data_1BO4 # _model_server_result.job_id tRvMCgJO91ljXl830mclnw _model_server_result.datetime_utc '2024-10-10 05:15:46' _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 1bo4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":200}' # _entry.id 1BO4 # _exptl.entry_id 1BO4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 145.246 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SPERMIDINE _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 93.73 _cell.angle_gamma 90 _cell.entry_id 1BO4 _cell.length_a 78.54 _cell.length_b 102.26 _cell.length_c 50.14 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BO4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C7 H19 N3' _chem_comp.formula_weight 145.246 _chem_comp.id SPD _chem_comp.mon_nstd_flag . _chem_comp.name SPERMIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE;PA(34) # 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 N1 C2 SPD sing 376 n n N1 HN11 SPD sing 377 n n N1 HN12 SPD sing 378 n n C2 C3 SPD sing 379 n n C2 H21 SPD sing 380 n n C2 H22 SPD sing 381 n n C3 C4 SPD sing 382 n n C3 H31 SPD sing 383 n n C3 H32 SPD sing 384 n n C4 C5 SPD sing 385 n n C4 H41 SPD sing 386 n n C4 H42 SPD sing 387 n n C5 N6 SPD sing 388 n n C5 H51 SPD sing 389 n n C5 H52 SPD sing 390 n n N6 C7 SPD sing 391 n n N6 HN6 SPD sing 392 n n C7 C8 SPD sing 393 n n C7 H71 SPD sing 394 n n C7 H72 SPD sing 395 n n C8 C9 SPD sing 396 n n C8 H81 SPD sing 397 n n C8 H82 SPD sing 398 n n C9 N10 SPD sing 399 n n C9 H91 SPD sing 400 n n C9 H92 SPD sing 401 n n N10 H101 SPD sing 402 n n N10 H102 SPD sing 403 n n # _atom_sites.entry_id 1BO4 _atom_sites.fract_transf_matrix[1][1] 0.012732 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00083 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009779 _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] 0.019986 _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 SPD A 1 200 200 SPD SPD . D 3 COA A 1 300 300 COA COA . E 3 COA B 1 301 300 COA COA . F 4 HOH A 1 400 400 HOH HOH . F 4 HOH A 2 404 404 HOH HOH . F 4 HOH A 3 405 405 HOH HOH . F 4 HOH A 4 406 406 HOH HOH . F 4 HOH A 5 408 408 HOH HOH . F 4 HOH A 6 409 409 HOH HOH . F 4 HOH A 7 411 411 HOH HOH . F 4 HOH A 8 413 413 HOH HOH . F 4 HOH A 9 415 415 HOH HOH . F 4 HOH A 10 418 418 HOH HOH . F 4 HOH A 11 419 419 HOH HOH . F 4 HOH A 12 421 421 HOH HOH . F 4 HOH A 13 422 422 HOH HOH . F 4 HOH A 14 423 423 HOH HOH . F 4 HOH A 15 425 425 HOH HOH . F 4 HOH A 16 427 427 HOH HOH . F 4 HOH A 17 428 428 HOH HOH . F 4 HOH A 18 429 429 HOH HOH . F 4 HOH A 19 430 430 HOH HOH . F 4 HOH A 20 431 431 HOH HOH . F 4 HOH A 21 432 432 HOH HOH . F 4 HOH A 22 434 434 HOH HOH . F 4 HOH A 23 435 435 HOH HOH . F 4 HOH A 24 437 437 HOH HOH . F 4 HOH A 25 439 439 HOH HOH . F 4 HOH A 26 443 443 HOH HOH . F 4 HOH A 27 445 445 HOH HOH . F 4 HOH A 28 446 446 HOH HOH . F 4 HOH A 29 448 448 HOH HOH . F 4 HOH A 30 451 451 HOH HOH . F 4 HOH A 31 453 453 HOH HOH . F 4 HOH A 32 455 455 HOH HOH . F 4 HOH A 33 456 456 HOH HOH . F 4 HOH A 34 459 459 HOH HOH . F 4 HOH A 35 460 460 HOH HOH . F 4 HOH A 36 461 461 HOH HOH . F 4 HOH A 37 464 464 HOH HOH . F 4 HOH A 38 465 465 HOH HOH . F 4 HOH A 39 466 466 HOH HOH . F 4 HOH A 40 467 467 HOH HOH . F 4 HOH A 41 470 470 HOH HOH . F 4 HOH A 42 472 472 HOH HOH . F 4 HOH A 43 475 475 HOH HOH . F 4 HOH A 44 479 479 HOH HOH . F 4 HOH A 45 480 480 HOH HOH . F 4 HOH A 46 484 484 HOH HOH . F 4 HOH A 47 485 485 HOH HOH . F 4 HOH A 48 488 488 HOH HOH . F 4 HOH A 49 489 489 HOH HOH . F 4 HOH A 50 490 490 HOH HOH . F 4 HOH A 51 493 493 HOH HOH . F 4 HOH A 52 495 495 HOH HOH . F 4 HOH A 53 496 496 HOH HOH . F 4 HOH A 54 497 497 HOH HOH . F 4 HOH A 55 498 498 HOH HOH . F 4 HOH A 56 500 500 HOH HOH . F 4 HOH A 57 501 501 HOH HOH . F 4 HOH A 58 505 505 HOH HOH . F 4 HOH A 59 507 507 HOH HOH . F 4 HOH A 60 508 508 HOH HOH . F 4 HOH A 61 510 510 HOH HOH . F 4 HOH A 62 511 511 HOH HOH . F 4 HOH A 63 513 513 HOH HOH . F 4 HOH A 64 517 517 HOH HOH . F 4 HOH A 65 518 518 HOH HOH . F 4 HOH A 66 519 519 HOH HOH . F 4 HOH A 67 521 521 HOH HOH . F 4 HOH A 68 522 522 HOH HOH . F 4 HOH A 69 523 523 HOH HOH . F 4 HOH A 70 525 525 HOH HOH . F 4 HOH A 71 527 527 HOH HOH . F 4 HOH A 72 528 528 HOH HOH . F 4 HOH A 73 529 529 HOH HOH . F 4 HOH A 74 531 531 HOH HOH . F 4 HOH A 75 532 532 HOH HOH . F 4 HOH A 76 534 534 HOH HOH . F 4 HOH A 77 535 535 HOH HOH . F 4 HOH A 78 538 538 HOH HOH . F 4 HOH A 79 543 543 HOH HOH . F 4 HOH A 80 545 545 HOH HOH . F 4 HOH A 81 548 548 HOH HOH . F 4 HOH A 82 549 549 HOH HOH . F 4 HOH A 83 550 550 HOH HOH . F 4 HOH A 84 552 552 HOH HOH . F 4 HOH A 85 553 553 HOH HOH . F 4 HOH A 86 554 554 HOH HOH . F 4 HOH A 87 555 555 HOH HOH . F 4 HOH A 88 557 557 HOH HOH . F 4 HOH A 89 558 558 HOH HOH . F 4 HOH A 90 559 559 HOH HOH . F 4 HOH A 91 563 563 HOH HOH . F 4 HOH A 92 564 564 HOH HOH . F 4 HOH A 93 565 565 HOH HOH . F 4 HOH A 94 566 566 HOH HOH . F 4 HOH A 95 568 568 HOH HOH . F 4 HOH A 96 570 570 HOH HOH . F 4 HOH A 97 571 571 HOH HOH . F 4 HOH A 98 572 572 HOH HOH . F 4 HOH A 99 574 574 HOH HOH . F 4 HOH A 100 577 577 HOH HOH . F 4 HOH A 101 583 583 HOH HOH . F 4 HOH A 102 586 586 HOH HOH . F 4 HOH A 103 590 590 HOH HOH . F 4 HOH A 104 591 591 HOH HOH . F 4 HOH A 105 593 593 HOH HOH . F 4 HOH A 106 595 595 HOH HOH . F 4 HOH A 107 596 596 HOH HOH . F 4 HOH A 108 598 598 HOH HOH . F 4 HOH A 109 601 601 HOH HOH . F 4 HOH A 110 602 602 HOH HOH . F 4 HOH A 111 606 606 HOH HOH . F 4 HOH A 112 607 607 HOH HOH . F 4 HOH A 113 609 609 HOH HOH . F 4 HOH A 114 612 612 HOH HOH . F 4 HOH A 115 613 613 HOH HOH . F 4 HOH A 116 614 614 HOH HOH . F 4 HOH A 117 615 615 HOH HOH . F 4 HOH A 118 618 618 HOH HOH . F 4 HOH A 119 621 621 HOH HOH . F 4 HOH A 120 623 623 HOH HOH . F 4 HOH A 121 626 626 HOH HOH . F 4 HOH A 122 627 627 HOH HOH . F 4 HOH A 123 628 628 HOH HOH . F 4 HOH A 124 629 629 HOH HOH . F 4 HOH A 125 630 630 HOH HOH . F 4 HOH A 126 633 633 HOH HOH . F 4 HOH A 127 635 635 HOH HOH . F 4 HOH A 128 637 637 HOH HOH . F 4 HOH A 129 638 638 HOH HOH . F 4 HOH A 130 641 641 HOH HOH . F 4 HOH A 131 645 645 HOH HOH . F 4 HOH A 132 651 651 HOH HOH . F 4 HOH A 133 652 652 HOH HOH . G 4 HOH B 1 401 401 HOH HOH . G 4 HOH B 2 402 402 HOH HOH . G 4 HOH B 3 403 403 HOH HOH . G 4 HOH B 4 407 407 HOH HOH . G 4 HOH B 5 410 410 HOH HOH . G 4 HOH B 6 412 412 HOH HOH . G 4 HOH B 7 414 414 HOH HOH . G 4 HOH B 8 416 416 HOH HOH . G 4 HOH B 9 417 417 HOH HOH . G 4 HOH B 10 420 420 HOH HOH . G 4 HOH B 11 424 424 HOH HOH . G 4 HOH B 12 426 426 HOH HOH . G 4 HOH B 13 433 433 HOH HOH . G 4 HOH B 14 436 436 HOH HOH . G 4 HOH B 15 438 438 HOH HOH . G 4 HOH B 16 440 440 HOH HOH . G 4 HOH B 17 441 441 HOH HOH . G 4 HOH B 18 442 442 HOH HOH . G 4 HOH B 19 444 444 HOH HOH . G 4 HOH B 20 447 447 HOH HOH . G 4 HOH B 21 449 449 HOH HOH . G 4 HOH B 22 450 450 HOH HOH . G 4 HOH B 23 452 452 HOH HOH . G 4 HOH B 24 454 454 HOH HOH . G 4 HOH B 25 457 457 HOH HOH . G 4 HOH B 26 458 458 HOH HOH . G 4 HOH B 27 462 462 HOH HOH . G 4 HOH B 28 463 463 HOH HOH . G 4 HOH B 29 468 468 HOH HOH . G 4 HOH B 30 469 469 HOH HOH . G 4 HOH B 31 471 471 HOH HOH . G 4 HOH B 32 473 473 HOH HOH . G 4 HOH B 33 474 474 HOH HOH . G 4 HOH B 34 476 476 HOH HOH . G 4 HOH B 35 477 477 HOH HOH . G 4 HOH B 36 478 478 HOH HOH . G 4 HOH B 37 481 481 HOH HOH . G 4 HOH B 38 482 482 HOH HOH . G 4 HOH B 39 483 483 HOH HOH . G 4 HOH B 40 486 486 HOH HOH . G 4 HOH B 41 487 487 HOH HOH . G 4 HOH B 42 491 491 HOH HOH . G 4 HOH B 43 492 492 HOH HOH . G 4 HOH B 44 494 494 HOH HOH . G 4 HOH B 45 499 499 HOH HOH . G 4 HOH B 46 502 502 HOH HOH . G 4 HOH B 47 503 503 HOH HOH . G 4 HOH B 48 504 504 HOH HOH . G 4 HOH B 49 506 506 HOH HOH . G 4 HOH B 50 509 509 HOH HOH . G 4 HOH B 51 512 512 HOH HOH . G 4 HOH B 52 514 514 HOH HOH . G 4 HOH B 53 515 515 HOH HOH . G 4 HOH B 54 516 516 HOH HOH . G 4 HOH B 55 520 520 HOH HOH . G 4 HOH B 56 524 524 HOH HOH . G 4 HOH B 57 526 526 HOH HOH . G 4 HOH B 58 530 530 HOH HOH . G 4 HOH B 59 533 533 HOH HOH . G 4 HOH B 60 536 536 HOH HOH . G 4 HOH B 61 537 537 HOH HOH . G 4 HOH B 62 539 539 HOH HOH . G 4 HOH B 63 540 540 HOH HOH . G 4 HOH B 64 541 541 HOH HOH . G 4 HOH B 65 542 542 HOH HOH . G 4 HOH B 66 544 544 HOH HOH . G 4 HOH B 67 546 546 HOH HOH . G 4 HOH B 68 547 547 HOH HOH . G 4 HOH B 69 551 551 HOH HOH . G 4 HOH B 70 556 556 HOH HOH . G 4 HOH B 71 560 560 HOH HOH . G 4 HOH B 72 561 561 HOH HOH . G 4 HOH B 73 562 562 HOH HOH . G 4 HOH B 74 567 567 HOH HOH . G 4 HOH B 75 569 569 HOH HOH . G 4 HOH B 76 573 573 HOH HOH . G 4 HOH B 77 575 575 HOH HOH . G 4 HOH B 78 576 576 HOH HOH . G 4 HOH B 79 578 578 HOH HOH . G 4 HOH B 80 579 579 HOH HOH . G 4 HOH B 81 580 580 HOH HOH . G 4 HOH B 82 581 581 HOH HOH . G 4 HOH B 83 582 582 HOH HOH . G 4 HOH B 84 584 584 HOH HOH . G 4 HOH B 85 585 585 HOH HOH . G 4 HOH B 86 587 587 HOH HOH . G 4 HOH B 87 588 588 HOH HOH . G 4 HOH B 88 589 589 HOH HOH . G 4 HOH B 89 592 592 HOH HOH . G 4 HOH B 90 594 594 HOH HOH . G 4 HOH B 91 597 597 HOH HOH . G 4 HOH B 92 599 599 HOH HOH . G 4 HOH B 93 600 600 HOH HOH . G 4 HOH B 94 603 603 HOH HOH . G 4 HOH B 95 604 604 HOH HOH . G 4 HOH B 96 605 605 HOH HOH . G 4 HOH B 97 608 608 HOH HOH . G 4 HOH B 98 610 610 HOH HOH . G 4 HOH B 99 611 611 HOH HOH . G 4 HOH B 100 616 616 HOH HOH . G 4 HOH B 101 617 617 HOH HOH . G 4 HOH B 102 619 619 HOH HOH . G 4 HOH B 103 620 620 HOH HOH . G 4 HOH B 104 622 622 HOH HOH . G 4 HOH B 105 624 624 HOH HOH . G 4 HOH B 106 625 625 HOH HOH . G 4 HOH B 107 631 631 HOH HOH . G 4 HOH B 108 632 632 HOH HOH . G 4 HOH B 109 634 634 HOH HOH . G 4 HOH B 110 636 636 HOH HOH . G 4 HOH B 111 639 639 HOH HOH . G 4 HOH B 112 640 640 HOH HOH . G 4 HOH B 113 642 642 HOH HOH . G 4 HOH B 114 643 643 HOH HOH . G 4 HOH B 115 644 644 HOH HOH . G 4 HOH B 116 646 646 HOH HOH . G 4 HOH B 117 647 647 HOH HOH . G 4 HOH B 118 648 648 HOH HOH . G 4 HOH B 119 649 649 HOH HOH . G 4 HOH B 120 650 650 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 N N1 SPD . . . C 2 5.009 72.005 29.465 1 57.75 ? N1 SPD 200 A 1 HETATM 2 C C2 SPD . . . C 2 5.572 70.88 30.295 1 57.2 ? C2 SPD 200 A 1 HETATM 3 C C3 SPD . . . C 2 5.732 71.408 31.75 1 56.64 ? C3 SPD 200 A 1 HETATM 4 C C4 SPD . . . C 2 6.029 70.182 32.582 1 57.2 ? C4 SPD 200 A 1 HETATM 5 C C5 SPD . . . C 2 7.371 70.192 33.209 1 56.56 ? C5 SPD 200 A 1 HETATM 6 N N6 SPD . . . C 2 8.267 69.42 32.393 1 57.25 ? N6 SPD 200 A 1 HETATM 7 C C7 SPD . . . C 2 9.622 69.198 32.662 1 57.34 ? C7 SPD 200 A 1 HETATM 8 C C8 SPD . . . C 2 9.86 67.79 33.12 1 57.17 ? C8 SPD 200 A 1 HETATM 9 C C9 SPD . . . C 2 11.27 67.542 33.419 1 57.01 ? C9 SPD 200 A 1 HETATM 10 N N10 SPD . . . C 2 12.179 67.884 32.253 1 57.55 ? N10 SPD 200 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 10 #