45 HOH HOH . E 5 HOH A 40 340 51 HOH HOH . E 5 HOH A 41 341 75 HOH HOH . E 5 HOH A 42 342 40 HOH HOH . E 5 HOH A 43 343 44 HOH HOH . E 5 HOH A 44 344 63 HOH HOH . E 5 HOH A 45 345 6 HOH HOH . E 5 HOH A 46 346 32 HOH HOH . E 5 HOH A 47 347 10 HOH HOH . E 5 HOH A 48 348 68 HOH HOH . E 5 HOH A 49 349 50 HOH HOH . E 5 HOH A 50 350 2 HOH HOH . E 5 HOH A 51 351 33 HOH HOH . E 5 HOH A 52 352 47 HOH HOH . E 5 HOH A 53 353 16 HOH HOH . E 5 HOH A 54 354 97 HOH HOH . E 5 HOH A 55 355 1 HOH HOH . E 5 HOH A 56 356 65 HOH HOH . E 5 HOH A 57 357 12 HOH HOH . E 5 HOH A 58 358 13 HOH HOH . E 5 HOH A 59 359 19 HOH HOH . E 5 HOH A 60 360 71 HOH HOH . E 5 HOH A 61 361 20 HOH HOH . E 5 HOH A 62 362 15 HOH HOH . E 5 HOH A 63 363 73 HOH HOH . E 5 HOH A 64 364 22 HOH HOH . E 5 HOH A 65 365 37 HOH HOH . E 5 HOH A 66 366 46 HOH HOH . E 5 HOH A 67 367 14 HOH HOH . E 5 HOH A 68 368 28 HOH HOH . E 5 HOH A 69 369 4 HOH HOH . E 5 HOH A 70 370 88 HOH HOH . E 5 HOH A 71 371 60 HOH HOH . E 5 HOH A 72 372 54 HOH HOH . E 5 HOH A 73 373 87 HOH HOH . E 5 HOH A 74 374 41 HOH HOH . E 5 HOH A 75 375 85 HOH HOH . E 5 HOH A 76 376 114 HOH HOH . E 5 HOH A 77 377 101 HOH HOH . E 5 HOH A 78 378 117 HOH HOH . E 5 HOH A 79 379 23 HOH HOH . E 5 HOH A 80 380 86 HOH HOH . E 5 HOH A 81 381 96 HOH HOH . E 5 HOH A 82 382 77 HOH HOH . E 5 HOH A 83 383 94 HOH HOH . E 5 HOH A 84 384 53 HOH HOH . E 5 HOH A 85 385 55 HOH HOH . E 5 HOH A 86 386 107 HOH HOH . E 5 HOH A 87 387 67 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 . . . C 3 29.765 54.066 15.648 1 13.88 ? PA NAP 202 A 1 HETATM 2 O O1A NAP . . . C 3 28.636 53.514 16.41 1 15.53 ? O1A NAP 202 A 1 HETATM 3 O O2A NAP . . . C 3 30.241 53.277 14.481 1 14.41 ? O2A NAP 202 A 1 HETATM 4 O O5B NAP . . . C 3 29.47 55.53 15.082 1 13.96 ? O5B NAP 202 A 1 HETATM 5 C C5B NAP . . . C 3 29.004 56.568 15.978 1 15.88 ? C5B NAP 202 A 1 HETATM 6 C C4B NAP . . . C 3 28.628 57.736 15.077 1 15.31 ? C4B NAP 202 A 1 HETATM 7 O O4B NAP . . . C 3 27.56 57.408 14.353 1 16.18 ? O4B NAP 202 A 1 HETATM 8 C C3B NAP . . . C 3 28.187 58.95 15.927 1 18.81 ? C3B NAP 202 A 1 HETATM 9 O O3B NAP . . . C 3 29.269 59.704 16.248 1 22.42 ? O3B NAP 202 A 1 HETATM 10 C C2B NAP . . . C 3 27.242 59.657 14.918 1 20.23 ? C2B NAP 202 A 1 HETATM 11 O O2B NAP . . . C 3 28.063 60.298 13.884 1 18.66 ? O2B NAP 202 A 1 HETATM 12 C C1B NAP . . . C 3 26.571 58.663 14.352 1 15.12 ? C1B NAP 202 A 1 HETATM 13 N N9A NAP . . . C 3 25.404 58.24 15.032 1 16.31 ? N9A NAP 202 A 1 HETATM 14 C C8A NAP . . . C 3 25.171 57.214 15.895 1 17.48 ? C8A NAP 202 A 1 HETATM 15 N N7A NAP . . . C 3 23.864 57.238 16.25 