data_3PHI # _model_server_result.job_id 4arZp_h9UuldYktpZpV14w _model_server_result.datetime_utc '2025-02-27 23:14:12' _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 3phi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1411}' # _entry.id 3PHI # _exptl.entry_id 3PHI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 3 _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 97.61 _cell.angle_gamma 90 _cell.entry_id 3PHI _cell.length_a 44.99 _cell.length_b 48.391 _cell.length_c 123.002 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PHI _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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,G 1 1 B,E,F,H 2 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 ? 3 D N N ? 3 F 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 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 3PHI _atom_sites.fract_transf_matrix[1][1] 0.022227 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00297 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020665 _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] 0.008202 _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 SKM A 1 500 500 SKM SKM . D 3 NDP A 1 1411 1411 NDP NDP . E 2 SKM B 1 500 500 SKM SKM . F 3 NDP B 1 1411 1411 NDP NDP . G 4 HOH A 1 270 1 HOH HOH . G 4 HOH A 2 271 2 HOH HOH . G 4 HOH A 3 272 3 HOH HOH . G 4 HOH A 4 273 5 HOH HOH . G 4 HOH A 5 274 6 HOH HOH . G 4 HOH A 6 275 7 HOH HOH . G 4 HOH A 7 276 10 HOH HOH . G 4 HOH A 8 277 12 HOH HOH . G 4 HOH A 9 278 13 HOH HOH . G 4 HOH A 10 279 16 HOH HOH . G 4 HOH A 11 280 22 HOH HOH . G 4 HOH A 12 281 23 HOH HOH . G 4 HOH A 13 282 25 HOH HOH . G 4 HOH A 14 283 26 HOH HOH . G 4 HOH A 15 284 27 HOH HOH . G 4 HOH A 16 285 29 HOH HOH . G 4 HOH A 17 286 30 HOH HOH . G 4 HOH A 18 287 32 HOH HOH . G 4 HOH A 19 288 34 HOH HOH . G 4 HOH A 20 289 35 HOH HOH . G 4 HOH A 21 290 39 HOH HOH . G 4 HOH A 22 291 41 HOH HOH . G 4 HOH A 23 292 42 HOH HOH . G 4 HOH A 24 293 46 HOH HOH . G 4 HOH A 25 294 47 HOH HOH . G 4 HOH A 26 295 51 HOH HOH . G 4 HOH A 27 296 59 HOH HOH . G 4 HOH A 28 297 61 HOH HOH . G 4 HOH A 29 298 62 HOH HOH . G 4 HOH A 30 299 63 HOH HOH . G 4 HOH A 31 300 64 HOH HOH . G 4 HOH A 32 301 65 HOH HOH . G 4 HOH A 33 302 66 HOH HOH . G 4 HOH A 34 303 67 HOH HOH . G 4 HOH A 35 304 69 HOH HOH . G 4 HOH A 36 305 71 HOH HOH . G 4 HOH A 37 306 72 HOH HOH . G 4 HOH A 38 307 73 HOH HOH . G 4 HOH A 39 308 74 HOH HOH . G 4 HOH A 40 309 75 HOH HOH . G 4 HOH A 41 310 78 HOH HOH . G 4 HOH A 42 311 79 HOH HOH . G 4 HOH A 43 312 83 HOH HOH . G 4 HOH A 44 313 84 HOH HOH . G 4 HOH A 45 314 85 HOH HOH . G 4 HOH A 46 315 86 HOH HOH . G 4 HOH A 47 316 87 HOH HOH . G 4 HOH A 48 317 88 HOH HOH . G 4 HOH A 49 318 89 HOH HOH . G 4 HOH A 50 319 91 HOH HOH . G 4 HOH A 51 320 92 HOH HOH . G 4 HOH A 52 321 96 HOH HOH . G 4 HOH A 53 322 97 HOH HOH . G 4 HOH A 54 323 98 HOH HOH . G 4 HOH A 55 324 100 HOH HOH . G 4 HOH A 56 325 101 HOH HOH . G 4 HOH A 57 326 103 HOH HOH . G 4 HOH A 58 327 105 HOH HOH . G 4 HOH A 59 328 106 HOH HOH . G 4 HOH A 60 329 107 HOH HOH . G 4 HOH A 61 330 110 HOH HOH . G 4 HOH A 62 331 111 HOH HOH . G 4 HOH A 63 332 112 HOH HOH . G 4 HOH A 64 333 113 HOH HOH . G 4 HOH A 65 334 114 HOH HOH . G 4 HOH A 66 335 118 HOH HOH . G 4 HOH A 67 336 119 HOH HOH . G 4 HOH A 68 337 121 HOH HOH . G 4 HOH A 69 338 123 HOH HOH . G 4 HOH A 70 339 125 HOH HOH . G 4 HOH A 71 340 129 HOH HOH . G 4 HOH A 72 341 130 HOH HOH . G 4 HOH A 73 342 132 HOH HOH . G 4 HOH A 74 343 136 HOH HOH . G 4 HOH A 75 344 137 HOH HOH . G 4 HOH A 76 345 140 HOH HOH . G 4 HOH A 77 346 141 HOH HOH . G 4 HOH A 78 347 143 HOH HOH . G 4 HOH A 79 348 144 HOH HOH . G 4 HOH A 80 349 145 HOH HOH . G 4 HOH A 81 350 146 HOH HOH . G 4 HOH A 82 351 147 HOH HOH . G 4 HOH A 83 352 148 HOH HOH . G 4 HOH A 84 353 149 HOH HOH . G 4 HOH A 85 354 152 HOH HOH . G 4 HOH A 86 355 153 HOH HOH . G 4 HOH A 87 356 155 HOH HOH . G 4 HOH A 88 357 157 HOH HOH . G 4 HOH A 89 358 158 HOH HOH . G 4 HOH A 90 359 159 HOH HOH . G 4 HOH A 91 360 160 HOH HOH . G 4 HOH A 92 361 164 HOH HOH . H 4 HOH B 1 270 4 HOH HOH . H 4 HOH B 2 271 8 HOH HOH . H 4 HOH B 3 272 9 HOH HOH . H 4 HOH B 4 273 11 HOH HOH . H 4 HOH B 5 274 14 HOH HOH . H 4 HOH B 6 275 15 HOH HOH . H 4 HOH B 7 276 17 HOH HOH . H 4 HOH B 8 277 18 HOH HOH . H 4 HOH B 9 278 19 HOH HOH . H 4 HOH B 10 279 20 HOH HOH . H 4 HOH B 11 280 21 HOH HOH . H 4 HOH B 12 281 24 HOH HOH . H 4 HOH B 13 282 28 HOH HOH . H 4 HOH B 14 283 31 HOH HOH . H 4 HOH B 15 284 33 HOH HOH . H 4 HOH B 16 285 36 HOH HOH . H 4 HOH B 17 286 37 HOH HOH . H 4 HOH B 18 287 38 HOH HOH . H 4 HOH B 19 288 40 HOH HOH . H 4 HOH B 20 289 43 HOH HOH . H 4 HOH B 21 290 44 HOH HOH . H 4 HOH B 22 291 45 HOH HOH . H 4 HOH B 23 292 48 HOH HOH . H 4 HOH B 24 293 49 HOH HOH . H 4 HOH B 25 294 50 HOH HOH . H 4 HOH B 26 295 52 HOH HOH . H 4 HOH B 27 296 53 HOH HOH . H 4 HOH B 28 297 54 HOH HOH . H 4 HOH B 29 298 55 HOH HOH . H 4 HOH B 30 299 56 HOH HOH . H 4 HOH B 31 300 57 HOH HOH . H 4 HOH B 32 301 58 HOH HOH . H 4 HOH B 33 302 60 HOH HOH . H 4 HOH B 34 303 68 HOH HOH . H 4 HOH B 35 304 70 HOH HOH . H 4 HOH B 36 305 76 HOH HOH . H 4 HOH B 37 306 77 HOH HOH . H 4 HOH B 38 307 80 HOH HOH . H 4 HOH B 39 308 81 HOH HOH . H 4 HOH B 40 309 82 HOH HOH . H 4 HOH B 41 310 90 HOH HOH . H 4 HOH B 42 311 93 HOH HOH . H 4 HOH B 43 312 94 HOH HOH . H 4 HOH B 44 313 95 HOH HOH . H 4 HOH B 45 314 99 HOH HOH . H 4 HOH B 46 315 102 HOH HOH . H 4 HOH B 47 316 104 HOH HOH . H 4 HOH B 48 317 108 HOH HOH . H 4 HOH B 49 318 109 HOH HOH . H 4 HOH B 50 319 115 HOH HOH . H 4 HOH B 51 320 116 HOH HOH . H 4 HOH B 52 321 117 HOH HOH . H 4 HOH B 53 322 120 HOH HOH . H 4 HOH B 54 323 122 HOH HOH . H 4 HOH B 55 324 124 HOH HOH . H 4 HOH B 56 325 126 HOH HOH . H 4 HOH B 57 326 127 HOH HOH . H 4 HOH B 58 327 128 HOH HOH . H 4 HOH B 59 328 131 HOH HOH . H 4 HOH B 60 329 133 HOH HOH . H 4 HOH B 61 330 134 HOH HOH . H 4 HOH B 62 331 135 HOH HOH . H 4 HOH B 63 332 138 HOH HOH . H 4 HOH B 64 333 139 HOH HOH . H 4 HOH B 65 334 142 HOH HOH . H 4 HOH B 66 335 150 HOH HOH . H 4 HOH B 67 336 151 HOH HOH . H 4 HOH B 68 337 154 HOH HOH . H 4 HOH B 69 338 156 HOH HOH . H 4 HOH B 70 339 161 HOH HOH . H 4 HOH B 71 340 162 HOH HOH . H 4 HOH B 72 341 163 HOH HOH . H 4 HOH B 73 342 165 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 NDP . . . D 3 17.525 -9.461 44.403 1 35.62 ? PA NDP 1411 A 1 HETATM 2 O O1A NDP . . . D 3 18.093 -10.04 43.133 1 32.59 ? O1A NDP 1411 A 1 HETATM 3 O O2A NDP . . . D 3 18.505 -8.941 45.412 1 30.61 ? O2A NDP 1411 A 1 HETATM 4 O O5B NDP . . . D 3 16.562 -10.566 45.09 1 31.76 ? O5B NDP 1411 A 1 HETATM 5 C C5B NDP . . . D 3 15.433 -11.097 44.396 1 33.81 ? C5B NDP 1411 A 1 HETATM 6 C C4B NDP . . . D 3 14.796 -12.197 45.232 1 29.9 ? C4B NDP 1411 A 1 HETATM 7 O O4B NDP . . . D 3 13.704 -12.751 44.519 1 31.61 ? O4B NDP 1411 A 1 HETATM 8 C C3B NDP . . . D 3 15.753 -13.344 45.506 1 36.01 ? C3B NDP 1411 A 1 HETATM 9 O O3B NDP . . . D 3 15.423 -13.691 46.846 1 34.07 ? O3B NDP 1411 A 1 HETATM 10 C C2B NDP . . . D 3 15.311 -14.439 44.547 1 29.52 ? C2B NDP 1411 A 1 HETATM 11 O O2B NDP . . . D 3 15.562 -15.74 45.066 1 36.63 ? O2B NDP 1411 A 1 HETATM 12 C C1B NDP . . . D 3 13.827 -14.175 44.531 1 34.37 ? C1B NDP 1411 A 1 HETATM 13 N N9A NDP . . . D 3 13.164 -14.771 43.363 1 40.31 ? N9A NDP 1411 A 1 HETATM 14 C C8A NDP . . . D 3 13.444 -14.525 42.071 1 41.37 ? C8A NDP 1411 A 1 HETATM 15 N N7A NDP . . . D 3 12.621 -15.273 41.306 1 45.84 ? N7A NDP 1411 A 1 HETATM 16 C C5A NDP . . . D 3 11.829 -15.976 42.142 1 46.07 ? C5A NDP 1411 A 1 HETATM 17 C C6A NDP . . . D 3 10.827 -16.905 41.938 1 42.51 ? C6A NDP 1411 A 1 HETATM 18 N N6A NDP . . . D 3 10.429 -17.21 40.676 1 42.95 ? N6A NDP 1411 A 1 HETATM 19 N N1A NDP . . . D 3 10.203 -17.423 43.007 1 41.29 ? N1A NDP 1411 A 1 HETATM 20 C C2A NDP . . . D 3 10.548 -17.085 44.26 1 43.42 ? C2A NDP 1411 A 1 HETATM 21 N N3A NDP . . . D 3 11.549 -16.23 44.485 1 42.39 ? N3A NDP 1411 A 1 HETATM 22 C C4A NDP . . . D 3 12.164 -15.636 43.438 1 37.78 ? C4A NDP 1411 A 1 HETATM 23 O O3 NDP . . . D 3 16.495 -8.295 43.948 1 34.19 ? O3 NDP 1411 A 1 HETATM 24 P PN NDP . . . D 3 16.02 -7.027 44.839 1 32.4 ? PN NDP 1411 A 1 HETATM 25 O O1N NDP . . . D 3 17.051 -5.919 44.671 1 30.89 ? O1N NDP 1411 A 1 HETATM 26 O O2N NDP . . . D 3 15.643 -7.537 46.215 1 26.01 ? O2N NDP 1411 A 1 HETATM 27 O O5D NDP . . . D 3 14.66 -6.592 44.095 1 35.2 ? O5D NDP 1411 A 1 HETATM 28 C C5D NDP . . . D 3 13.508 -7.431 44.21 1 38.75 ? C5D NDP 1411 A 1 HETATM 29 C C4D NDP . . . D 3 12.316 -6.788 43.529 1 53.77 ? C4D NDP 1411 A 1 HETATM 30 O O4D NDP . . . D 3 11.798 -5.775 44.384 1 58.14 ? O4D NDP 1411 A 1 HETATM 31 C C3D NDP . . . D 3 12.671 -6.097 42.226 1 59.19 ? C3D NDP 1411 A 1 HETATM 32 O O3D NDP . . . D 3 11.549 -6.271 41.357 1 64.59 ? O3D NDP 1411 A 1 HETATM 33 C C2D NDP . . . D 3 12.767 -4.63 42.577 1 64.3 ? C2D NDP 1411 A 1 HETATM 34 O O2D NDP . . . D 3 12.439 -3.814 41.452 1 63.23 ? O2D NDP 1411 A 1 HETATM 35 C C1D NDP . . . D 3 11.68 -4.569 43.632 1 66.74 ? C1D NDP 1411 A 1 HETATM 36 N N1N NDP . . . D 3 11.729 -3.455 44.588 1 73.38 ? N1N NDP 1411 A 1 HETATM 37 C C2N NDP . . . D 3 10.713 -2.529 44.279 1 76.12 ? C2N NDP 1411 A 1 HETATM 38 C C3N NDP . . . D 3 10.821 -1.175 44.56 1 74.99 ? C3N NDP 1411 A 1 HETATM 39 C C7N NDP . . . D 3 9.642 -0.284 44.301 1 72.07 ? C7N NDP 1411 A 1 HETATM 40 O O7N NDP . . . D 3 9.658 0.488 43.221 1 75.1 ? O7N NDP 1411 A 1 HETATM 41 N N7N NDP . . . D 3 8.663 -0.35 45.015 1 72.54 ? N7N NDP 1411 A 1 HETATM 42 C C4N NDP . . . D 3 12.041 -0.661 44.962 1 73.96 ? C4N NDP 1411 A 1 HETATM 43 C C5N NDP . . . D 3 13.11 -1.537 45.137 1 77.39 ? C5N NDP 1411 A 1 HETATM 44 C C6N NDP . . . D 3 12.992 -2.889 44.821 1 74.71 ? C6N NDP 1411 A 1 HETATM 45 P P2B NDP . . . D 3 16.795 -16.654 44.525 1 41.78 ? P2B NDP 1411 A 1 HETATM 46 O O1X NDP . . . D 3 17.995 -16.123 45.269 1 43.31 ? O1X NDP 1411 A 1 HETATM 47 O O2X NDP . . . D 3 16.275 -18.027 44.895 1 49.29 ? O2X NDP 1411 A 1 HETATM 48 O O3X NDP . . . D 3 16.938 -16.424 43.037 1 42.82 ? O3X NDP 1411 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 1186 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 48 #