data_1PTJ # _model_server_result.job_id AMRfwlNomEsAgfzrt7NC-Q _model_server_result.datetime_utc '2024-11-28 06:25:07' _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 1ptj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":500}' # _entry.id 1PTJ # _exptl.entry_id 1PTJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 679.491 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description THIONICOTINAMIDE-ADENINE-DINUCLEOTIDE _entity.pdbx_number_of_molecules 1 _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 1PTJ _cell.length_a 72.089 _cell.length_b 74.698 _cell.length_c 205.014 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PTJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H27 N7 O13 P2 S' _chem_comp.formula_weight 679.491 _chem_comp.id SND _chem_comp.mon_nstd_flag . _chem_comp.name THIONICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 SND doub 383 n n PA O2A SND sing 384 n n PA O5B SND sing 385 n n PA O3 SND sing 386 n n O2A HOA2 SND sing 387 n n O5B C5B SND sing 388 n n C5B C4B SND sing 389 n n C5B H51A SND sing 390 n n C5B H52A SND sing 391 n n C4B O4B SND sing 392 n n C4B C3B SND sing 393 n n C4B H4B SND sing 394 n n O4B C1B SND sing 395 n n C3B O3B SND sing 396 n n C3B C2B SND sing 397 n n C3B H3B SND sing 398 n n O3B HO3A SND sing 399 n n C2B O2B SND sing 400 n n C2B C1B SND sing 401 n n C2B H2B SND sing 402 n n O2B HO2A SND sing 403 n n C1B N9A SND sing 404 n n C1B H1B SND sing 405 n n N9A C8A SND sing 406 n y N9A C4A SND sing 407 n y C8A N7A SND doub 408 n y C8A H8A SND sing 409 n n N7A C5A SND sing 410 n y C5A C6A SND sing 411 n y C5A C4A SND doub 412 n y C6A N6A SND sing 413 n n C6A N1A SND doub 414 n y N6A H61A SND sing 415 n n N6A H62A SND sing 416 n n N1A C2A SND sing 417 n y C2A N3A SND doub 418 n y C2A H2A SND sing 419 n n N3A C4A SND sing 420 n y O3 PN SND sing 421 n n PN O1N SND doub 422 n n PN O2N SND sing 423 n n PN O5D SND sing 424 n n O5D C5D SND sing 425 n n C5D C4D SND sing 426 n n C5D H51N SND sing 427 n n C5D H52N SND sing 428 n n C4D O4D SND sing 429 n n C4D C3D SND sing 430 n n C4D H4D SND sing 431 n n O4D C1D SND sing 432 n n C3D O3D SND sing 433 n n C3D C2D SND sing 434 n n C3D H3D SND sing 435 n n O3D HO3N SND sing 436 n n C2D O2D SND sing 437 n n C2D C1D SND sing 438 n n C2D H2D SND sing 439 n n O2D HO2N SND sing 440 n n C1D N1N SND sing 441 n n C1D H1D SND sing 442 n n N1N C2N SND doub 443 n y N1N C6N SND sing 444 n y C2N C3N SND sing 445 n y C2N H2N SND sing 446 n n C3N C7N SND sing 447 n n C3N C4N SND doub 448 n y C7N S7N SND doub 449 n n C7N N7N SND sing 450 n n N7N H71N SND sing 451 n n N7N H72N SND sing 452 n n C4N C5N SND sing 453 n y C4N H4N SND sing 454 n n C5N C6N SND doub 455 n y C5N H5N SND sing 456 n n C6N H6N