data_2YAU # _model_server_result.job_id -bZbrcvf42KkHVkctzeB0Q _model_server_result.datetime_utc '2024-11-17 10:26:57' _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 2yau # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":550}' # _entry.id 2YAU # _exptl.entry_id 2YAU _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 90 _cell.angle_gamma 90 _cell.entry_id 2YAU _cell.length_a 103.058 _cell.length_b 103.058 _cell.length_c 191.604 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YAU _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41' # _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,G,H,I,J,K,L,M,N _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 # 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 J N 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 disulf ? disulf1 A SG CYS 109 A CYS 89 1_555 A SG CYS 233 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 B SG CYS 109 B CYS 89 1_555 B SG CYS 233 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc1 A SG CYS 72 A CYS 52 1_555 E AU AU . A AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc2 A SG CYS 77 A CYS 57 1_555 E AU AU . A AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc3 E AU AU . A AU 600 1_555 G CL CL . A CL 1489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc4 B SG CYS 72 B CYS 52 1_555 K AU AU . B AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc5 B SG CYS 77 B CYS 57 1_555 K AU AU . B AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc6 K AU AU . B AU 600 1_555 M CL CL . B CL 1489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? # _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 326 n n PA O2A NDP sing 327 n n PA O5B NDP sing 328 n n PA O3 NDP sing 329 n n O2A HOA2 NDP sing 330 n n O5B C5B NDP sing 331 n n C5B C4B NDP sing 332 n n C5B H51A NDP sing 333 n n C5B H52A NDP sing 334 n n C4B O4B NDP sing 335 n n C4B C3B NDP sing 336 n n C4B H4B NDP sing 337 n n O4B C1B NDP sing 338 n n C3B O3B NDP sing 339 n n C3B C2B NDP sing 340 n n C3B H3B NDP sing 341 n n O3B HO3A NDP sing 342 n n C2B O2B NDP sing 343 n n C2B C1B NDP sing 344 n n C2B H2B NDP sing 345 n n O2B P2B NDP sing 346 n n C1B N9A NDP sing 347 n n C1B H1B NDP sing 348 n n N9A C8A NDP sing 349 n y N9A C4A NDP sing 350 n y C8A N7A NDP doub 351 n y C8A H8A NDP sing 352 n n N7A C5A NDP sing 353 n y C5A C6A NDP sing 354 n y C5A C4A NDP doub 355 n y C6A N6A NDP sing 356 n n C6A N1A NDP doub 357 n y N6A H61A NDP sing 358 n n N6A H62A NDP sing 359 n n N1A C2A NDP sing 360 n y C2A N3A NDP doub 361 n y C2A H2A NDP sing 362 n n N3A C4A NDP sing 363 n y O3 PN NDP sing 364 n n PN O1N NDP doub 365 n n PN O2N NDP sing 366 n n PN O5D NDP sing 367 n n O2N H21N NDP sing 368 n n O5D C5D NDP sing 369 n n C5D C4D NDP sing 370 n n C5D H51N NDP sing 371 n n C5D H52N NDP sing 372 n n C4D O4D NDP sing 373 n n C4D C3D NDP sing 374 n n C4D H4D NDP sing 375 n n O4D C1D NDP sing 376 n n C3D O3D NDP sing 377 n n C3D C2D NDP sing 378 n n C3D H3D NDP sing 379 n n O3D HO3N NDP sing 380 n n C2D O2D NDP sing 381 n n C2D C1D NDP sing 382 n n C2D H2D NDP sing 383 n n O2D HO2N NDP sing 384 n n C1D N1N NDP sing 385 n n C1D H1D NDP sing 386 n n N1N C2N NDP sing 387 n n N1N C6N NDP sing 388 n n C2N C3N NDP doub 389 n n C2N H2N NDP sing 390 n n C3N C7N NDP sing 391 n n C3N C4N NDP sing 392 n n C7N O7N NDP doub 393 n n C7N N7N NDP sing 394 n n N7N H71N NDP sing 395 n n N7N H72N NDP sing 396 n n C4N C5N NDP sing 397 n n C4N H41N NDP sing 398 n n C4N H42N NDP sing 399 n n C5N C6N NDP doub 400 n n C5N H5N NDP sing 401 n n C6N H6N NDP sing 402 n n P2B O1X NDP doub 403 n n P2B O2X NDP sing 404 n n P2B O3X NDP sing 405 n n O2X HOP2 NDP sing 406 n n O3X HOP3 NDP sing 407 n n # _atom_sites.entry_id 2YAU _atom_sites.fract_transf_matrix[1][1] 0.009703 _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] 0.009703 _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] 0.005219 _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 FAD A 1 500 500 FAD FAD . D 3 NDP A 1 550 550 NDP NDP . E 4 AU A 1 600 600 AU AU . F 5 TS8 A 1 650 650 TS8 TS8 . G 6 CL A 1 1489 1489 CL CL . H 7 SO4 A 1 1490 1490 SO4 SO4 . I 2 FAD B 1 500 500 FAD FAD . J 3 NDP B 1 550 550 NDP NDP . K 4 AU B 1 600 600 AU AU . L 5 TS8 B 1 650 650 TS8 TS8 . M 6 CL B 1 1489 1489 CL CL . N 7 SO4 B 1 1490 1490 SO4 SO4 . # 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 -31.177 -54.549 8.096 1 60 ? PA NDP 550 A 1 HETATM 2 O O1A NDP . . . D 3 -29.629 -54.013 8.074 1 60 ? O1A NDP 550 A 1 HETATM 3 O O2A NDP . . . D 3 -31.418 -55.764 7.262 1 60 ? O2A NDP 550 A 1 HETATM 4 O O5B NDP . . . D 3 -31.498 -54.814 9.659 1 60 ? O5B NDP 550 A 1 HETATM 5 C C5B NDP . . . D 3 -32.849 -54.716 10.154 1 60 ? C5B NDP 550 A 1 HETATM 6 C C4B NDP . . . D 3 -32.991 -53.677 11.3 1 60 ? C4B NDP 550 A 1 HETATM 7 O O4B NDP . . . D 3 -34.379 -53.59 11.789 1 60 ? O4B NDP 550 A 1 HETATM 8 C C3B NDP . . . D 3 -32.144 -54.128 12.494 1 60 ? C3B NDP 550 A 1 HETATM 9 O O3B NDP . . . D 3 -31.696 -52.985 13.239 1 60 ? O3B NDP 550 A 1 HETATM 10 C C2B NDP . . . D 3 -33.136 -54.991 13.283 1 60 ? C2B NDP 550 A 1 HETATM 11 O O2B NDP . . . D 3 -32.791 -55.057 14.669 1 60 ? O2B NDP 550 A 1 HETATM 12 C C1B NDP . . . D 3 -34.47 -54.258 13.093 1 60 ? C1B NDP 550 A 1 HETATM 13 N N9A NDP . . . D 3 -35.587 -55.246 13.047 1 60 ? N9A NDP 550 A 1 HETATM 14 C C8A NDP . . . D 3 -35.578 -56.4 12.375 1 