data_9IT3 # _model_server_result.job_id YxSKgKlBg42wgBSMx4kT6w _model_server_result.datetime_utc '2025-01-10 12:39:43' _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 9it3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":603}' # _entry.id 9IT3 # _exptl.entry_id 9IT3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 9IT3 _cell.length_a 115.624 _cell.length_b 115.624 _cell.length_c 113.27 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9IT3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _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 _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 H N N # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-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 NAD doub 288 n n PA O2A NAD sing 289 n n PA O5B NAD sing 290 n n PA O3 NAD sing 291 n n O2A HOA2 NAD sing 292 n n O5B C5B NAD sing 293 n n C5B C4B NAD sing 294 n n C5B H51A NAD sing 295 n n C5B H52A NAD sing 296 n n C4B O4B NAD sing 297 n n C4B C3B NAD sing 298 n n C4B H4B NAD sing 299 n n O4B C1B NAD sing 300 n n C3B O3B NAD sing 301 n n C3B C2B NAD sing 302 n n C3B H3B NAD sing 303 n n O3B HO3A NAD sing 304 n n C2B O2B NAD sing 305 n n C2B C1B NAD sing 306 n n C2B H2B NAD sing 307 n n O2B HO2A NAD sing 308 n n C1B N9A NAD sing 309 n n C1B H1B NAD sing 310 n n N9A C8A NAD sing 311 n y N9A C4A NAD sing 312 n y C8A N7A NAD doub 313 n y C8A H8A NAD sing 314 n n N7A C5A NAD sing 315 n y C5A C6A NAD sing 316 n y C5A C4A NAD doub 317 n y C6A N6A NAD sing 318 n n C6A N1A NAD doub 319 n y N6A H61A NAD sing 320 n n N6A H62A NAD sing 321 n n N1A C2A NAD sing 322 n y C2A N3A NAD doub 323 n y C2A H2A NAD sing 324 n n N3A C4A NAD sing 325 n y O3 PN NAD sing 326 n n PN O1N NAD doub 327 n n PN O2N NAD sing 328 n n PN O5D NAD sing 329 n n O5D C5D NAD sing 330 n n C5D C4D NAD sing 331 n n C5D H51N NAD sing 332 n n C5D H52N NAD sing 333 n n C4D O4D NAD sing 334 n n C4D C3D NAD sing 335 n n C4D H4D NAD sing 336 n n O4D C1D NAD sing 337 n n C3D O3D NAD sing 338 n n C3D C2D NAD sing 339 n n C3D H3D NAD sing 340 n n O3D HO3N NAD sing 341 n n C2D O2D NAD sing 342 n n C2D C1D NAD sing 343 n n C2D H2D NAD sing 344 n n O2D HO2N NAD sing 345 n n C1D N1N NAD sing 346 n n C1D H1D NAD sing 347 n n N1N C2N NAD sing 348 n y N1N C6N NAD doub 349 n y C2N C3N NAD doub 350 n y C2N H2N NAD sing 351 n n C3N C7N NAD sing 352 n n C3N C4N NAD sing 353 n y C7N O7N NAD doub 354 n n C7N N7N NAD sing 355 n n N7N H71N NAD sing 356 n n N7N H72N NAD sing 357 n n C4N C5N NAD doub 358 n y C4N H4N NAD sing 359 n n C5N C6N NAD sing 360 n y C5N H5N NAD sing 361 n n C6N H6N NAD sing 362 n n # _atom_sites.entry_id 9IT3 _atom_sites.fract_transf_matrix[1][1] 0.008649 _atom_sites.fract_transf_matrix[1][2] 0.004993 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009987 _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] 0.008828 _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 A1L23 A 1 401 401 A1L23 LIG . D 3 NAD A 1 402 701 NAD NAD . E 4 PO4 A 1 403 601 PO4 PO4 . F 4 PO4 B 1 601 601 PO4 PO4 . G 2 A1L23 B 1 602 401 A1L23 LIG . H 3 NAD B 1 603 701 NAD NAD . I 5 HOH A 1 501 22 HOH HOH . I 5 HOH A 2 502 77 HOH HOH . I 5 HOH A 3 503 31 HOH HOH . I 5 HOH A 4 504 51 HOH HOH . I 5 HOH A 5 505 72 HOH HOH . I 5 HOH A 6 506 110 HOH HOH . I 5 HOH A 7 507 35 HOH HOH . I 5 HOH A 8 508 9 HOH HOH . I 5 HOH A 9 509 82 HOH HOH . I 5 HOH A 10 510 49 HOH HOH . I 5 HOH A 11 511 6 HOH HOH . I 5 HOH A 12 512 12 HOH HOH . I 5 HOH A 13 513 56 HOH HOH . I 5 HOH A 14 514 52 HOH HOH . I 5 HOH A 15 515 74 HOH HOH . I 5 HOH A 16 516 100 HOH HOH . I 5 HOH A 17 517 10 HOH HOH . I 5 HOH A 18 518 15 HOH HOH . I 5 HOH A 19 519 42 HOH HOH . I 5 HOH A 20 520 93 HOH HOH . I 5 HOH A 21 521 25 HOH HOH . I 5 HOH A 22 522 8 HOH HOH . I 5 HOH A 23 523 66 HOH HOH . I 5 HOH A 24 524 115 HOH HOH . I 5 HOH A 25 525 3 HOH HOH . I 5 HOH A 26 526 45 HOH HOH . I 5 HOH A 27 527 4 HOH HOH . I 5 HOH A 28 528 69 HOH HOH . I 5 HOH A 29 529 36 HOH HOH . I 5 HOH A 30 530 38 HOH HOH . I 5 HOH A 31 531 48 HOH HOH . I 5 HOH A 32 532 34 HOH HOH . I 5 HOH A 33 533 59 HOH HOH . I 5 HOH A 34 534 84 HOH HOH . I 5 HOH A 35 535 40 HOH HOH . I 5 HOH A 36 536 2 HOH HOH . I 5 HOH A 37 537 26 HOH HOH . I 5 HOH A 38 538 55 HOH HOH . I 5 HOH A 39 539 97 HOH HOH . I 5 HOH A 40 540 54 HOH HOH . I 5 HOH A 41 541 19 HOH HOH . I 5 HOH A 42 542 67 HOH HOH . I 5 HOH A 43 543 101 HOH HOH . I 5 HOH A 44 544 44 HOH HOH . I 5 HOH A 45 545 33 HOH HOH . I 5 HOH A 46 546 76 HOH HOH . I 5 HOH A 47 547 57 HOH HOH . I 5 HOH A 48 548 27 HOH HOH . I 5 HOH A 49 549 99 HOH HOH . I 5 HOH A 50 550 92 HOH HOH . I 5 HOH A 51 551 60 HOH HOH . I 5 HOH A 52 552 102 HOH HOH . I 5 HOH A 53 553 81 HOH HOH . I 5 HOH A 54 554 108 HOH HOH . I 5 HOH A 55 555 114 HOH HOH . I 5 HOH A 56 556 109 HOH HOH . I 5 HOH A 57 557 95 HOH HOH . I 5 HOH A 58 558 106 HOH HOH . I 5 HOH A 59 559 70 HOH HOH . I 5 HOH A 60 560 58 HOH HOH . I 5 HOH A 61 561 111 HOH HOH . I 5 HOH A 62 562 75 HOH HOH . I 5 HOH A 63 563 90 HOH HOH . I 5 HOH A 64 564 47 HOH HOH . I 5 HOH A 65 565 96 HOH HOH . I 5 HOH A 66 566 94 HOH HOH . I 5 HOH A 67 567 86 HOH HOH . I 5 HOH A 68 568 68 HOH HOH . I 5 HOH A 69 569 107 HOH HOH . J 5 HOH B 1 701 71 HOH HOH . J 5 HOH B 2 702 83 HOH HOH . J 5 HOH B 3 703 62 HOH HOH . J 5 HOH B 4 704 104 HOH HOH . J 5 HOH B 5 705 98 HOH HOH . J 5 HOH B 6 706 13 HOH HOH . J 5 HOH B 7 707 20 HOH HOH . J 5 HOH B 8 708 117 HOH HOH . J 5 HOH B 9 709 30 HOH HOH . J 5 HOH B 10 710 53 HOH HOH . J 5 HOH B 11 711 80 HOH HOH . J 5 HOH B 12 712 7 HOH HOH . J 5 HOH B 13 713 5 HOH HOH . J 5 HOH B 14 714 65 HOH HOH . J 5 HOH B 15 715 17 HOH HOH . J 5 HOH B 16 716 16 HOH HOH . J 5 HOH B 17 717 14 HOH HOH . J 5 HOH B 18 718 1 HOH HOH . J 5 HOH B 19 719 41 HOH HOH . J 5 HOH B 20 720 32 HOH HOH . J 5 HOH B 21 721 23 HOH HOH . J 5 HOH B 22 722 28 HOH HOH . J 5 HOH B 23 723 29 HOH HOH . J 5 HOH B 24 724 88 HOH HOH . J 5 HOH B 25 725 43 HOH HOH . J 5 HOH B 26 726 21 HOH HOH . J 5 HOH B 27 727 18 HOH HOH . J 5 HOH B 28 728 89 HOH HOH . J 5 HOH B 29 729 46 HOH HOH . J 5 HOH B 30 730 63 HOH HOH . J 5 HOH B 31 731 24 HOH HOH . J 5 HOH B 32 732 11 HOH HOH . J 5 HOH B 33 733 39 HOH HOH . J 5 HOH B 34 734 78 HOH HOH . J 5 HOH B 35 735 50 HOH HOH . J 5 HOH B 36 736 113 HOH HOH . J 5 HOH B 37 737 85 HOH HOH . J 5 HOH B 38 738 64 HOH HOH . J 5 HOH B 39 739 87 HOH HOH . J 5 HOH B 40 740 37 HOH HOH . J 5 HOH B 41 741 116 HOH HOH . J 5 HOH B 42 742 91 HOH HOH . J 5 HOH B 43 743 103 HOH HOH . J 5 HOH B 44 744 79 HOH HOH . J 5 HOH B 45 745 118 HOH HOH . J 5 HOH B 46 746 61 HOH HOH . J 5 HOH B 47 747 112 HOH HOH . J 5 HOH B 48 748 105 HOH HOH . J 5 HOH B 49 749 73 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 NAD . . . H 3 16.658 -42.352 11.544 0.66 62.67 ? PA NAD 603 B 1 HETATM 2 O O1A NAD . . . H 3 15.335 -42.439 12.233 0.66 67.94 -1 O1A NAD 603 B 1 HETATM 3 O O2A NAD . . . H 3 17.786 -43.26 11.887 0.66 64.09 ? O2A NAD 603 B 1 HETATM 4 O O5B NAD . . . H 3 17.22 -40.82 11.688 0.66 62.54 ? O5B NAD 603 B 1 HETATM 5 C C5B NAD . . . H 3 16.846 -39.803 10.787 0.66 57.06 ? C5B NAD 603 B 1 HETATM 6 C C4B NAD . . . H 3 17.7 -38.579 11.086 0.66 56.53 ? C4B NAD 603 B 1 HETATM 7 O O4B NAD . . . H 3 16.871 -37.406 11.147 0.66 56.13 ? O4B NAD 603 B 1 HETATM 8 C C3B NAD . . . H 3 18.461 -38.64 12.415 0.66 54.35 ? C3B NAD 603 B 1 HETATM 9 O O3B NAD . . . H 3 19.824 -38.465 12.12 0.66 49.02 ? O3B NAD 603 B 1 HETATM 10 C C2B NAD . . . H 3 17.883 -37.453 13.198 0.66 55.07 ? C2B NAD 603 B 1 HETATM 11 O O2B NAD . . . H 3 18.784 -36.88 14.105 0.66 49.95 ? O2B NAD 603 B 1 HETATM 12 C C1B NAD . . . H 3 17.428 -36.519 12.067 0.66 53.36 ? C1B NAD 603 B 1 HETATM 13 N N9A NAD . . . H 3 16.466 -35.548 12.519 0.66 55.48 ? N9A NAD 603 B 1 HETATM 14 C C8A NAD . . . H 3 15.405 -35.807 13.341 0.66 57.28 ? C8A NAD 603 B 1 HETATM 15 N N7A NAD . . . H 3 14.701 -34.753 13.617 0.66 58.72 ? N7A NAD 603 B 1 HETATM 16 C C5A NAD . . . H 3 15.326 -33.729 12.953 0.66 55.46 ? C5A NAD 603 B 1 HETATM 17 C C6A NAD . . . H 3 15.057 -32.351 12.86 0.66 55.52 ? C6A NAD 603 B 1 HETATM 18 N N6A NAD . . . H 3 14.023 -31.775 13.474 0.66 58.01 ? N6A NAD 603 B 1 HETATM 19 N N1A NAD . . . H 3 15.874 -31.599 12.121 0.66 54.35 ? N1A NAD 603 B 1 HETATM 20 C C2A NAD . . . H 3 16.903 -32.183 11.515 0.66 53.44 ? C2A NAD 603 B 1 HETATM 21 N N3A NAD . . . H 3 17.253 -33.46 11.53 0.66 52.77 ? N3A NAD 603 B 1 HETATM 22 C C4A NAD . . . H 3 16.431 -34.198 12.266 0.66 53.6 ? C4A NAD 603 B 1 HETATM 23 O O3 NAD . . . H 3 16.288 -42.436 9.932 0.66 65.53 ? O3 NAD 603 B 1 HETATM 24 P PN NAD . . . H 3 16.988 -43.32 8.738 0.66 76.03 ? PN NAD 603 B 1 HETATM 25 O O1N NAD . . . H 3 15.944 -44.189 8.079 0.66 72.84 -1 O1N NAD 603 B 1 HETATM 26 O O2N NAD . . . H 3 18.287 -43.949 9.152 0.66 70.27 ? O2N NAD 603 B 1 HETATM 27 O O5D NAD . . . H 3 17.251 -42.079 7.702 0.66 63.51 ? O5D NAD 603 B 1 HETATM 28 C C5D NAD . . . H 3 16.845 -42.155 6.355 0.66 66.32 ? C5D NAD 603 B 1 HETATM 29 C C4D NAD . . . H 3 15.45 -41.613 6.141 0.66 67.13 ? C4D NAD 603 B 1 HETATM 30 O O4D NAD . . . H 3 15.359 -41.256 4.758 0.66 64.99 ? O4D NAD 603 B 1 HETATM 31 C C3D NAD . . . H 3 14.287 -42.579 6.427 0.66 70.07 ? C3D NAD 603 B 1 HETATM 32 O O3D NAD . . . H 3 13.454 -42.015 7.411 0.66 69.03 ? O3D NAD 603 B 1 HETATM 33 C C2D NAD . . . H 3 13.53 -42.709 5.096 0.66 69.61 ? C2D NAD 603 B 1 HETATM 34 O O2D NAD . . . H 3 12.301 -42.04 5.083 0.66 72.27 ? O2D NAD 603 B 1 HETATM 35 C C1D NAD . . . H 3 14.492 -42.088 4.077 0.66 67.47 ? C1D NAD 603 B 1 HETATM 36 N N1N NAD . . . H 3 15.239 -43.076 3.23 0.66 63.22 ? N1N NAD 603 B 1 HETATM 37 C C2N NAD . . . H 3 15.953 -44.1 3.732 0.66 61.04 ? C2N NAD 603 B 1 HETATM 38 C C3N NAD . . . H 3 16.627 -44.96 2.883 0.66 59.41 ? C3N NAD 603 B 1 HETATM 39 C C7N NAD . . . H 3 17.445 -46.135 3.349 0.66 57.48 ? C7N NAD 603 B 1 HETATM 40 O O7N NAD . . . H 3 18.027 -46.766 2.479 0.66 56.09 ? O7N NAD 603 B 1 HETATM 41 N N7N NAD . . . H 3 17.471 -46.398 4.656 0.66 58.62 ? N7N NAD 603 B 1 HETATM 42 C C4N NAD . . . H 3 16.567 -44.753 1.506 0.66 58.85 ? C4N NAD 603 B 1 HETATM 43 C C5N NAD . . . H 3 15.835 -43.688 1.004 0.66 62.34 ? C5N NAD 603 B 1 HETATM 44 C C6N NAD . . . H 3 15.18 -42.876 1.902 0.66 63.93 ? C6N NAD 603 B 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 863 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 44 #