SND sing 457 n n # _atom_sites.entry_id 1PTJ _atom_sites.fract_transf_matrix[1][1] 0.013872 _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] 0.013387 _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] 0.004878 _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 D 3 SND A 1 500 500 SND SND . E 4 GOL A 1 402 402 GOL GOL . F 4 GOL A 1 403 403 GOL GOL . G 4 GOL B 1 401 401 GOL GOL . H 5 NAP C 1 300 300 NAP NAP . I 6 HOH A 1 501 1 HOH HOH . I 6 HOH A 2 502 2 HOH HOH . I 6 HOH A 3 503 5 HOH HOH . I 6 HOH A 4 504 13 HOH HOH . I 6 HOH A 5 505 14 HOH HOH . I 6 HOH A 6 506 19 HOH HOH . I 6 HOH A 7 507 25 HOH HOH . I 6 HOH A 8 508 36 HOH HOH . I 6 HOH A 9 509 39 HOH HOH . I 6 HOH A 10 510 44 HOH HOH . I 6 HOH A 11 511 45 HOH HOH . I 6 HOH A 12 512 48 HOH HOH . I 6 HOH A 13 513 62 HOH HOH . I 6 HOH A 14 514 63 HOH HOH . I 6 HOH A 15 515 71 HOH HOH . I 6 HOH A 16 516 76 HOH HOH . I 6 HOH A 17 517 78 HOH HOH . I 6 HOH A 18 518 81 HOH HOH . I 6 HOH A 19 519 82 HOH HOH . I 6 HOH A 20 520 87 HOH HOH . I 6 HOH A 21 521 89 HOH HOH . I 6 HOH A 22 522 92 HOH HOH . I 6 HOH A 23 523 93 HOH HOH . I 6 HOH A 24 524 94 HOH HOH . I 6 HOH A 25 525 95 HOH HOH . I 6 HOH A 26 526 96 HOH HOH . I 6 HOH A 27 527 99 HOH HOH . I 6 HOH A 28 528 100 HOH HOH . I 6 HOH A 29 529 104 HOH HOH . I 6 HOH A 30 530 107 HOH HOH . I 6 HOH A 31 531 114 HOH HOH . I 6 HOH A 32 532 115 HOH HOH . I 6 HOH A 33 533 125 HOH HOH . I 6 HOH A 34 534 127 HOH HOH . I 6 HOH A 35 535 128 HOH HOH . I 6 HOH A 36 536 133 HOH HOH . I 6 HOH A 37 537 137 HOH HOH . I 6 HOH A 38 538 140 HOH HOH . I 6 HOH A 39 539 142 HOH HOH . I 6 HOH A 40 540 143 HOH HOH . I 6 HOH A 41 541 144 HOH HOH . I 6 HOH A 42 542 148 HOH HOH . J 6 HOH B 1 402 3 HOH HOH . J 6 HOH B 2 403 4 HOH HOH . J 6 HOH B 3 404 6 HOH HOH . J 6 HOH B 4 405 7 HOH HOH . J 6 HOH B 5 406 8 HOH HOH . J 6 HOH B 6 407 9 HOH HOH . J 6 HOH B 7 408 10 HOH HOH . J 6 HOH B 8 409 15 HOH HOH . J 6 HOH B 9 410 16 HOH HOH . J 6 HOH B 10 411 18 HOH HOH . J 6 HOH B 11 412 20 HOH HOH . J 6 HOH B 12 413 21 HOH HOH . J 6 HOH B 13 414 24 HOH HOH . J 6 HOH B 14 415 28 HOH HOH . J 6 HOH B 15 416 29 HOH HOH . J 6 HOH B 16 417 30 HOH HOH . J 6 HOH B 17 418 31 HOH HOH . J 6 HOH B 18 419 32 HOH HOH . J 6 HOH B 19 420 33 HOH HOH . J 6 HOH B 20 421 35 HOH HOH . J 6 HOH B 21 422 38 HOH HOH . J 6 HOH B 22 423 40 HOH HOH . J 6 HOH B 23 424 41 HOH HOH . J 6 HOH B 24 425 42 HOH HOH . J 6 HOH B 25 426 43 HOH HOH . J 6 HOH B 26 427 46 HOH HOH . J 6 HOH B 27 428 47 HOH HOH . J 6 HOH B 28 429 49 HOH HOH . J 6 HOH B 29 430 50 HOH HOH . J 6 HOH B 30 431 51 HOH HOH . J 6 HOH B 31 432 53 HOH HOH . J 6 HOH B 32 433 54 HOH HOH . J 6 HOH B 33 434 57 HOH HOH . J 6 HOH B 34 435 59 HOH HOH . J 6 HOH B 35 436 60 HOH HOH . J 6 HOH B 36 437 61 HOH HOH . J 6 HOH B 37 438 64 HOH HOH . J 6 HOH B 38 439 66 HOH HOH . J 6 HOH B 39 440 67 HOH HOH . J 6 HOH B 40 441 68 HOH HOH . J 6 HOH B 41 442 69 HOH HOH . J 6 HOH B 42 443 70 HOH HOH . J 6 HOH B 43 444 72 HOH HOH . J 6 HOH B 44 445 73 HOH HOH . J 6 HOH B 45 446 77 HOH HOH . J 6 HOH B 46 447 79 HOH HOH . J 6 HOH B 47 448 84 HOH HOH . J 6 HOH B 48 449 85 HOH HOH . J 6 HOH B 49 450 86 HOH HOH . J 6 HOH B 50 451 88 HOH HOH . J 6 HOH B 51 452 90 HOH HOH . J 6 HOH B 52 453 97 HOH HOH . J 6 HOH B 53 454 98 HOH HOH . J 6 HOH B 54 455 101 HOH HOH . J 6 HOH B 55 456 103 HOH HOH . J 6 HOH B 56 457 105 HOH HOH . J 6 HOH B 57 458 106 HOH HOH . J 6 HOH B 58 459 108 HOH HOH . J 6 HOH B 59 460 110 HOH HOH . J 6 HOH B 60 461 111 HOH HOH . J 6 HOH B 61 462 113 HOH HOH . J 6 HOH B 62 463 116 HOH HOH . J 6 HOH B 63 464 117 HOH HOH . J 6 HOH B 64 465 118 HOH HOH . J 6 HOH B 65 466 119 HOH HOH . J 6 HOH B 66 467 120 HOH HOH . J 6 HOH B 67 468 122 HOH HOH . J 6 HOH B 68 469 123 HOH HOH . J 6 HOH B 69 470 124 HOH HOH . J 6 HOH B 70 471 126 HOH HOH . J 6 HOH B 71 472 130 HOH HOH . J 6 HOH B 72 473 131 HOH HOH . J 6 HOH B 73 474 134 HOH HOH . J 6 HOH B 74 475 135 HOH HOH . J 6 HOH B 75 476 136 HOH HOH . J 6 HOH B 76 477 139 HOH HOH . J 6 HOH B 77 478 145 HOH HOH . J 6 HOH B 78 479 146 HOH HOH . J 6 HOH B 79 480 147 HOH HOH . K 6 HOH C 1 301 11 HOH HOH . K 6 HOH C 2 302 12 HOH HOH . K 6 HOH C 3 303 17 HOH HOH . K 6 HOH C 4 304 22 HOH HOH . K 6 HOH C 5 305 23 HOH HOH . K 6 HOH C 6 306 26 HOH HOH . K 6 HOH C 7 307 27 HOH HOH . K 6 HOH C 8 308 52 HOH HOH . K 6 HOH C 9 309 55 HOH HOH . K 6 HOH C 10 310 56 HOH HOH . K 6 HOH C 11 311 58 HOH HOH . K 6 HOH C 12 312 65 HOH HOH . K 6 HOH C 13 313 74 HOH HOH . K 6 HOH C 14 314 75 HOH HOH . K 6 HOH C 15 315 80 HOH HOH . K 6 HOH C 16 316 83 HOH HOH . K 6 HOH C 17 317 91 HOH HOH . K 6 HOH C 18 318 102 HOH HOH . K 6 HOH C 19 319 109 HOH HOH . K 6 HOH C 20 320 112 HOH HOH . K 6 HOH C 21 321 121 HOH HOH . K 6 HOH C 22 322 129 HOH HOH . K 6 HOH C 23 323 132 HOH HOH . K 6 HOH C 24 324 138 HOH HOH . K 6 HOH C 25 325 141 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 SND . . . D 3 -7.484 5.957 26.95 1 71.2 ? PA SND 500 A 1 HETATM 2 O O1A SND . . . D 3 -7.217 4.557 27.37 1 71.65 ? O1A SND 500 A 1 HETATM 3 O O2A SND . . . D 3 -7.007 6.927 27.971 1 72.53 ? O2A SND 500 A 1 HETATM 4 O O5B SND . . . D 3 -9.043 6.167 26.669 1 71.46 ? O5B SND 500 A 1 HETATM 5 C C5B SND . . . D 3 -10.013 5.112 26.838 1 72.44 ? C5B SND 500 A 1 HETATM 6 C C4B SND . . . D 3 -11.287 5.496 26.123 1 73.1 ? C4B SND 500 A 1 HETATM 7 O O4B SND . . . D 3 -12.07 6.289 27.051 1 75.13 ? O4B SND 500 A 1 HETATM 8 C C3B SND . . . D 3 -11.178 6.428 24.89 1 74.26 ? C3B SND 500 A 1 HETATM 9 O O3B SND . . . D 3 -11.56 5.899 23.645 1 72.31 ? O3B SND 500 A 1 HETATM 10 C C2B SND . . . D 3 -11.975 7.658 25.309 1 75.31 ? C2B SND 500 A 1 HETATM 11 O O2B SND . . . D 3 -12.467 8.455 24.259 1 75.89 ? O2B SND 500 A 1 HETATM 12 C C1B SND . . . D 3 -12.992 6.985 26.222 1 75.82 ? C1B SND 500 A 1 HETATM 13 N N9A SND . . . D 3 -13.785 7.851 27.145 1 76.34 ? N9A SND 500 A 1 HETATM 14 C C8A SND . . . D 3 -13.334 8.782 28.065 1 77.48 ? C8A SND 500 A 1 HETATM 15 N N7A SND . . . D 3 -14.319 9.39 28.75 1 78.35 ? N7A SND 500 A 1 HETATM 16 C C5A SND . . . D 3 -15.464 8.819 28.242 1 77.77 ? C5A SND 500 A 1 HETATM 17 C C6A SND . . . D 3 -16.86 9.01 28.532 1 77.16 ? C6A SND 500 A 1 HETATM 18 N N6A SND . . . D 3 -17.319 9.868 29.442 1 77.54 ? N6A SND 500 A 1 HETATM 19 N N1A SND . . . D 3 -17.794 8.236 27.804 1 77.34 ? N1A SND 500 A 1 HETATM 20 C C2A SND . . . D 3 -17.349 7.32 26.839 1 76.96 ? C2A SND 500 A 1 HETATM 21 N N3A SND . . . D 3 -16.075 7.088 26.517 1 77.15 ? N3A SND 500 A 1 HETATM 22 C C4A SND . . . D 3 -15.162 7.862 27.245 1 77.06 ? C4A SND 500 A 1 HETATM 23 O O3 SND . . . D 3 -7.082 6.245 25.463 1 73.94 ? O3 SND 500 A 1 HETATM 24 P PN SND . . . D 3 -6.458 5.296 24.441 1 76.22 ? PN SND 500 A 1 HETATM 25 O O1N SND . . . D 3 -7.317 4.096 24.265 1 76.86 ? O1N SND 500 A 1 HETATM 26 O O2N SND . . . D 3 -5.124 4.868 24.922 1 76.1 ? O2N SND 500 A 1 HETATM 27 O O5D SND . . . D 3 -6.319 6.029 23.147 1 81.06 ? O5D SND 500 A 1 HETATM 28 C C5D SND . . . D 3 -7.33 6.369 22.257 1 85.13 ? C5D SND 500 A 1 HETATM 29 C C4D SND . . . D 3 -7.194 6.991 21.148 1 89.78 ? C4D SND 500 A 1 HETATM 30 O O4D SND . . . D 3 -5.853 7.578 21.157 1 91.7 ? O4D SND 500 A 1 HETATM 31 C C3D SND . . . D 3 -7.268 5.94 20.028 1 92.16 ? C3D SND 500 A 1 HETATM 32 O O3D SND . . . D 3 -8.167 6.413 19.016 1 93.17 ? O3D SND 500 A 1 HETATM 33 C C2D SND . . . D 3 -5.802 5.78 19.574 1 93.64 ? C2D SND 500 A 1 HETATM 34 O O2D SND . . . D 3 -5.617 5.711 18.464 1 95.14 ? O2D SND 500 A 1 HETATM 35 C C1D SND . . . D 3 -5.047 6.994 20.104 1 94.29 ? C1D SND 500 A 1 HETATM 36 N N1N SND . . . D 3 -3.716 6.716 20.575 1 96.12 ? N1N SND 500 A 1 HETATM 37 C C2N SND . . . D 3 -2.665 7.299 19.848 1 96.81 ? C2N SND 500 A 1 HETATM 38 C C3N SND . . . D 3 -1.341 7.06 20.263 1 97.47 ? C3N SND 500 A 1 HETATM 39 C C7N SND . . . D 3 -0.01 7.597 19.613 1 98.11 ? C7N SND 500 A 1 HETATM 40 S S7N SND . . . D 3 -0.178 8.504 18.285 1 100.65 ? S7N SND 500 A 1 HETATM 41 N N7N SND . . . D 3 1.231 7.186 19.932 1 98.37 ? N7N SND 500 A 1 HETATM 42 C C4N SND . . . D 3 -1.05 6.22 21.43 1 97.33 ? C4N SND 500 A 1 HETATM 43 C C5N SND . . . D 3 -2.164 5.665 22.114 1 96.67 ? C5N SND 500 A 1 HETATM 44 C C6N SND . . . D 3 -3.504 5.849 21.774 1 96.58 ? C6N SND 500 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #