data_4I08 # _model_server_result.job_id 5F7HUrV5XIxBC188nRsAQg _model_server_result.datetime_utc '2024-12-11 16:06:23' _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 4i08 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":308}' # _entry.id 4I08 # _exptl.entry_id 4I08 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 4 _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 120 _cell.entry_id 4I08 _cell.length_a 63.941 _cell.length_b 63.941 _cell.length_c 190.374 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4I08 _symmetry.cell_setting ? _symmetry.Int_Tables_number 171 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,G,H,I,J,K,L,M,N,O,P,Q,R _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' 4_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -31.9705 -55.37453 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 P 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 233 n n PA O2A NDP sing 234 n n PA O5B NDP sing 235 n n PA O3 NDP sing 236 n n O2A HOA2 NDP sing 237 n n O5B C5B NDP sing 238 n n C5B C4B NDP sing 239 n n C5B H51A NDP sing 240 n n C5B H52A NDP sing 241 n n C4B O4B NDP sing 242 n n C4B C3B NDP sing 243 n n C4B H4B NDP sing 244 n n O4B C1B NDP sing 245 n n C3B O3B NDP sing 246 n n C3B C2B NDP sing 247 n n C3B H3B NDP sing 248 n n O3B HO3A NDP sing 249 n n C2B O2B NDP sing 250 n n C2B C1B NDP sing 251 n n C2B H2B NDP sing 252 n n O2B P2B NDP sing 253 n n C1B N9A NDP sing 254 n n C1B H1B NDP sing 255 n n N9A C8A NDP sing 256 n y N9A C4A NDP sing 257 n y C8A N7A NDP doub 258 n y C8A H8A NDP sing 259 n n N7A C5A NDP sing 260 n y C5A C6A NDP sing 261 n y C5A C4A NDP doub 262 n y C6A N6A NDP sing 263 n n C6A N1A NDP doub 264 n y N6A H61A NDP sing 265 n n N6A H62A NDP sing 266 n n N1A C2A NDP sing 267 n y C2A N3A NDP doub 268 n y C2A H2A NDP sing 269 n n N3A C4A NDP sing 270 n y O3 PN NDP sing 271 n n PN O1N NDP doub 272 n n PN O2N NDP sing 273 n n PN O5D NDP sing 274 n n O2N H21N NDP sing 275 n n O5D C5D NDP sing 276 n n C5D C4D NDP sing 277 n n C5D H51N NDP sing 278 n n C5D H52N NDP sing 279 n n C4D O4D NDP sing 280 n n C4D C3D NDP sing 281 n n C4D H4D NDP sing 282 n n O4D C1D NDP sing 283 n n C3D O3D NDP sing 284 n n C3D C2D NDP sing 285 n n C3D H3D NDP sing 286 n n O3D HO3N NDP sing 287 n n C2D O2D NDP sing 288 n n C2D C1D NDP sing 289 n n C2D H2D NDP sing 290 n n O2D HO2N NDP sing 291 n n C1D N1N NDP sing 292 n n C1D H1D NDP sing 293 n n N1N C2N NDP sing 294 n n N1N C6N NDP sing 295 n n C2N C3N NDP doub 296 n n C2N H2N NDP sing 297 n n C3N C7N NDP sing 298 n n C3N C4N NDP sing 299 n n C7N O7N NDP doub 300 n n C7N N7N NDP sing 301 n n N7N H71N NDP sing 302 n n N7N H72N NDP sing 303 n n C4N C5N NDP sing 304 n n C4N H41N NDP sing 305 n n C4N H42N NDP sing 306 n n C5N C6N NDP doub 307 n n C5N H5N NDP sing 308 n n C6N H6N NDP sing 309 n