60 ? C8A NDP 550 A 1 HETATM 15 N N7A NDP . . . D 3 -36.741 -57.026 12.56 1 60 ? N7A NDP 550 A 1 HETATM 16 C C5A NDP . . . D 3 -37.503 -56.27 13.344 1 60 ? C5A NDP 550 A 1 HETATM 17 C C6A NDP . . . D 3 -38.794 -56.404 13.863 1 60 ? C6A NDP 550 A 1 HETATM 18 N N6A NDP . . . D 3 -39.532 -57.477 13.582 1 60 ? N6A NDP 550 A 1 HETATM 19 N N1A NDP . . . D 3 -39.289 -55.43 14.653 1 60 ? N1A NDP 550 A 1 HETATM 20 C C2A NDP . . . D 3 -38.561 -54.351 14.938 1 60 ? C2A NDP 550 A 1 HETATM 21 N N3A NDP . . . D 3 -37.326 -54.196 14.456 1 60 ? N3A NDP 550 A 1 HETATM 22 C C4A NDP . . . D 3 -36.77 -55.134 13.658 1 60 ? C4A NDP 550 A 1 HETATM 23 O O3 NDP . . . D 3 -32.099 -53.245 7.636 1 60 ? O3 NDP 550 A 1 HETATM 24 P PN NDP . . . D 3 -32.37 -52.73 6.098 1 60 ? PN NDP 550 A 1 HETATM 25 O O1N NDP . . . D 3 -33.994 -52.596 5.905 1 60 ? O1N NDP 550 A 1 HETATM 26 O O2N NDP . . . D 3 -31.673 -51.444 5.838 1 60 ? O2N NDP 550 A 1 HETATM 27 O O5D NDP . . . D 3 -31.944 -53.932 5.062 1 60 ? O5D NDP 550 A 1 HETATM 28 C C5D NDP . . . D 3 -31.54 -53.648 3.705 1 60 ? C5D NDP 550 A 1 HETATM 29 C C4D NDP . . . D 3 -30.142 -54.227 3.345 1 60 ? C4D NDP 550 A 1 HETATM 30 O O4D NDP . . . D 3 -29.798 -53.693 2.035 1 60 ? O4D NDP 550 A 1 HETATM 31 C C3D NDP . . . D 3 -28.981 -53.877 4.306 1 60 ? C3D NDP 550 A 1 HETATM 32 O O3D NDP . . . D 3 -28.553 -55.034 5.053 1 60 ? O3D NDP 550 A 1 HETATM 33 C C2D NDP . . . D 3 -27.825 -53.424 3.422 1 60 ? C2D NDP 550 A 1 HETATM 34 O O2D NDP . . . D 3 -26.913 -54.511 3.197 1 60 ? O2D NDP 550 A 1 HETATM 35 C C1D NDP . . . D 3 -28.494 -53.009 2.106 1 60 ? C1D NDP 550 A 1 HETATM 36 N N1N NDP . . . D 3 -28.569 -51.519 2.084 1 60 ? N1N NDP 550 A 1 HETATM 37 C C2N NDP . . . D 3 -27.418 -50.782 1.788 1 60 ? C2N NDP 550 A 1 HETATM 38 C C3N NDP . . . D 3 -27.465 -49.39 1.727 1 60 ? C3N NDP 550 A 1 HETATM 39 C C7N NDP . . . D 3 -26.183 -48.596 1.405 1 60 ? C7N NDP 550 A 1 HETATM 40 O O7N NDP . . . D 3 -26.195 -47.362 1.366 1 60 ? O7N NDP 550 A 1 HETATM 41 N N7N NDP . . . D 3 -25.088 -49.339 1.189 1 60 ? N7N NDP 550 A 1 HETATM 42 C C4N NDP . . . D 3 -28.771 -48.619 2.004 1 60 ? C4N NDP 550 A 1 HETATM 43 C C5N NDP . . . D 3 -29.861 -49.448 2.28 1 60 ? C5N NDP 550 A 1 HETATM 44 C C6N NDP . . . D 3 -29.776 -50.84 2.32 1 60 ? C6N NDP 550 A 1 HETATM 45 P P2B NDP . . . D 3 -31.587 -55.995 15.167 1 60 ? P2B NDP 550 A 1 HETATM 46 O O1X NDP . . . D 3 -32.035 -56.394 16.663 1 60 ? O1X NDP 550 A 1 HETATM 47 O O2X NDP . . . D 3 -31.701 -57.368 14.312 1 60 ? O2X NDP 550 A 1 HETATM 48 O O3X NDP . . . D 3 -30.264 -55.335 15.103 1 60 ? O3X NDP 550 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 226 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 48 #