1 18.33 ? N7A NAP 202 A 1 HETATM 16 C C5A NAP . . . C 3 23.277 58.281 15.595 1 18.25 ? C5A NAP 202 A 1 HETATM 17 C C6A NAP . . . C 3 21.982 58.742 15.602 1 18.02 ? C6A NAP 202 A 1 HETATM 18 N N6A NAP . . . C 3 20.859 58.281 16.284 1 18.23 ? N6A NAP 202 A 1 HETATM 19 N N1A NAP . . . C 3 21.656 59.805 14.848 1 19.82 ? N1A NAP 202 A 1 HETATM 20 C C2A NAP . . . C 3 22.609 60.42 14.103 1 18.55 ? C2A NAP 202 A 1 HETATM 21 N N3A NAP . . . C 3 23.904 59.973 14.087 1 18.29 ? N3A NAP 202 A 1 HETATM 22 C C4A NAP . . . C 3 24.221 58.896 14.842 1 17.34 ? C4A NAP 202 A 1 HETATM 23 O O3 NAP . . . C 3 31.007 54.419 16.607 1 14 ? O3 NAP 202 A 1 HETATM 24 P PN NAP . . . C 3 31.732 53.584 17.831 1 14.75 ? PN NAP 202 A 1 HETATM 25 O O1N NAP . . . C 3 30.745 53.322 18.976 1 15.58 ? O1N NAP 202 A 1 HETATM 26 O O2N NAP . . . C 3 32.932 54.4 18.214 1 16.7 ? O2N NAP 202 A 1 HETATM 27 O O5D NAP . . . C 3 32.181 52.194 17.192 1 16.31 ? O5D NAP 202 A 1 HETATM 28 C C5D NAP . . . C 3 33.258 52.164 16.326 1 15.29 ? C5D NAP 202 A 1 HETATM 29 C C4D NAP . . . C 3 34.123 50.97 16.76 1 15.87 ? C4D NAP 202 A 1 HETATM 30 O O4D NAP . . . C 3 33.403 49.862 16.643 1 17.78 ? O4D NAP 202 A 1 HETATM 31 C C3D NAP . . . C 3 35.373 50.758 15.877 1 14.51 ? C3D NAP 202 A 1 HETATM 32 O O3D NAP . . . C 3 36.461 50.415 16.657 1 17.22 ? O3D NAP 202 A 1 HETATM 33 C C2D NAP . . . C 3 34.944 49.557 15.012 1 16.92 ? C2D NAP 202 A 1 HETATM 34 O O2D NAP . . . C 3 36.2 48.904 14.5 1 17.8 ? O2D NAP 202 A 1 HETATM 35 C C1D NAP . . . C 3 34.28 48.8 15.862 1 13.21 ? C1D NAP 202 A 1 HETATM 36 N N1N NAP . . . C 3 33.313 47.855 15.301 1 12.47 ? N1N NAP 202 A 1 HETATM 37 C C2N NAP . . . C 3 33.402 46.537 15.609 1 13.73 ? C2N NAP 202 A 1 HETATM 38 C C3N NAP . . . C 3 32.48 45.635 15.102 1 12.97 ? C3N NAP 202 A 1 HETATM 39 C C7N NAP . . . C 3 32.596 44.18 15.441 1 15.12 ? C7N NAP 202 A 1 HETATM 40 O O7N NAP . . . C 3 31.762 43.405 15.083 1 16.87 ? O7N NAP 202 A 1 HETATM 41 N N7N NAP . . . C 3 33.708 43.734 16.211 1 15.41 ? N7N NAP 202 A 1 HETATM 42 C C4N NAP . . . C 3 31.437 46.077 14.3 1 11.8 ? C4N NAP 202 A 1 HETATM 43 C C5N NAP . . . C 3 31.334 47.393 14.005 1 12.08 ? C5N NAP 202 A 1 HETATM 44 C C6N NAP . . . C 3 32.267 48.305 14.503 1 14.57 ? C6N NAP 202 A 1 HETATM 45 P P2B NAP . . . C 3 28.403 61.862 13.896 1 21.32 ? P2B NAP 202 A 1 HETATM 46 O O1X NAP . . . C 3 28.921 62.223 12.534 1 22.56 ? O1X NAP 202 A 1 HETATM 47 O O2X NAP . . . C 3 27.134 62.579 14.234 1 19.73 ? O2X NAP 202 A 1 HETATM 48 O O3X NAP . . . C 3 29.461 62.12 14.988 1 24.32 ? O3X NAP 202 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #