data_8CAT # _model_server_result.job_id ybknwfcUYgkHvv4Du3pY0Q _model_server_result.datetime_utc '2025-01-18 02:36:49' _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 8cat # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":508}' # _entry.id 8CAT # _exptl.entry_id 8CAT _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 120 _cell.entry_id 8CAT _cell.length_a 142 _cell.length_b 142 _cell.length_c 103.7 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CAT _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 'point symmetry operation' ? ? 0.418202 0.818829 0.393083 0.818937 -0.527169 0.226985 0.393142 0.226989 -0.891033 -126.55513 140.74365 163.41545 # 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 # 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 OH TYR 357 A TYR 357 1_555 C FE HEM . A HEM 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.897 ? metalc ? metalc2 B OH TYR 357 B TYR 357 1_555 E FE HEM . B HEM 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? # _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 319 n n PA O2A NDP sing 320 n n PA O5B NDP sing 321 n n PA O3 NDP sing 322 n n O2A HOA2 NDP sing 323 n n O5B C5B NDP sing 324 n n C5B C4B NDP sing 325 n n C5B H51A NDP sing 326 n n C5B H52A NDP sing 327 n n C4B O4B NDP sing 328 n n C4B C3B NDP sing 329 n n C4B H4B NDP sing 330 n n O4B C1B NDP sing 331 n n C3B O3B NDP sing 332 n n C3B C2B NDP sing 333 n n C3B H3B NDP sing 334 n n O3B HO3A NDP sing 335 n n C2B O2B NDP sing 336 n n C2B C1B NDP sing 337 n n C2B H2B NDP sing 338 n n O2B P2B NDP sing 339 n n C1B N9A NDP sing 340 n n C1B H1B NDP sing 341 n n N9A C8A NDP sing 342 n y N9A C4A NDP sing 343 n y C8A N7A NDP doub 344 n y C8A H8A NDP sing 345 n n N7A C5A NDP sing 346 n y C5A C6A NDP sing 347 n y C5A C4A NDP doub 348 n y C6A N6A NDP sing 349 n n C6A N1A NDP doub 350 n y N6A H61A NDP sing 351 n n N6A H62A NDP sing 352 n n N1A C2A NDP sing 353 n y C2A N3A NDP doub 354 n y C2A H2A NDP sing 355 n n N3A C4A NDP sing 356 n y O3 PN NDP sing 357 n n PN O1N NDP doub 358 n n PN O2N NDP sing 359 n n PN O5D NDP sing 360 n n O2N H21N NDP sing 361 n n O5D C5D NDP sing 362 n n C5D C4D NDP sing 363 n n C5D H51N NDP sing 364 n n C5D H52N NDP sing 365 n n C4D O4D NDP sing 366 n n C4D C3D NDP sing 367 n n C4D H4D NDP sing 368 n n O4D C1D NDP sing 369 n n C3D O3D NDP sing 370 n n C3D C2D NDP sing 371 n n C3D H3D NDP sing 372 n n O3D HO3N NDP sing 373 n n C2D O2D NDP sing 374 n n C2D C1D NDP sing 375 n n C2D H2D NDP sing 376 n n O2D HO2N NDP sing 377 n n C1D N1N NDP sing 378 n n C1D H1D NDP sing 379 n n N1N C2N NDP sing 380 n n N1N C6N NDP sing 381 n n C2N C3N NDP doub 382 n n C2N H2N NDP sing 383 n n C3N C7N NDP sing 384 n n C3N C4N NDP sing 385 n n C7N O7N NDP doub 386 n n C7N N7N NDP sing 387 n n N7N H71N NDP sing 388 n n N7N H72N NDP sing 389 n n C4N C5N NDP sing 390 n n C4N H41N NDP sing 391 n n C4N H42N NDP sing 392 n n C5N C6N NDP doub 393 n n C5N H5N NDP sing 394 n n C6N H6N NDP sing 395 n n P2B O1X NDP doub 396 n n P2B O2X NDP sing 397 n n P2B O3X NDP sing 398 n n O2X HOP2 NDP sing 399 n n O3X HOP3 NDP sing 400 n n # _atom_sites.entry_id 8CAT _atom_sites.fract_transf_matrix[1][1] 0.007042 _atom_sites.fract_transf_matrix[1][2] 0.004066 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008132 _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] 0.009643 _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 HEM A 1 507 1 HEM HEM . D 3 NDP A 1 508 2 NDP NDP . E 2 HEM B 1 507 1 HEM HEM . F 3 NDP B 1 508 2 NDP NDP . G 4 HOH A 1 509 3 HOH HOH . G 4 HOH A 2 510 4 HOH HOH . G 4 HOH A 3 511 5 HOH HOH . G 4 HOH A 4 512 6 HOH HOH . G 4 HOH A 5 513 7 HOH HOH . G 4 HOH A 6 514 8 HOH HOH . G 4 HOH A 7 515 9 HOH HOH . G 4 HOH A 8 516 11 HOH HOH . G 4 HOH A 9 517 12 HOH HOH . G 4 HOH A 10 518 14 HOH HOH . G 4 HOH A 11 519 15 HOH HOH . G 4 HOH A 12 520 16 HOH HOH . G 4 HOH A 13 521 17 HOH HOH . G 4 HOH A 14 522 18 HOH HOH . G 4 HOH A 15 523 19 HOH HOH . G 4 HOH A 16 524 20 HOH HOH . G 4 HOH A 17 525 22 HOH HOH . G 4 HOH A 18 526 23 HOH HOH . G 4 HOH A 19 527 26 HOH HOH . G 4 HOH A 20 528 27 HOH HOH . G 4 HOH A 21 529 28 HOH HOH . G 4 HOH A 22 530 29 HOH HOH . G 4 HOH A 23 531 30 HOH HOH . G 4 HOH A 24 532 31 HOH HOH . G 4 HOH A 25 533 32 HOH HOH . G 4 HOH A 26 534 33 HOH HOH . G 4 HOH A 27 535 34 HOH HOH . G 4 HOH A 28 536 35 HOH HOH . G 4 HOH A 29 537 37 HOH HOH . G 4 HOH A 30 538 38 HOH HOH . G 4 HOH A 31 539 39 HOH HOH . G 4 HOH A 32 540 40 HOH HOH . G 4 HOH A 33 541 41 HOH HOH . G 4 HOH A 34 542 42 HOH HOH . G 4 HOH A 35 543 44 HOH HOH . G 4 HOH A 36 544 45 HOH HOH . G 4 HOH A 37 545 46 HOH HOH . G 4 HOH A 38 546 47 HOH HOH . G 4 HOH A 39 547 48 HOH HOH . G 4 HOH A 40 548 49 HOH HOH . G 4 HOH A 41 549 10 HOH HOH . G 4 HOH A 42 550 11 HOH HOH . G 4 HOH A 43 551 13 HOH HOH . G 4 HOH A 44 552 21 HOH HOH . G 4 HOH A 45 553 36 HOH HOH . G 4 HOH A 46 554 43 HOH HOH . G 4 HOH A 47 555 50 HOH HOH . G 4 HOH A 48 556 51 HOH HOH . H 4 HOH B 1 509 10 HOH HOH . H 4 HOH B 2 510 13 HOH HOH . H 4 HOH B 3 511 21 HOH HOH . H 4 HOH B 4 512 24 HOH HOH . H 4 HOH B 5 513 25 HOH HOH . H 4 HOH B 6 514 36 HOH HOH . H 4 HOH B 7 515 43 HOH HOH . H 4 HOH B 8 516 50 HOH HOH . H 4 HOH B 9 517 51 HOH HOH . H 4 HOH B 10 518 3 HOH HOH . H 4 HOH B 11 519 4 HOH HOH . H 4 HOH B 12 520 5 HOH HOH . H 4 HOH B 13 521 6 HOH HOH . H 4 HOH B 14 522 7 HOH HOH . H 4 HOH B 15 523 8 HOH HOH . H 4 HOH B 16 524 9 HOH HOH . H 4 HOH B 17 525 12 HOH HOH . H 4 HOH B 18 526 14 HOH HOH . H 4 HOH B 19 527 15 HOH HOH . H 4 HOH B 20 528 16 HOH HOH . H 4 HOH B 21 529 17 HOH HOH . H 4 HOH B 22 530 18 HOH HOH . H 4 HOH B 23 531 19 HOH HOH . H 4 HOH B 24 532 20 HOH HOH . H 4 HOH B 25 533 22 HOH HOH . H 4 HOH B 26 534 23 HOH HOH . H 4 HOH B 27 535 24 HOH HOH . H 4 HOH B 28 536 25 HOH HOH . H 4 HOH B 29 537 26 HOH HOH . H 4 HOH B 30 538 27 HOH HOH . H 4 HOH B 31 539 28 HOH HOH . H 4 HOH B 32 540 29 HOH HOH . H 4 HOH B 33 541 30 HOH HOH . H 4 HOH B 34 542 31 HOH HOH . H 4 HOH B 35 543 32 HOH HOH . H 4 HOH B 36 544 33 HOH HOH . H 4 HOH B 37 545 34 HOH HOH . H 4 HOH B 38 546 35 HOH HOH . H 4 HOH B 39 547 37 HOH HOH . H 4 HOH B 40 548 38 HOH HOH . H 4 HOH B 41 549 39 HOH HOH . H 4 HOH B 42 550 40 HOH HOH . H 4 HOH B 43 551 41 HOH HOH . H 4 HOH B 44 552 42 HOH HOH . H 4 HOH B 45 553 44 HOH HOH . H 4 HOH B 46 554 45 HOH HOH . H 4 HOH B 47 555 46 HOH HOH . H 4 HOH B 48 556 47 HOH HOH . H 4 HOH B 49 557 48 HOH HOH . H 4 HOH B 50 558 49 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 -30.719 102.549 126.742 1 58.12 ? PA NDP 508 A 1 HETATM 2 O O1A NDP . . . D 3 -30.898 102.406 128.222 1 57.29 ? O1A NDP 508 A 1 HETATM 3 O O2A NDP . . . D 3 -30.602 103.935 126.328 1 57.48 ? O2A NDP 508 A 1 HETATM 4 O O5B NDP . . . D 3 -32.044 101.804 126.126 1 56.66 ? O5B NDP 508 A 1 HETATM 5 C C5B NDP . . . D 3 -32.181 100.337 126.434 1 55.11 ? C5B NDP 508 A 1 HETATM 6 C C4B NDP . . . D 3 -32.927 99.748 125.267 1 54.38 ? C4B NDP 508 A 1 HETATM 7 O O4B NDP . . . D 3 -33.598 98.492 125.565 1 54.14 ? O4B NDP 508 A 1 HETATM 8 C C3B NDP . . . D 3 -33.987 100.584 124.672 1 54.29 ? C3B NDP 508 A 1 HETATM 9 O O3B NDP . . . D 3 -34.087 101.637 123.905 1 53.92 ? O3B NDP 508 A 1 HETATM 10 C C2B NDP . . . D 3 -35.219 100.054 125.417 1 54.18 ? C2B NDP 508 A 1 HETATM 11 O O2B NDP . . . D 3 -36.349 100.453 124.492 1 54.77 ? O2B NDP 508 A 1 HETATM 12 C C1B NDP . . . D 3 -35.069 98.586 125.117 1 54.17 ? C1B NDP 508 A 1 HETATM 13 N N9A NDP . . . D 3 -35.56 97.39 125.743 1 53.91 ? N9A NDP 508 A 1 HETATM 14 C C8A NDP . . . D 3 -35.922 97.141 127.034 1 53.63 ? C8A NDP 508 A 1 HETATM 15 N N7A NDP . . . D 3 -36.22 95.875 127.286 1 53.2 ? N7A NDP 508 A 1 HETATM 16 C C5A NDP . . . D 3 -35.989 95.236 126.095 1 53.35 ? C5A NDP 508 A 1 