data_1Y5R # _model_server_result.job_id ZT1cWM8Uv7yXZkpchaVckA _model_server_result.datetime_utc '2024-10-14 00:27:41' _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 1y5r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1}' # _entry.id 1Y5R # _exptl.entry_id 1Y5R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 2 _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 1Y5R _cell.length_a 96.051 _cell.length_b 96.051 _cell.length_c 218.522 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y5R _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 2 2' # 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 tetrameric 4 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,C,D,E,F 1 1 A,B,C,D,E,F 2 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' 8_665 -y+1,-x+1,-z+1/4 0 -1 0 -1 0 0 0 0 -1 96.051 96.051 54.6305 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 NDP doub 293 n n PA O2A NDP sing 294 n n PA O5B NDP sing 295 n n PA O3 NDP sing 296 n n O2A HOA2 NDP sing 297 n n O5B C5B NDP sing 298 n n C5B C4B NDP sing 299 n n C5B H51A NDP sing 300 n n C5B H52A NDP sing 301 n n C4B O4B NDP sing 302 n n C4B C3B NDP sing 303 n n C4B H4B NDP sing 304 n n O4B C1B NDP sing 305 n n C3B O3B NDP sing 306 n n C3B C2B NDP sing 307 n n C3B H3B NDP sing 308 n n O3B HO3A NDP sing 309 n n C2B O2B NDP sing 310 n n C2B C1B NDP sing 311 n n C2B H2B NDP sing 312 n n O2B P2B NDP sing 313 n n C1B N9A NDP sing 314 n n C1B H1B NDP sing 315 n n N9A C8A NDP sing 316 n y N9A C4A NDP sing 317 n y C8A N7A NDP doub 318 n y C8A H8A NDP sing 319 n n N7A C5A NDP sing 320 n y C5A C6A NDP sing 321 n y C5A C4A NDP doub 322 n y C6A N6A NDP sing 323 n n C6A N1A NDP doub 324 n y N6A H61A NDP sing 325 n n N6A H62A NDP sing 326 n n N1A C2A NDP sing 327 n y C2A N3A NDP doub 328 n y C2A H2A NDP sing 329 n n N3A C4A NDP sing 330 n y O3 PN NDP sing 331 n n PN O1N NDP doub 332 n n PN O2N NDP sing 333 n n PN O5D NDP sing 334 n n O2N H21N NDP sing 335 n n O5D C5D NDP sing 336 n n C5D C4D NDP sing 337 n n C5D H51N NDP sing 338 n n C5D H52N NDP sing 339 n n C4D O4D NDP sing 340 n n C4D C3D NDP sing 341 n n C4D H4D NDP sing 342 n n O4D C1D NDP sing 343 n n C3D O3D NDP sing 344 n n C3D C2D NDP sing 345 n n C3D H3D NDP sing 346 n n O3D HO3N NDP sing 347 n n C2D O2D NDP sing 348 n n C2D C1D NDP sing 349 n n C2D H2D NDP sing 350 n n O2D HO2N NDP sing 351 n n C1D N1N NDP sing 352 n n C1D H1D NDP sing 353 n n N1N C2N NDP sing 354 n n N1N C6N NDP sing 355 n n C2N C3N NDP doub 356 n n C2N H2N NDP sing 357 n n C3N C7N NDP sing 358 n n C3N C4N NDP sing 359 n n C7N O7N NDP doub 360 n n C7N N7N NDP sing 361 n n N7N H71N NDP sing 362 n n N7N H72N NDP sing 363 n n C4N C5N NDP sing 364 n n C4N H41N NDP sing 365 n n C4N H42N NDP sing 366 n n C5N C6N NDP doub 367 n n C5N H5N NDP sing 368 n n C6N H6N NDP sing 369 n n P2B O1X NDP doub 370 n n P2B O2X NDP sing 371 n n P2B O3X NDP sing 372 n n O2X HOP2 NDP sing 373 n n O3X HOP3 NDP sing 374 n n # _atom_sites.entry_id 1Y5R _atom_sites.fract_transf_matrix[1][1] 0.010411 _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] 0.010411 _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] 0.004576 _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 C 2 NDP A 1 1 1 NDP NDP . D 3 C0R A 1 11 11 C0R C0R . E 2 NDP B 1 2 2 NDP NDP . F 3 C0R B 1 12 12 C0R C0R . # 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 NDP . . . C 2 85.239 49.078 41.926 1 29.59 ? PA NDP 1 A 1 HETATM 2 O O1A NDP . . . C 2 85.596 48.112 43.07 1 25.96 ? O1A NDP 1 A 1 HETATM 3 O O2A NDP . . . C 2 85.009 50.51 42.403 1 28.07 ? O2A NDP 1 A 1 HETATM 4 O O5B NDP . . . C 2 86.357 49.043 40.823 1 28.78 ? O5B NDP 1 A 1 HETATM 5 C C5B NDP . . . C 2 86.433 50.121 39.883 1 27.91 ? C5B NDP 1 A 1 HETATM 6 C C4B NDP . . . C 2 87.697 49.972 39.022 1 27.84 ? C4B NDP 1 A 1 HETATM 7 O O4B NDP . . . C 2 87.761 51.058 38.117 1 26.6 ? O4B NDP 1 A 1 HETATM 8 C C3B NDP . . . C 2 88.997 50.027 39.894 1 28.23 ? C3B NDP 1 A 1 HETATM 9 O O3B NDP . . . C 2 90.125 49.126 39.712 1 26.6 ? O3B NDP 1 A 1 HETATM 10 C C2B NDP . . . C 2 89.394 51.471 39.664 1 28.48 ? C2B NDP 1 A 1 HETATM 11 O O2B NDP . . . C 2 90.781 51.647 39.878 1 31.96 ? O2B NDP 1 A 1 HETATM 12 C C1B NDP . . . C 2 88.953 51.773 38.216 1 26.79 ? C1B NDP 1 A 1 HETATM 13 N N9A NDP . . . C 2 88.687 53.199 38 1 25.35 ? N9A NDP 1 A 1 HETATM 14 C C8A NDP . . . C 2 88.068 54.088 38.818 1 26.06 ? C8A NDP 1 A 1 HETATM 15 N N7A NDP . . . C 2 88.035 55.352 38.391 1 24.7 ? N7A NDP 1 A 1 HETATM 16 C C5A NDP . . . C 2 88.691 55.302 37.16 1 24.85 ? C5A NDP 1 A 1 HETATM 17 C C6A NDP . . . C 2 89.038 56.238 36.152 1 24.1 ? C6A NDP 1 A 1 HETATM 18 N N6A NDP . . . C 2 88.719 57.548 36.314 1 24.38 ? N6A NDP 1 A 1 HETATM 19 N N1A NDP . . . C 2 89.735 55.889 35.006 1 22.28 ? N1A NDP 1 A 1 HETATM 20 C C2A NDP . . . C 2 90.111 54.556 34.853 1 25.15 ? C2A NDP 1 A 1 HETATM 21 N N3A NDP . . . C 2 89.813 53.568 35.788 1 25.29 ? N3A NDP 1 A 1 HETATM 22 C C4A NDP . . . C 2 89.105 53.937 36.924 1 25.08 ? C4A NDP 1 A 1 HETATM 23 O O3 NDP . . . C 2 83.931 48.607 41.156 1 26.92 ? O3 NDP 1 A 1 HETATM 24 P PN NDP . . . C 2 83.325 47.194 40.976 1 25.68 ? PN NDP 1 A 1 HETATM 25 O O1N NDP . . . C 2 82.437 46.862 42.137 1 22.83 ? O1N NDP 1 A 1 HETATM 26 O O2N NDP . . . C 2 84.45 46.191 40.846 1 26.63 ? O2N NDP 1 A 1 HETATM 27 O O5D NDP . . . C 2 82.52 47.346 39.662 1 24.63 ? O5D NDP 1 A 1 HETATM 28 C C5D NDP . . . C 2 83.008 46.757 38.469 1 25.23 ? C5D NDP 1 A 1 HETATM 29 C C4D NDP . . . C 2 81.964 46.807 37.352 1 25.47 ? C4D NDP 1 A 1 HETATM 30 O O4D NDP . . . C 2 80.839 46.137 37.845 1 26.79 ? O4D NDP 1 A 1 HETATM 31 C C3D NDP . . . C 2 81.49 48.206 36.922 1 26 ? C3D NDP 1 A 1 HETATM 32 O O3D NDP . . . C 2 81.286 48.166 35.474 1 25.95 ? O3D NDP 1 A 1 HETATM 33 C C2D NDP . . . C 2 80.165 48.342 37.697 1 25.64 ? C2D NDP 1 A 1 HETATM 34 O O2D NDP . . . C 2 79.236 49.333 37.222 1 26.61 ? O2D NDP 1 A 1 HETATM 35 C C1D NDP . . . C 2 79.659 46.902 37.692 1 24.9 ? C1D NDP 1 A 1 HETATM 36 N N1N NDP . . . C 2 78.732 46.504 38.756 1 23.23 ? N1N NDP 1 A 1 HETATM 37 C C2N NDP . . . C 2 79.122 46.341 40.057 1 22.03 ? C2N NDP 1 A 1 HETATM 38 C C3N NDP . . . C 2 78.25 45.752 41 1 21.42 ? C3N NDP 1 A 1 HETATM 39 C C7N NDP . . . C 2 78.536 45.609 42.387 1 20.47 ? C7N NDP 1 A 1 HETATM 40 O O7N NDP . . . C 2 77.638 45.52 43.184 1 20.99 ? O7N NDP 1 A 1 HETATM 41 N N7N NDP . . . C 2 79.811 45.571 42.744 1 22.15 ? N7N NDP 1 A 1 HETATM 42 C C4N NDP . . . C 2 76.977 45.346 40.599 1 21.6 ? C4N NDP 1 A 1 HETATM 43 C C5N NDP . . . C 2 76.55 45.581 39.284 1 22.49 ? C5N NDP 1 A 1 HETATM 44 C C6N NDP . . . C 2 77.461 46.164 38.397 1 22.75 ? C6N NDP 1 A 1 HETATM 45 P P2B NDP . . . C 2 91.396 53.082 40.115 1 35.75 ? P2B NDP 1 A 1 HETATM 46 O O1X NDP . . . C 2 91.654 53.659 38.69 1 34.96 ? O1X NDP 1 A 1 HETATM 47 O O2X NDP . . . C 2 92.698 52.731 40.893 1 35.26 ? O2X NDP 1 A 1 HETATM 48 O O3X NDP . . . C 2 90.521 54.079 40.919 1 33.73 ? O3X NDP 1 A 1 HETATM 49 H H51A NDP . . . C 2 86.454 51.045 40.44 0 27.91 ? H51A NDP 1 A 1 HETATM 50 H H52A NDP . . . C 2 85.545 50.11 39.273 0 27.91 ? H52A NDP 1 A 1 HETATM 51 H H4B NDP . . . C 2 87.536 49.06 38.464 0 27.45 ? H4B NDP 1 A 1 HETATM 52 H H3B NDP . . . C 2 88.694 49.952 40.947 0 27.67 ? H3B NDP 1 A 1 HETATM 53 H HO3A NDP . . . C 2 90.386 48.867 38.821 0 27.05 ? HO3A NDP 1 A 1 HETATM 54 H H2B NDP . . . C 2 88.865 52.086 40.383 0 28.75 ? H2B NDP 1 A 1 HETATM 55 H H1B NDP . . . C 2 89.646 51.397 37.477 0 26.74 ? H1B NDP 1 A 1 HETATM 56 H H8A NDP . . . C 2 87.647 53.797 39.767 0 25.51 ? H8A NDP 1 A 1 HETATM 57 H H61A NDP . . . C 2 89.081 58.247 35.701 0 24.17 ? H61A NDP 1 A 1 HETATM 58 H H62A NDP . . . C 2 88.109 57.838 37.055 0 24.17 ? H62A NDP 1 A 1 HETATM 59 H H2A NDP . . . C 2 90.668 54.278 33.966 0 24.46 ? H2A NDP 1 A 1 HETATM 60 H H51N NDP . . . C 2 83.295 45.733 38.678 0 25.02 ? H51N NDP 1 A 1 HETATM 61 H H52N NDP . . . C 2 83.9 47.29 38.165 0 25.02 ? H52N NDP 1 A 1 HETATM 62 H H4D NDP . . . C 2 82.316 46.276 36.489 0 25.71 ? H4D NDP 1 A 1 HETATM 63 H H3D NDP . . . C 2 82.267 48.929 37.266 0 25.68 ? H3D NDP 1 A 1 HETATM 64 H HO3N NDP . . . C 2 80.592 48.712 35.067 0 25.89 ? HO3N NDP 1 A 1 HETATM 65 H H2D NDP . . . C 2 80.445 48.567 38.735 0 25.68 ? H2D NDP 1 A 1 HETATM 66 H HO2N NDP . . . C 2 79.185 49.48 36.267 0 26.06 ? HO2N NDP 1 A 1 HETATM 67 H H1D NDP . . . C 2 79.213 46.574 36.763 0 25.02 ? H1D NDP 1 A 1 HETATM 68 H H2N NDP . . . C 2 80.117 46.649 40.366 0 22.21 ? H2N NDP 1 A 1 HETATM 69 H H71N NDP . . . C 2 80.044 45.496 43.712 0 21.53 ? H71N NDP 1 A 1 HETATM 70 H H72N NDP . . . C 2 80.565 45.594 42.09 0 21.53 ? H72N NDP 1 A 1 HETATM 71 H H42N NDP . . . C 2 76.314 44.901 41.321 0 21.83 ? H42N NDP 1 A 1 HETATM 72 H H5N NDP . . . C 2 75.543 45.329 38.991 0 22.33 ? H5N NDP 1 A 1 HETATM 73 H H6N NDP . . . C 2 77.13 46.349 37.391 0 22.85 ? H6N NDP 1 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 73 #