data_1GIN # _model_server_result.job_id wfFVA5Yy0sKMONm-MeoImw _model_server_result.datetime_utc '2024-12-01 18:08:14' _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 1gin # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":438}' # _entry.id 1GIN # _exptl.entry_id 1GIN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 119.076 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description HADACIDIN _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 1GIN _cell.length_a 81.42 _cell.length_b 81.42 _cell.length_c 158.71 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GIN _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 'crystal symmetry operation' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 105.806667 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD1 ASP 13 A ASP 13 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc2 A O GLY 40 A GLY 40 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc3 F O2B GDP . A GDP 432 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc4 F O2A GDP . A GDP 432 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc5 C O2 NO3 . A NO3 433 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc6 C O3 NO3 . A NO3 433 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.085 ? metalc ? metalc7 C N NO3 . A NO3 433 1_555 B MG MG . A MG 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.999 ? metalc ? metalc8 B MG MG . A MG 435 1_555 D O HDA . A HDA 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? # _chem_comp.formula 'C3 H5 N O4' _chem_comp.formula_weight 119.076 _chem_comp.id HDA _chem_comp.mon_nstd_flag . _chem_comp.name HADACIDIN _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 NA C HDA sing 174 n n NA OB HDA sing 175 n n NA CB HDA sing 176 n n C O HDA doub 177 n n C HC HDA sing 178 n n OB HOB HDA sing 179 n n CB CG HDA sing 180 n n CB HB1 HDA sing 181 n n CB HB2 HDA sing 182 n n CG OD1 HDA doub 183 n n CG OD2 HDA sing 184 n n OD2 HOD HDA sing 185 n n # _atom_sites.entry_id 1GIN _atom_sites.fract_transf_matrix[1][1] 0.012282 _atom_sites.fract_transf_matrix[1][2] 0.007091 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014182 _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] 0.006301 _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 MG A 1 435 435 MG MG . C 3 NO3 A 1 433 433 NO3 NO3 . D 4 HDA A 1 438 438 HDA HDA . E 5 IMP A 1 440 440 IMP IMP . F 6 GDP A 1 432 432 GDP GDP . G 7 HOH A 1 441 441 HOH HOH . G 7 HOH A 2 442 442 HOH HOH . G 7 HOH A 3 443 443 HOH HOH . G 7 HOH A 4 444 444 HOH HOH . G 7 HOH A 5 445 445 HOH HOH . G 7 HOH A 6 446 446 HOH HOH . G 7 HOH A 7 447 447 HOH HOH . G 7 HOH A 8 448 448 HOH HOH . G 7 HOH A 9 449 449 HOH HOH . G 7 HOH A 10 450 450 HOH HOH . G 7 HOH A 11 451 451 HOH HOH . G 7 HOH A 12 452 452 HOH HOH . G 7 HOH A 13 453 453 HOH HOH . G 7 HOH A 14 454 454 HOH HOH . G 7 HOH A 15 455 455 HOH HOH . G 7 HOH A 16 456 456 HOH HOH . G 7 HOH A 17 457 457 HOH HOH . G 7 HOH A 18 458 458 HOH HOH . G 7 HOH A 19 459 459 HOH HOH . G 7 HOH A 20 460 460 HOH HOH . G 7 HOH A 21 461 461 HOH HOH . G 7 HOH A 22 462 462 HOH HOH . G 7 HOH A 23 463 463 HOH HOH . G 7 HOH A 24 464 464 HOH HOH . G 7 HOH A 25 465 465 HOH HOH . G 7 HOH A 26 466 466 HOH HOH . G 7 HOH A 27 467 467 HOH HOH . G 7 HOH A 28 468 468 HOH HOH . G 7 HOH A 29 469 469 HOH HOH . G 7 HOH A 30 470 470 HOH HOH . G 7 HOH A 31 471 471 HOH HOH . G 7 HOH A 32 472 472 HOH HOH . G 7 HOH A 33 473 473 HOH HOH . G 7 HOH A 34 474 474 HOH HOH . G 7 HOH A 35 475 475 HOH HOH . G 7 HOH A 36 476 476 HOH HOH . G 7 HOH A 37 477 477 HOH HOH . G 7 HOH A 38 478 478 HOH HOH . G 7 HOH A 39 479 479 HOH HOH . G 7 HOH A 40 480 480 HOH HOH . G 7 HOH A 41 481 481 HOH HOH . G 7 HOH A 42 482 482 HOH HOH . G 7 HOH A 43 483 483 HOH HOH . G 7 HOH A 44 484 484 HOH HOH . G 7 HOH A 45 485 485 HOH HOH . G 7 HOH A 46 486 486 HOH HOH . G 7 HOH A 47 487 487 HOH HOH . G 7 HOH A 48 488 488 HOH HOH . G 7 HOH A 49 489 489 HOH HOH . G 7 HOH A 50 490 490 HOH HOH . G 7 HOH A 51 491 491 HOH HOH . G 7 HOH A 52 492 492 HOH HOH . G 7 HOH A 53 493 493 HOH HOH . G 7 HOH A 54 494 494 HOH HOH . G 7 HOH A 55 495 495 HOH HOH . G 7 HOH A 56 496 496 HOH HOH . G 7 HOH A 57 497 497 HOH HOH . G 7 HOH A 58 498 498 HOH HOH . G 7 HOH A 59 499 499 HOH HOH . G 7 HOH A 60 500 500 HOH HOH . G 7 HOH A 61 501 501 HOH HOH . G 7 HOH A 62 502 502 HOH HOH . G 7 HOH A 63 503 503 HOH HOH . G 7 HOH A 64 504 504 HOH HOH . G 7 HOH A 65 505 505 HOH HOH . G 7 HOH A 66 506 506 HOH HOH . G 7 HOH A 67 507 507 HOH HOH . G 7 HOH A 68 508 508 HOH HOH . G 7 HOH A 69 509 509 HOH HOH . G 7 HOH A 70 510 510 HOH HOH . G 7 HOH A 71 511 511 HOH HOH . G 7 HOH A 72 512 512 HOH HOH . G 7 HOH A 73 513 513 HOH HOH . G 7 HOH A 74 514 514 HOH HOH . G 7 HOH A 75 515 515 HOH HOH . G 7 HOH A 76 516 516 HOH HOH . G 7 HOH A 77 517 517 HOH HOH . G 7 HOH A 78 518 518 HOH HOH . G 7 HOH A 79 519 519 HOH HOH . G 7 HOH A 80 520 520 HOH HOH . G 7 HOH A 81 521 521 HOH HOH . G 7 HOH A 82 522 522 HOH HOH . G 7 HOH A 83 523 523 HOH HOH . G 7 HOH A 84 524 524 HOH HOH . G 7 HOH A 85 525 525 HOH HOH . G 7 HOH A 86 526 526 HOH HOH . G 7 HOH A 87 527 527 HOH HOH . G 7 HOH A 88 528 528 HOH HOH . G 7 HOH A 89 529 529 HOH HOH . G 7 HOH A 90 530 530 HOH HOH . G 7 HOH A 91 531 531 HOH HOH . G 7 HOH A 92 532 532 HOH HOH . G 7 HOH A 93 533 533 HOH HOH . G 7 HOH A 94 534 534 HOH HOH . G 7 HOH A 95 535 535 HOH HOH . G 7 HOH A 96 536 536 HOH HOH . G 7 HOH A 97 537 537 HOH HOH . G 7 HOH A 98 538 538 HOH HOH . G 7 HOH A 99 539 539 HOH HOH . G 7 HOH A 100 540 540 HOH HOH . G 7 HOH A 101 541 541 HOH HOH . G 7 HOH A 102 542 542 HOH HOH . G 7 HOH A 103 543 543 HOH HOH . G 7 HOH A 104 544 544 HOH HOH . G 7 HOH A 105 545 545 HOH HOH . G 7 HOH A 106 546 546 HOH HOH . G 7 HOH A 107 547 547 HOH HOH . G 7 HOH A 108 548 548 HOH HOH . G 7 HOH A 109 549 549 HOH HOH . G 7 HOH A 110 550 550 HOH HOH . G 7 HOH A 111 551 551 HOH HOH . G 7 HOH A 112 552 552 HOH HOH . G 7 HOH A 113 553 553 HOH HOH . G 7 HOH A 114 554 554 HOH HOH . G 7 HOH A 115 555 555 HOH HOH . G 7 HOH A 116 556 556 HOH HOH . G 7 HOH A 117 557 557 HOH HOH . G 7 HOH A 118 558 558 HOH HOH . G 7 HOH A 119 559 559 HOH HOH . G 7 HOH A 120 560 560 HOH HOH . G 7 HOH A 121 561 561 HOH HOH . G 7 HOH A 122 562 562 HOH HOH . G 7 HOH A 123 563 563 HOH HOH . G 7 HOH A 124 564 564 HOH HOH . G 7 HOH A 125 565 565 HOH HOH . G 7 HOH A 126 566 566 HOH HOH . G 7 HOH A 127 567 567 HOH HOH . G 7 HOH A 128 568 568 HOH HOH . G 7 HOH A 129 569 569 HOH HOH . G 7 HOH A 130 570 570 HOH HOH . G 7 HOH A 131 571 571 HOH HOH . G 7 HOH A 132 572 572 HOH HOH . G 7 HOH A 133 573 573 HOH HOH . G 7 HOH A 134 574 574 HOH HOH . G 7 HOH A 135 575 575 HOH HOH . G 7 HOH A 136 576 576 HOH HOH . G 7 HOH A 137 577 577 HOH HOH . G 7 HOH A 138 578 578 HOH HOH . G 7 HOH A 139 579 579 HOH HOH . G 7 HOH A 140 580 580 HOH HOH . G 7 HOH A 141 581 581 HOH HOH . G 7 HOH A 142 582 582 HOH HOH . G 7 HOH A 143 583 583 HOH HOH . G 7 HOH A 144 584 584 HOH HOH . G 7 HOH A 145 585 585 HOH HOH . G 7 HOH A 146 586 586 HOH HOH . G 7 HOH A 147 587 587 HOH HOH . G 7 HOH A 148 588 588 HOH HOH . G 7 HOH A 149 589 589 HOH HOH . G 7 HOH A 150 590 590 HOH HOH . G 7 HOH A 151 591 591 HOH HOH . G 7 HOH A 152 592 592 HOH HOH . G 7 HOH A 153 593 593 HOH HOH . G 7 HOH A 154 594 594 HOH HOH . G 7 HOH A 155 595 595 HOH HOH . G 7 HOH A 156 596 596 HOH HOH . G 7 HOH A 157 597 597 HOH HOH . G 7 HOH A 158 598 598 HOH HOH . G 7 HOH A 159 599 599 HOH HOH . G 7 HOH A 160 600 600 HOH HOH . G 7 HOH A 161 601 601 HOH HOH . G 7 HOH A 162 602 602 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 NA HDA . . . D 4 -7.522 54.304 46.511 1 34.29 ? NA HDA 438 A 1 HETATM 2 C C HDA . . . D 4 -7.545 53.192 45.627 1 33.73 ? C HDA 438 A 1 HETATM 3 O O HDA . . . D 4 -6.593 52.941 44.932 1 32.6 ? O HDA 438 A 1 HETATM 4 O OB HDA . . . D 4 -6.514 54.292 47.496 1 34.75 ? OB HDA 438 A 1 HETATM 5 C CB HDA . . . D 4 -8.824 54.8 47.016 1 34.93 ? CB HDA 438 A 1 HETATM 6 C CG HDA . . . D 4 -8.88 56.32 47.112 1 35.43 ? CG HDA 438 A 1 HETATM 7 O OD1 HDA . . . D 4 -8.267 57.018 46.265 1 33.89 ? OD1 HDA 438 A 1 HETATM 8 O OD2 HDA . . . D 4 -9.573 56.816 48.039 1 36.58 ? OD2 HDA 438 A 1 HETATM 9 H HOB HDA . . . D 4 -6.602 53.599 48.165 1 0 ? HOB HDA 438 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 9 #