HETATM 17 C C6A NDP . . . D 3 -36.122 93.884 125.705 1 52.83 ? C6A NDP 508 A 1 HETATM 18 N N6A NDP . . . D 3 -36.547 92.9 126.496 1 53 ? N6A NDP 508 A 1 HETATM 19 N N1A NDP . . . D 3 -35.828 93.583 124.412 1 52.63 ? N1A NDP 508 A 1 HETATM 20 C C2A NDP . . . D 3 -35.433 94.595 123.57 1 52.89 ? C2A NDP 508 A 1 HETATM 21 N N3A NDP . . . D 3 -35.287 95.866 123.835 1 53.25 ? N3A NDP 508 A 1 HETATM 22 C C4A NDP . . . D 3 -35.576 96.132 125.134 1 53.77 ? C4A NDP 508 A 1 HETATM 23 O O3 NDP . . . D 3 -29.612 101.58 126.132 1 57.47 ? O3 NDP 508 A 1 HETATM 24 P PN NDP . . . D 3 -28.301 101.664 125.313 1 57.06 ? PN NDP 508 A 1 HETATM 25 O O1N NDP . . . D 3 -27.13 101.793 126.249 1 57.68 ? O1N NDP 508 A 1 HETATM 26 O O2N NDP . . . D 3 -28.253 102.655 124.253 1 56.62 ? O2N NDP 508 A 1 HETATM 27 O O5D NDP . . . D 3 -28.222 100.137 124.682 1 57.39 ? O5D NDP 508 A 1 HETATM 28 C C5D NDP . . . D 3 -27.724 99.131 125.608 1 55.63 ? C5D NDP 508 A 1 HETATM 29 C C4D NDP . . . D 3 -28.34 97.801 125.286 1 54.93 ? C4D NDP 508 A 1 HETATM 30 O O4D NDP . . . D 3 -29.762 97.953 125.132 1 54.44 ? O4D NDP 508 A 1 HETATM 31 C C3D NDP . . . D 3 -27.818 97.131 123.996 1 54.51 ? C3D NDP 508 A 1 HETATM 32 O O3D NDP . . . D 3 -26.926 96.098 124.45 1 54.9 ? O3D NDP 508 A 1 HETATM 33 C C2D NDP . . . D 3 -29.055 96.503 123.389 1 54.44 ? C2D NDP 508 A 1 HETATM 34 O O2D NDP . . . D 3 -29.067 95.08 123.53 1 54.21 ? O2D NDP 508 A 1 HETATM 35 C C1D NDP . . . D 3 -30.241 97.141 124.09 1 54.22 ? C1D NDP 508 A 1 HETATM 36 N N1N NDP . . . D 3 -31.025 97.967 123.179 1 53.71 ? N1N NDP 508 A 1 HETATM 37 C C2N NDP . . . D 3 -30.37 98.972 122.536 1 53.79 ? C2N NDP 508 A 1 HETATM 38 C C3N NDP . . . D 3 -31.059 99.769 121.644 1 53.67 ? C3N NDP 508 A 1 HETATM 39 C C7N NDP . . . D 3 -30.425 100.926 120.817 1 53.78 ? C7N NDP 508 A 1 HETATM 40 O O7N NDP . . . D 3 -31.031 101.561 119.949 1 53.3 ? O7N NDP 508 A 1 HETATM 41 N N7N NDP . . . D 3 -29.128 101.172 121.102 1 54.67 ? N7N NDP 508 A 1 HETATM 42 C C4N NDP . . . D 3 -32.427 99.581 121.371 1 53.28 ? C4N NDP 508 A 1 HETATM 43 C C5N NDP . . . D 3 -33.012 98.566 122.11 1 52.96 ? C5N NDP 508 A 1 HETATM 44 C C6N NDP . . . D 3 -32.401 97.727 123.012 1 53.25 ? C6N NDP 508 A 1 HETATM 45 P P2B NDP . . . D 3 -37.925 100.913 125.101 1 49.27 ? P2B NDP 508 A 1 HETATM 46 O O1X NDP . . . D 3 -37.664 101.401 126.487 1 49.59 ? O1X NDP 508 A 1 HETATM 47 O O2X NDP . . . D 3 -39.175 100.061 125.138 1 49.81 ? O2X NDP 508 A 1 HETATM 48 O O3X NDP . . . D 3 -38.026 101.983 124.057 1 48.63 ? O3X NDP 508 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #