data_4JB1 # _model_server_result.job_id WtS8zj00PIV7WwWkfZ-wPQ _model_server_result.datetime_utc '2025-01-02 21:58:12' _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 4jb1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 4JB1 # _exptl.entry_id 4JB1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 120 _cell.entry_id 4JB1 _cell.length_a 88.71 _cell.length_b 88.71 _cell.length_c 100.22 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JB1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 NAP doub 341 n n PA O2A NAP sing 342 n n PA O5B NAP sing 343 n n PA O3 NAP sing 344 n n O2A HOA2 NAP sing 345 n n O5B C5B NAP sing 346 n n C5B C4B NAP sing 347 n n C5B H51A NAP sing 348 n n C5B H52A NAP sing 349 n n C4B O4B NAP sing 350 n n C4B C3B NAP sing 351 n n C4B H4B NAP sing 352 n n O4B C1B NAP sing 353 n n C3B O3B NAP sing 354 n n C3B C2B NAP sing 355 n n C3B H3B NAP sing 356 n n O3B HO3A NAP sing 357 n n C2B O2B NAP sing 358 n n C2B C1B NAP sing 359 n n C2B H2B NAP sing 360 n n O2B P2B NAP sing 361 n n C1B N9A NAP sing 362 n n C1B H1B NAP sing 363 n n N9A C8A NAP sing 364 n y N9A C4A NAP sing 365 n y C8A N7A NAP doub 366 n y C8A H8A NAP sing 367 n n N7A C5A NAP sing 368 n y C5A C6A NAP sing 369 n y C5A C4A NAP doub 370 n y C6A N6A NAP sing 371 n n C6A N1A NAP doub 372 n y N6A H61A NAP sing 373 n n N6A H62A NAP sing 374 n n N1A C2A NAP sing 375 n y C2A N3A NAP doub 376 n y C2A H2A NAP sing 377 n n N3A C4A NAP sing 378 n y O3 PN NAP sing 379 n n PN O1N NAP doub 380 n n PN O2N NAP sing 381 n n PN O5D NAP sing 382 n n O5D C5D NAP sing 383 n n C5D C4D NAP sing 384 n n C5D H51N NAP sing 385 n n C5D H52N NAP sing 386 n n C4D O4D NAP sing 387 n n C4D C3D NAP sing 388 n n C4D H4D NAP sing 389 n n O4D C1D NAP sing 390 n n C3D O3D NAP sing 391 n n C3D C2D NAP sing 392 n n C3D H3D NAP sing 393 n n O3D HO3N NAP sing 394 n n C2D O2D NAP sing 395 n n C2D C1D NAP sing 396 n n C2D H2D NAP sing 397 n n O2D HO2N NAP sing 398 n n C1D N1N NAP sing 399 n n C1D H1D NAP sing 400 n n N1N C2N NAP sing 401 n y N1N C6N NAP doub 402 n y C2N C3N NAP doub 403 n y C2N H2N NAP sing 404 n n C3N C7N NAP sing 405 n n C3N C4N NAP sing 406 n y C7N O7N NAP doub 407 n n C7N N7N NAP sing 408 n n N7N H71N NAP sing 409 n n N7N H72N NAP sing 410 n n C4N C5N NAP doub 411 n y C4N H4N NAP sing 412 n n C5N C6N NAP sing 413 n y C5N H5N NAP sing 414 n n C6N H6N NAP sing 415 n n P2B O1X NAP doub 416 n n P2B O2X NAP sing 417 n n P2B O3X NAP sing 418 n n O2X HOP2 NAP sing 419 n n O3X HOP3 NAP sing 420 n n # _atom_sites.entry_id 4JB1 _atom_sites.fract_transf_matrix[1][1] 0.011273 _atom_sites.fract_transf_matrix[1][2] 0.006508 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013017 _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] 0.009978 _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 B 2 FAD A 1 401 1 FAD FAD . C 3 NAP A 1 402 1 NAP NAP . D 4 GOL A 1 403 1 GOL GOL . E 4 GOL A 1 404 2 GOL GOL . F 4 GOL A 1 405 3 GOL GOL . G 4 GOL A 1 406 4 GOL GOL . H 4 GOL A 1 407 1 GOL GOL . I 4 GOL A 1 408 1 GOL GOL . J 5 HOH A 1 501 1 HOH HOH . J 5 HOH A 2 502 2 HOH HOH . J 5 HOH A 3 503 3 HOH HOH . J 5 HOH A 4 504 4 HOH HOH . J 5 HOH A 5 505 5 HOH HOH . J 5 HOH A 6 506 6 HOH HOH . J 5 HOH A 7 507 7 HOH HOH . J 5 HOH A 8 508 8 HOH HOH . J 5 HOH A 9 509 9 HOH HOH . J 5 HOH A 10 510 10 HOH HOH . J 5 HOH A 11 511 11 HOH HOH . J 5 HOH A 12 512 12 HOH HOH . J 5 HOH A 13 513 13 HOH HOH . J 5 HOH A 14 514 14 HOH HOH . J 5 HOH A 15 515 15 HOH HOH . J 5 HOH A 16 516 16 HOH HOH . J 5 HOH A 17 517 17 HOH HOH . J 5 HOH A 18 518 18 HOH HOH . J 5 HOH A 19 519 19 HOH HOH . J 5 HOH A 20 520 20 HOH HOH . J 5 HOH A 21 521 21 HOH HOH . J 5 HOH A 22 522 22 HOH HOH . J 5 HOH A 23 523 23 HOH HOH . J 5 HOH A 24 524 24 HOH HOH . J 5 HOH A 25 525 25 HOH HOH . J 5 HOH A 26 526 26 HOH HOH . J 5 HOH A 27 527 27 HOH HOH . J 5 HOH A 28 528 28 HOH HOH . J 5 HOH A 29 529 29 HOH HOH . J 5 HOH A 30 530 30 HOH HOH . J 5 HOH A 31 531 31 HOH HOH . J 5 HOH A 32 532 32 HOH HOH . J 5 HOH A 33 533 33 HOH HOH . J 5 HOH A 34 534 34 HOH HOH . J 5 HOH A 35 535 35 HOH HOH . J 5 HOH A 36 536 36 HOH HOH . J 5 HOH A 37 537 37 HOH HOH . J 5 HOH A 38 538 38 HOH HOH . J 5 HOH A 39 539 39 HOH HOH . J 5 HOH A 40 540 40 HOH HOH . J 5 HOH A 41 541 41 HOH HOH . J 5 HOH A 42 542 42 HOH HOH . J 5 HOH A 43 543 43 HOH HOH . J 5 HOH A 44 544 44 HOH HOH . J 5 HOH A 45 545 45 HOH HOH . J 5 HOH A 46 546 46 HOH HOH . J 5 HOH A 47 547 47 HOH HOH . J 5 HOH A 48 548 48 HOH HOH . J 5 HOH A 49 549 49 HOH HOH . J 5 HOH A 50 550 50 HOH HOH . J 5 HOH A 51 551 51 HOH HOH . J 5 HOH A 52 552 52 HOH HOH . J 5 HOH A 53 553 54 HOH HOH . J 5 HOH A 54 554 55 HOH HOH . J 5 HOH A 55 555 57 HOH HOH . J 5 HOH A 56 556 58 HOH HOH . J 5 HOH A 57 557 59 HOH HOH . J 5 HOH A 58 558 60 HOH HOH . J 5 HOH A 59 559 61 HOH HOH . J 5 HOH A 60 560 62 HOH HOH . J 5 HOH A 61 561 63 HOH HOH . J 5 HOH A 62 562 64 HOH HOH . J 5 HOH A 63 563 65 HOH HOH . J 5 HOH A 64 564 66 HOH HOH . J 5 HOH A 65 565 67 HOH HOH . J 5 HOH A 66 566 68 HOH HOH . J 5 HOH A 67 567 70 HOH HOH . J 5 HOH A 68 568 71 HOH HOH . J 5 HOH A 69 569 72 HOH HOH . J 5 HOH A 70 570 73 HOH HOH . J 5 HOH A 71 571 74 HOH HOH . J 5 HOH A 72 572 75 HOH HOH . J 5 HOH A 73 573 76 HOH HOH . J 5 HOH A 74 574 77 HOH HOH . J 5 HOH A 75 575 78 HOH HOH . J 5 HOH A 76 576 79 HOH HOH . J 5 HOH A 77 577 80 HOH HOH . J 5 HOH A 78 578 81 HOH HOH . J 5 HOH A 79 579 82 HOH HOH . J 5 HOH A 80 580 83 HOH HOH . J 5 HOH A 81 581 84 HOH HOH . J 5 HOH A 82 582 85 HOH HOH . J 5 HOH A 83 583 86 HOH HOH . J 5 HOH A 84 584 87 HOH HOH . J 5 HOH A 85 585 88 HOH HOH . J 5 HOH A 86 586 89 HOH HOH . J 5 HOH A 87 587 90 HOH HOH . J 5 HOH A 88 588 91 HOH HOH . J 5 HOH A 89 589 92 HOH HOH . J 5 HOH A 90 590 93 HOH HOH . J 5 HOH A 91 591 94 HOH HOH . J 5 HOH A 92 592 95 HOH HOH . J 5 HOH A 93 593 96 HOH HOH . J 5 HOH A 94 594 97 HOH HOH . J 5 HOH A 95 595 98 HOH HOH . J 5 HOH A 96 596 100 HOH HOH . J 5 HOH A 97 597 101 HOH HOH . J 5 HOH A 98 598 102 HOH HOH . J 5 HOH A 99 599 103 HOH HOH . J 5 HOH A 100 600 104 HOH HOH . J 5 HOH A 101 601 105 HOH HOH . J 5 HOH A 102 602 106 HOH HOH . J 5 HOH A 103 603 107 HOH HOH . J 5 HOH A 104 604 108 HOH HOH . J 5 HOH A 105 605 109 HOH HOH . J 5 HOH A 106 606 110 HOH HOH . J 5 HOH A 107 607 111 HOH HOH . J 5 HOH A 108 608 112 HOH HOH . J 5 HOH A 109 609 113 HOH HOH . J 5 HOH A 110 610 114 HOH HOH . J 5 HOH A 111 611 115 HOH HOH . J 5 HOH A 112 612 116 HOH HOH . J 5 HOH A 113 613 117 HOH HOH . J 5 HOH A 114 614 118 HOH HOH . J 5 HOH A 115 615 119 HOH HOH . J 5 HOH A 116 616 121 HOH HOH . J 5 HOH A 117 617 122 HOH HOH . J 5 HOH A 118 618 123 HOH HOH . J 5 HOH A 119 619 124 HOH HOH . J 5 HOH A 120 620 125 HOH HOH . J 5 HOH A 121 621 128 HOH HOH . J 5 HOH A 122 622 129 HOH HOH . J 5 HOH A 123 623 130 HOH HOH . J 5 HOH A 124 624 131 HOH HOH . J 5 HOH A 125 625 132 HOH HOH . J 5 HOH A 126 626 133 HOH HOH . J 5 HOH A 127 627 134 HOH HOH . J 5 HOH A 128 628 136 HOH HOH . J 5 HOH A 129 629 137 HOH HOH . J 5 HOH A 130 630 138 HOH HOH . J 5 HOH A 131 631 139 HOH HOH . J 5 HOH A 132 632 140 HOH HOH . J 5 HOH A 133 633 141 HOH HOH . J 5 HOH A 134 634 143 HOH HOH . J 5 HOH A 135 635 144 HOH HOH . J 5 HOH A 136 636 148 HOH HOH . J 5 HOH A 137 637 149 HOH HOH . J 5 HOH A 138 638 150 HOH HOH . J 5 HOH A 139 639 151 HOH HOH . J 5 HOH A 140 640 152 HOH HOH . J 5 HOH A 141 641 154 HOH HOH . J 5 HOH A 142 642 156 HOH HOH . J 5 HOH A 143 643 157 HOH HOH . J 5 HOH A 144 644 161 HOH HOH . J 5 HOH A 145 645 162 HOH HOH . J 5 HOH A 146 646 163 HOH HOH . J 5 HOH A 147 647 164 HOH HOH . J 5 HOH A 148 648 167 HOH HOH . J 5 HOH A 149 649 170 HOH HOH . J 5 HOH A 150 650 172 HOH HOH . J 5 HOH A 151 651 173 HOH HOH . J 5 HOH A 152 652 174 HOH HOH . J 5 HOH A 153 653 175 HOH HOH . J 5 HOH A 154 654 176 HOH HOH . J 5 HOH A 155 655 177 HOH HOH . J 5 HOH A 156 656 178 HOH HOH . J 5 HOH A 157 657 179 HOH HOH . J 5 HOH A 158 658 180 HOH HOH . J 5 HOH A 159 659 181 HOH HOH . J 5 HOH A 160 660 182 HOH HOH . J 5 HOH A 161 661 183 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 NAP . . . C 3 29.13 -42.307 -25.519 1 35.49 ? PA NAP 402 A 1 HETATM 2 O O1A NAP . . . C 3 28.218 -43.508 -25.59 1 38.77 ? O1A NAP 402 A 1 HETATM 3 O O2A NAP . . . C 3 29.378 -41.46 -26.707 1 36.8 ? O2A NAP 402 A 1 HETATM 4 O O5B NAP . . . C 3 30.559 -42.852 -25.144 1 32.46 ? O5B NAP 402 A 1 HETATM 5 C C5B NAP . . . C 3 30.561 -43.754 -24.029 1 34.38 ? C5B NAP 402 A 1 HETATM 6 C C4B NAP . . . C 3 31.914 -43.802 -23.384 1 33.28 ? C4B NAP 402 A 1 HETATM 7 O O4B NAP . . . C 3 32.871 -44.017 -24.378 1 35.52 ? O4B NAP 402 A 1 HETATM 8 C C3B NAP . . . C 3 32.291 -42.454 -22.731 1 32.87 ? C3B NAP 402 A 1 HETATM 9 O O3B NAP . . . C 3 33.084 -42.909 -21.64 1 33.33 ? O3B NAP 402 A 1 HETATM 10 C C2B NAP . . . C 3 33.103 -41.668 -23.764 1 31.09 ? C2B NAP 402 A 1 HETATM 11 O O2B NAP . . . C 3 34.145 -40.811 -23.173 1 27.51 ? O2B NAP 402 A 1 HETATM 12 C C1B NAP . . . C 3 33.72 -42.855 -24.537 1 31.59 ? C1B NAP 402 A 1 HETATM 13 N N9A NAP . . . C 3 33.977 -42.712 -25.986 1 34.98 ? N9A NAP 402 A 1 HETATM 14 C C8A NAP . . . C 3 33.16 -42.964 -27.049 1 32.18 ? C8A NAP 402 A 1 HETATM 15 N N7A NAP . . . C 3 33.801 -42.715 -28.235 1 30.87 ? N7A NAP 402 A 1 HETATM 16 C C5A NAP . . . C 3 35.023 -42.285 -27.923 1 29.01 ? C5A NAP 402 A 1 HETATM 17 C C6A NAP . . . C 3 36.173 -41.917 -28.707 1 31.95 ? C6A NAP 402 A 1 HETATM 18 N N6A NAP . . . C 3 36.045 -41.949 -30.07 1 29.63 ? N6A NAP 402 A 1 HETATM 19 N N1A NAP . . . C 3 37.251 -41.517 -28.012 1 29.28 ? N1A NAP 402 A 1 HETATM 20 C C2A NAP . . . C 3 37.294 -41.54 -26.669 1 31.17 ? C2A NAP 402 A 1 HETATM 21 N N3A NAP . . . C 3 36.262 -41.929 -25.888 1 25.79 ? N3A NAP 402 A 1 HETATM 22 C C4A NAP . . . C 3 35.15 -42.272 -26.467 1 31.27 ? C4A NAP 402 A 1 HETATM 23 O O3 NAP . . . C 3 28.744 -41.592 -24.157 1 32.39 ? O3 NAP 402 A 1 HETATM 24 P PN NAP . . . C 3 27.571 -40.569 -23.928 1 28.61 ? PN NAP 402 A 1 HETATM 25 O O1N NAP . . . C 3 26.783 -41.02 -25.081 1 31.77 ? O1N NAP 402 A 1 HETATM 26 O O2N NAP . . . C 3 27.176 -40.565 -22.485 1 33.4 ? O2N NAP 402 A 1 HETATM 27 O O5D NAP . . . C 3 28.079 -39.002 -24.069 1 29.05 ? O5D NAP 402 A 1 HETATM 28 C C5D NAP . . . C 3 28.484 -38.42 -25.326 1 28.84 ? C5D NAP 402 A 1 HETATM 29 C C4D NAP . . . C 3 29.549 -37.319 -25.121 1 25.97 ? C4D NAP 402 A 1 HETATM 30 O O4D NAP . . . C 3 28.972 -36.283 -24.355 1 24.23 ? O4D NAP 402 A 1 HETATM 31 C C3D NAP . . . C 3 30.703 -37.842 -24.34 1 23.28 ? C3D NAP 402 A 1 HETATM 32 O O3D NAP . . . C 3 31.843 -37.24 -24.868 1 21.62 ? O3D NAP 402 A 1 HETATM 33 C C2D NAP . . . C 3 30.342 -37.501 -22.895 1 23 ? C2D NAP 402 A 1 HETATM 34 O O2D NAP . . . C 3 31.436 -37.081 -22.083 1 22.99 ? O2D NAP 402 A 1 HETATM 35 C C1D NAP . . . C 3 29.448 -36.336 -23.045 1 23.48 ? C1D NAP 402 A 1 HETATM 36 N N1N NAP . . . C 3 28.314 -36.208 -22.155 1 26.73 ? N1N NAP 402 A 1 HETATM 37 C C2N NAP . . . C 3 28.603 -35.795 -20.95 1 26.13 ? C2N NAP 402 A 1 HETATM 38 C C3N NAP . . . C 3 27.644 -35.518 -20.02 1 31.91 ? C3N NAP 402 A 1 HETATM 39 C C7N NAP . . . C 3 28.1 -35.06 -18.672 1 31.45 ? C7N NAP 402 A 1 HETATM 40 O O7N NAP . . . C 3 27.216 -34.662 -17.964 1 30.54 ? O7N NAP 402 A 1 HETATM 41 N N7N NAP . . . C 3 29.405 -35.104 -18.288 1 31.09 ? N7N NAP 402 A 1 HETATM 42 C C4N NAP . . . C 3 26.302 -35.683 -20.357 1 32.32 ? C4N NAP 402 A 1 HETATM 43 C C5N NAP . . . C 3 26.011 -36.111 -21.655 1 32.51 ? C5N NAP 402 A 1 HETATM 44 C C6N NAP . . . C 3 27.033 -36.371 -22.561 1 32.7 ? C6N NAP 402 A 1 HETATM 45 P P2B NAP . . . C 3 34.011 -39.256 -22.891 1 29.76 ? P2B NAP 402 A 1 HETATM 46 O O1X NAP . . . C 3 32.886 -39.124 -21.897 1 22.62 ? O1X NAP 402 A 1 HETATM 47 O O2X NAP . . . C 3 35.417 -38.998 -22.288 1 29.15 ? O2X NAP 402 A 1 HETATM 48 O O3X NAP . . . C 3 33.657 -38.568 -24.241 1 23.94 ? O3X NAP 402 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 484 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 48 #