n P2B O1X NDP doub 310 n n P2B O2X NDP sing 311 n n P2B O3X NDP sing 312 n n O2X HOP2 NDP sing 313 n n O3X HOP3 NDP sing 314 n n # _atom_sites.entry_id 4I08 _atom_sites.fract_transf_matrix[1][1] 0.015639 _atom_sites.fract_transf_matrix[1][2] 0.009029 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018059 _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] 0.005253 _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 SO4 A 1 301 1 SO4 SO4 . D 2 SO4 A 1 302 4 SO4 SO4 . E 2 SO4 A 1 303 5 SO4 SO4 . F 2 SO4 A 1 304 8 SO4 SO4 . G 3 EDO A 1 305 1 EDO EDO . H 4 NDP A 1 306 1 NDP NDP . I 2 SO4 B 1 301 2 SO4 SO4 . J 2 SO4 B 1 302 3 SO4 SO4 . K 2 SO4 B 1 303 6 SO4 SO4 . L 2 SO4 B 1 304 7 SO4 SO4 . M 2 SO4 B 1 305 10 SO4 SO4 . N 2 SO4 B 1 306 11 SO4 SO4 . O 3 EDO B 1 307 1 EDO EDO . P 4 NDP B 1 308 1 NDP NDP . Q 5 HOH A 1 401 3 HOH HOH . Q 5 HOH A 2 402 4 HOH HOH . Q 5 HOH A 3 403 5 HOH HOH . Q 5 HOH A 4 404 7 HOH HOH . Q 5 HOH A 5 405 8 HOH HOH . Q 5 HOH A 6 406 9 HOH HOH . Q 5 HOH A 7 407 12 HOH HOH . Q 5 HOH A 8 408 13 HOH HOH . Q 5 HOH A 9 409 14 HOH HOH . Q 5 HOH A 10 410 16 HOH HOH . Q 5 HOH A 11 411 17 HOH HOH . Q 5 HOH A 12 412 19 HOH HOH . Q 5 HOH A 13 413 20 HOH HOH . Q 5 HOH A 14 414 21 HOH HOH . Q 5 HOH A 15 415 22 HOH HOH . Q 5 HOH A 16 416 24 HOH HOH . Q 5 HOH A 17 417 25 HOH HOH . Q 5 HOH A 18 418 27 HOH HOH . Q 5 HOH A 19 419 29 HOH HOH . Q 5 HOH A 20 420 31 HOH HOH . Q 5 HOH A 21 421 34 HOH HOH . Q 5 HOH A 22 422 36 HOH HOH . Q 5 HOH A 23 423 45 HOH HOH . Q 5 HOH A 24 424 46 HOH HOH . Q 5 HOH A 25 425 48 HOH HOH . Q 5 HOH A 26 426 50 HOH HOH . Q 5 HOH A 27 427 51 HOH HOH . Q 5 HOH A 28 428 52 HOH HOH . Q 5 HOH A 29 429 53 HOH HOH . Q 5 HOH A 30 430 55 HOH HOH . Q 5 HOH A 31 431 56 HOH HOH . Q 5 HOH A 32 432 57 HOH HOH . Q 5 HOH A 33 433 60 HOH HOH . Q 5 HOH A 34 434 61 HOH HOH . Q 5 HOH A 35 435 62 HOH HOH . Q 5 HOH A 36 436 63 HOH HOH . Q 5 HOH A 37 437 64 HOH HOH . Q 5 HOH A 38 438 65 HOH HOH . Q 5 HOH A 39 439 66 HOH HOH . Q 5 HOH A 40 440 67 HOH HOH . Q 5 HOH A 41 441 69 HOH HOH . Q 5 HOH A 42 442 74 HOH HOH . Q 5 HOH A 43 443 76 HOH HOH . Q 5 HOH A 44 444 77 HOH HOH . Q 5 HOH A 45 445 79 HOH HOH . Q 5 HOH A 46 446 83 HOH HOH . Q 5 HOH A 47 447 84 HOH HOH . Q 5 HOH A 48 448 92 HOH HOH . Q 5 HOH A 49 449 95 HOH HOH . Q 5 HOH A 50 450 97 HOH HOH . Q 5 HOH A 51 451 98 HOH HOH . Q 5 HOH A 52 452 102 HOH HOH . Q 5 HOH A 53 453 114 HOH HOH . Q 5 HOH A 54 454 115 HOH HOH . Q 5 HOH A 55 455 116 HOH HOH . Q 5 HOH A 56 456 118 HOH HOH . Q 5 HOH A 57 457 120 HOH HOH . Q 5 HOH A 58 458 121 HOH HOH . Q 5 HOH A 59 459 123 HOH HOH . Q 5 HOH A 60 460 125 HOH HOH . Q 5 HOH A 61 461 128 HOH HOH . Q 5 HOH A 62 462 130 HOH HOH . Q 5 HOH A 63 463 131 HOH HOH . Q 5 HOH A 64 464 133 HOH HOH . R 5 HOH B 1 401 1 HOH HOH . R 5 HOH B 2 402 2 HOH HOH . R 5 HOH B 3 403 6 HOH HOH . R 5 HOH B 4 404 10 HOH HOH . R 5 HOH B 5 405 11 HOH HOH . R 5 HOH B 6 406 15 HOH HOH . R 5 HOH B 7 407 18 HOH HOH . R 5 HOH B 8 408 23 HOH HOH . R 5 HOH B 9 409 26 HOH HOH . R 5 HOH B 10 410 28 HOH HOH . R 5 HOH B 11 411 30 HOH HOH . R 5 HOH B 12 412 33 HOH HOH . R 5 HOH B 13 413 35 HOH HOH . R 5 HOH B 14 414 37 HOH HOH . R 5 HOH B 15 415 38 HOH HOH . R 5 HOH B 16 416 39 HOH HOH . R 5 HOH B 17 417 40 HOH HOH . R 5 HOH B 18 418 41 HOH HOH . R 5 HOH B 19 419 43 HOH HOH . R 5 HOH B 20 420 44 HOH HOH . R 5 HOH B 21 421 47 HOH HOH . R 5 HOH B 22 422 49 HOH HOH . R 5 HOH B 23 423 54 HOH HOH . R 5 HOH B 24 424 58 HOH HOH . R 5 HOH B 25 425 59 HOH HOH . R 5 HOH B 26 426 68 HOH HOH . R 5 HOH B 27 427 70 HOH HOH . R 5 HOH B 28 428 71 HOH HOH . R 5 HOH B 29 429 72 HOH HOH . R 5 HOH B 30 430 73 HOH HOH . R 5 HOH B 31 431 75 HOH HOH . R 5 HOH B 32 432 78 HOH HOH . R 5 HOH B 33 433 80 HOH HOH . R 5 HOH B 34 434 81 HOH HOH . R 5 HOH B 35 435 82 HOH HOH . R 5 HOH B 36 436 85 HOH HOH . R 5 HOH B 37 437 86 HOH HOH . R 5 HOH B 38 438 87 HOH HOH . R 5 HOH B 39 439 88 HOH HOH . R 5 HOH B 40 440 89 HOH HOH . R 5 HOH B 41 441 90 HOH HOH . R 5 HOH B 42 442 91 HOH HOH . R 5 HOH B 43 443 93 HOH HOH . R 5 HOH B 44 444 94 HOH HOH . R 5 HOH B 45 445 96 HOH HOH . R 5 HOH B 46 446 99 HOH HOH . R 5 HOH B 47 447 100 HOH HOH . R 5 HOH B 48 448 101 HOH HOH . R 5 HOH B 49 449 103 HOH HOH . R 5 HOH B 50 450 104 HOH HOH . R 5 HOH B 51 451 108 HOH HOH . R 5 HOH B 52 452 109 HOH HOH . R 5 HOH B 53 453 110 HOH HOH . R 5 HOH B 54 454 112 HOH HOH . R 5 HOH B 55 455 113 HOH HOH . R 5 HOH B 56 456 117 HOH HOH . R 5 HOH B 57 457 119 HOH HOH . R 5 HOH B 58 458 122 HOH HOH . R 5 HOH B 59 459 124 HOH HOH . R 5 HOH B 60 460 126 HOH HOH . R 5 HOH B 61 461 127 HOH HOH . R 5 HOH B 62 462 129 HOH HOH . R 5 HOH B 63 463 132 HOH HOH . R 5 HOH B 64 464 134 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 . . . P 4 4.26 -30.198 33.92 1 57.89 ? PA NDP 308 B 1 HETATM 2 O O1A NDP . . . P 4 5.608 -30.391 33.265 1 59.14 ? O1A NDP 308 B 1 HETATM 3 O O2A NDP . . . P 4 3.717 -31.198 34.917 1 56.66 ? O2A NDP 308 B 1 HETATM 4 O O5B NDP . . . P 4 4.302 -28.816 34.744 1 56.44 ? O5B NDP 308 B 1 HETATM 5 C C5B NDP . . . P 4 3.375 -28.623 35.812 1 52.37 ? C5B NDP 308 B 1 HETATM 6 C C4B NDP . . . P 4 3.445 -27.189 36.31 1 47.77 ? C4B NDP 308 B 1 HETATM 7 O O4B NDP . . . P 4 2.183 -26.846 36.884 1 47.67 ? O4B NDP 308 B 1 HETATM 8 C C3B NDP . . . P 4 4.491 -27.044 37.393 1 46.68 ? C3B NDP 308 B 1 HETATM 9 O O3B NDP . . . P 4 5.202 -25.797 37.281 1 47.26 ? O3B NDP 308 B 1 HETATM 10 C C2B NDP . . . P 4 3.671 -27.11 38.668 1 46.3 ? C2B NDP 308 B 1 HETATM 11 O O2B NDP . . . P 4 4.359 -26.509 39.76 1 46.06 ? O2B NDP 308 B 1 HETATM 12 C C1B NDP . . . P 4 2.368 -26.441 38.246 1 47.92 ? C1B NDP 308 B 1 HETATM 13 N N9A NDP . . . P 4 1.219 -26.783 39.141 1 48.05 ? N9A NDP 308 B 1 HETATM 14 C C8A NDP . . . P 4 0.65 -27.981 39.389 1 48.52 ? C8A NDP 308 B 1 HETATM 15 N N7A NDP . . . P 4 -0.36 -27.815 40.284 1 46.58 ? N7A NDP 308 B 1 HETATM 16 C C5A NDP . . . P 4 -0.415 -26.502 40.594 1 46.12 ? C5A NDP 308 B 1 HETATM 17 C C6A NDP . . . P 4 -1.208 -25.721 41.431 1 46.09 ? C6A NDP 308 B 1 HETATM 18 N N6A NDP . . . P 4 -2.208 -26.253 42.166 1 46.52 ? N6A NDP 308 B 1 HETATM 19 N N1A NDP . . . P 4 -0.979 -24.387 41.515 1 43.33 ? N1A NDP 308 B 1 HETATM 20 C C2A NDP . . . P 4 -0.011 -23.817 40.787 1 44.55 ? C2A NDP 308 B 1 HETATM 21 N N3A NDP . . . P 4 0.767 -24.541 39.968 1 42.58 ? N3A NDP 308 B 1 HETATM 22 C C4A NDP . . . P 4 0.587 -25.874 39.872 1 45.41 ? C4A NDP 308 B 1 HETATM 23 O O3 NDP . . . P 4 3.105 -29.929 32.788 1 58.04 ? O3 NDP 308 B 1 HETATM 24 P PN NDP . . . P 4 3.26 -29.997 31.161 1 58.39 ? PN NDP 308 B 1 HETATM 25 O O1N NDP . . . P 4 4.431 -29.148 30.683 1 51.36 ? O1N NDP 308 B 1 HETATM 26 O O2N NDP . . . P 4 3.13 -31.426 30.717 1 55.53 ? O2N NDP 308 B 1 HETATM 27 O O5D NDP . . . P 4 1.897 -29.303 30.676 1 53.09 ? O5D NDP 308 B 1 HETATM 28 C C5D NDP . . . P 4 1.559 -27.972 31.032 1 43.92 ? C5D NDP 308 B 1 HETATM 29 C C4D NDP . . . P 4 0.159 -27.738 30.511 1 43.03 ? C4D NDP 308 B 1 HETATM 30 O O4D NDP . . . P 4 0.003 -28.439 29.257 1 43.66 ? O4D NDP 308 B 1 HETATM 31 C C3D NDP . . . P 4 -0.905 -28.266 31.458 1 41.41 ? C3D NDP 308 B 1 HETATM 32 O O3D NDP . . . P 4 -2.003 -27.341 31.508 1 38.71 ? O3D NDP 308 B 1 HETATM 33 C C2D NDP . . . P 4 -1.296 -29.584 30.812 1 42.62 ? C2D NDP 308 B 1 HETATM 34 O O2D NDP . . . P 4 -2.609 -30.002 31.166 1 42.54 ? O2D NDP 308 B 1 HETATM 35 C C1D NDP . . . P 4 -1.15 -29.286 29.327 1 40.88 ? C1D NDP 308 B 1 HETATM 36 N N1N NDP . . . P 4 -1.074 -30.526 28.49 1 44.53 ? N1N NDP 308 B 1 HETATM 37 C C2N NDP . . . P 4 0.155 -31.158 28.382 1 43.11 ? C2N NDP 308 B 1 HETATM 38 C C3N NDP . . . P 4 0.272 -32.171 27.48 1 44.88 ? C3N NDP 308 B 1 HETATM 39 C C7N NDP . . . P 4 1.422 -33.067 27.416 1 43.65 ? C7N NDP 308 B 1 HETATM 40 O O7N NDP . . . P 4 1.552 -33.986 26.44 1 46.73 ? O7N NDP 308 B 1 HETATM 41 N N7N NDP . . . P 4 2.321 -32.941 28.375 1 40.45 ? N7N NDP 308 B 1 HETATM 42 C C4N NDP . . . P 4 -0.863 -32.444 26.535 1 44.35 ? C4N NDP 308 B 1 HETATM 43 C C5N NDP . . . P 4 -1.485 -31.112 26.248 1 43.05 ? C5N NDP 308 B 1 HETATM 44 C C6N NDP . . . P 4 -1.542 -30.225 27.224 1 41.74 ? C6N NDP 308 B 1 HETATM 45 P P2B NDP . . . P 4 5.57 -27.319 40.477 1 50.71 ? P2B NDP 308 B 1 HETATM 46 O O1X NDP . . . P 4 5.604 -26.713 41.86 1 51.9 ? O1X NDP 308 B 1 HETATM 47 O O2X NDP . . . P 4 5.208 -28.784 40.517 1 47.15 ? O2X NDP 308 B 1 HETATM 48 O O3X NDP . . . P 4 6.757 -27.062 39.576 1 46.09 ? O3X NDP 308 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 873 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #