data_4YZL # _model_server_result.job_id dPe6YRsQzH7ic_YGNtsZRw _model_server_result.datetime_utc '2025-03-02 22:25:49' _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 4yzl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4YZL # _exptl.entry_id 4YZL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 301.383 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,5S)-5-(hydroxymethyl)-1-methyl-2-(propan-2-yl)-1,2,4,5,6,8-hexahydro-3H-[1,4]diazonino[7,6,5-cd]indol-3-one _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 4YZL _cell.length_a 42.38 _cell.length_b 74.1 _cell.length_c 112.16 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YZL _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C17 H23 N3 O2' _chem_comp.formula_weight 301.383 _chem_comp.id ILV _chem_comp.mon_nstd_flag . _chem_comp.name (2S,5S)-5-(hydroxymethyl)-1-methyl-2-(propan-2-yl)-1,2,4,5,6,8-hexahydro-3H-[1,4]diazonino[7,6,5-cd]indol-3-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Indolactam V' # 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 NAG CAH ILV sing 198 n y NAG CAD ILV sing 199 n y CAC CAD ILV doub 200 n y CAC CAB ILV sing 201 n y CG2 CB ILV sing 202 n n CAH CAI ILV doub 203 n y CAD CAE ILV sing 204 n y CAB CAA ILV doub 205 n y CAI CAE ILV sing 206 n y CAI CAJ ILV sing 207 n n CAE CAF ILV doub 208 n y CG1 CB ILV sing 209 n n CAA CAF ILV sing 210 n y CB CA ILV sing 211 n n CAF N ILV sing 212 n n CAJ CAQ ILV sing 213 n n CA N ILV sing 214 n n CA C ILV sing 215 n n N CAL ILV sing 216 n n CAQ NAO ILV sing 217 n n CAQ CAS ILV sing 218 n n C NAO ILV sing 219 n n C O ILV doub 220 n n CAS OAV ILV sing 221 n n CG2 H1 ILV sing 222 n n CG2 H2 ILV sing 223 n n CG2 H3 ILV sing 224 n n CB H4 ILV sing 225 n n CG1 H5 ILV sing 226 n n CG1 H6 ILV sing 227 n n CG1 H7 ILV sing 228 n n CA H8 ILV sing 229 n n NAO H9 ILV sing 230 n n CAQ H10 ILV sing 231 n n CAS H11 ILV sing 232 n n CAS H12 ILV sing 233 n n OAV H13 ILV sing 234 n n CAJ H14 ILV sing 235 n n CAJ H15 ILV sing 236 n n CAH H16 ILV sing 237 n n NAG H17 ILV sing 238 n n CAC H18 ILV sing 239 n n CAB H19 ILV sing 240 n n CAA H20 ILV sing 241 n n CAL H21 ILV sing 242 n n CAL H22 ILV sing 243 n n CAL H23 ILV sing 244 n n # _atom_sites.entry_id 4YZL _atom_sites.fract_transf_matrix[1][1] 0.023596 _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] 0.013495 _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] 0.008916 _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 ILV A 1 401 1 ILV ILV . C 3 DST A 1 402 1 DST DST . D 4 HOH A 1 501 98 HOH HOH . D 4 HOH A 2 502 119 HOH HOH . D 4 HOH A 3 503 12 HOH HOH . D 4 HOH A 4 504 141 HOH HOH . D 4 HOH A 5 505 93 HOH HOH . D 4 HOH A 6 506 51 HOH HOH . D 4 HOH A 7 507 40 HOH HOH . D 4 HOH A 8 508 118 HOH HOH . D 4 HOH A 9 509 44 HOH HOH . D 4 HOH A 10 510 61 HOH HOH . D 4 HOH A 11 511 45 HOH HOH . D 4 HOH A 12 512 53 HOH HOH . D 4 HOH A 13 513 39 HOH HOH . D 4 HOH A 14 514 101 HOH HOH . D 4 HOH A 15 515 163 HOH HOH . D 4 HOH A 16 516 4 HOH HOH . D 4 HOH A 17 517 19 HOH HOH . D 4 HOH A 18 518 66 HOH HOH . D 4 HOH A 19 519 17 HOH HOH . D 4 HOH A 20 520 31 HOH HOH . D 4 HOH A 21 521 7 HOH HOH . D 4 HOH A 22 522 8 HOH HOH . D 4 HOH A 23 523 145 HOH HOH . D 4 HOH A 24 524 171 HOH HOH . D 4 HOH A 25 525 128 HOH HOH . D 4 HOH A 26 526 178 HOH HOH . D 4 HOH A 27 527 75 HOH HOH . D 4 HOH A 28 528 154 HOH HOH . D 4 HOH A 29 529 22 HOH HOH . D 4 HOH A 30 530 85 HOH HOH . D 4 HOH A 31 531 26 HOH HOH . D 4 HOH A 32 532 59 HOH HOH . D 4 HOH A 33 533 65 HOH HOH . D 4 HOH A 34 534 68 HOH HOH . D 4 HOH A 35 535 108 HOH HOH . D 4 HOH A 36 536 74 HOH HOH . D 4 HOH A 37 537 62 HOH HOH . D 4 HOH A 38 538 37 HOH HOH . D 4 HOH A 39 539 102 HOH HOH . D 4 HOH A 40 540 153 HOH HOH . D 4 HOH A 41 541 21 HOH HOH . D 4 HOH A 42 542 52 HOH HOH . D 4 HOH A 43 543 46 HOH HOH . D 4 HOH A 44 544 20 HOH HOH . D 4 HOH A 45 545 135 HOH HOH . D 4 HOH A 46 546 1 HOH HOH . D 4 HOH A 47 547 2 HOH HOH . D 4 HOH A 48 548 67 HOH HOH . D 4 HOH A 49 549 24 HOH HOH . D 4 HOH A 50 550 5 HOH HOH . D 4 HOH A 51 551 161 HOH HOH . D 4 HOH A 52 552 47 HOH HOH . D 4 HOH A 53 553 109 HOH HOH . D 4 HOH A 54 554 54 HOH HOH . D 4 HOH A 55 555 121 HOH HOH . D 4 HOH A 56 556 110 HOH HOH . D 4 HOH A 57 557 3 HOH HOH . D 4 HOH A 58 558 90 HOH HOH . D 4 HOH A 59 559 188 HOH HOH . D 4 HOH A 60 560 58 HOH HOH . D 4 HOH A 61 561 43 HOH HOH . D 4 HOH A 62 562 81 HOH HOH . D 4 HOH A 63 563 55 HOH HOH . D 4 HOH A 64 564 13 HOH HOH . D 4 HOH A 65 565 123 HOH HOH . D 4 HOH A 66 566 140 HOH HOH . D 4 HOH A 67 567 166 HOH HOH . D 4 HOH A 68 568 41 HOH HOH . D 4 HOH A 69 569 165 HOH HOH . D 4 HOH A 70 570 106 HOH HOH . D 4 HOH A 71 571 92 HOH HOH . D 4 HOH A 72 572 137 HOH HOH . D 4 HOH A 73 573 32 HOH HOH . D 4 HOH A 74 574 91 HOH HOH . D 4 HOH A 75 575 60 HOH HOH . D 4 HOH A 76 576 86 HOH HOH . D 4 HOH A 77 577 6 HOH HOH . D 4 HOH A 78 578 72 HOH HOH . D 4 HOH A 79 579 76 HOH HOH . D 4 HOH A 80 580 38 HOH HOH . D 4 HOH A 81 581 30 HOH HOH . D 4 HOH A 82 582 84 HOH HOH . D 4 HOH A 83 583 79 HOH HOH . D 4 HOH A 84 584 49 HOH HOH . D 4 HOH A 85 585 64 HOH HOH . D 4 HOH A 86 586 126 HOH HOH . D 4 HOH A 87 587 18 HOH HOH . D 4 HOH A 88 588 29 HOH HOH . D 4 HOH A 89 589 122 HOH HOH . D 4 HOH A 90 590 125 HOH HOH . D 4 HOH A 91 591 180 HOH HOH . D 4 HOH A 92 592 116 HOH HOH . D 4 HOH A 93 593 16 HOH HOH . D 4 HOH A 94 594 96 HOH HOH . D 4 HOH A 95 595 150 HOH HOH . D 4 HOH A 96 596 69 HOH HOH . D 4 HOH A 97 597 95 HOH HOH . D 4 HOH A 98 598 11 HOH HOH . D 4 HOH A 99 599 173 HOH HOH . D 4 HOH A 100 600 97 HOH HOH . D 4 HOH A 101 601 100 HOH HOH . D 4 HOH A 102 602 149 HOH HOH . D 4 HOH A 103 603 88 HOH HOH . D 4 HOH A 104 604 48 HOH HOH . D 4 HOH A 105 605 78 HOH HOH . D 4 HOH A 106 606 184 HOH HOH . D 4 HOH A 107 607 35 HOH HOH . D 4 HOH A 108 608 143 HOH HOH . D 4 HOH A 109 609 113 HOH HOH . D 4 HOH A 110 610 27 HOH HOH . D 4 HOH A 111 611 9 HOH HOH . D 4 HOH A 112 612 177 HOH HOH . D 4 HOH A 113 613 117 HOH HOH . D 4 HOH A 114 614 133 HOH HOH . D 4 HOH A 115 615 115 HOH HOH . D 4 HOH A 116 616 107 HOH HOH . D 4 HOH A 117 617 71 HOH HOH . D 4 HOH A 118 618 160 HOH HOH . D 4 HOH A 119 619 94 HOH HOH . D 4 HOH A 120 620 28 HOH HOH . D 4 HOH A 121 621 34 HOH HOH . D 4 HOH A 122 622 130 HOH HOH . D 4 HOH A 123 623 162 HOH HOH . D 4 HOH A 124 624 146 HOH HOH . D 4 HOH A 125 625 33 HOH HOH . D 4 HOH A 126 626 156 HOH HOH . D 4 HOH A 127 627 175 HOH HOH . D 4 HOH A 128 628 132 HOH HOH . D 4 HOH A 129 629 168 HOH HOH . D 4 HOH A 130 630 82 HOH HOH . D 4 HOH A 131 631 103 HOH HOH . D 4 HOH A 132 632 174 HOH HOH . D 4 HOH A 133 633 151 HOH HOH . D 4 HOH A 134 634 148 HOH HOH . D 4 HOH A 135 635 158 HOH HOH . D 4 HOH A 136 636 112 HOH HOH . D 4 HOH A 137 637 138 HOH HOH . D 4 HOH A 138 638 14 HOH HOH . D 4 HOH A 139 639 187 HOH HOH . D 4 HOH A 140 640 144 HOH HOH . D 4 HOH A 141 641 83 HOH HOH . D 4 HOH A 142 642 170 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 C CG2 ILV . . . B 2 11.661 80.338 18.323 1 18.42 ? CG2 ILV 401 A 1 HETATM 2 C CB ILV . . . B 2 10.185 80.777 18.288 1 20.87 ? CB ILV 401 A 1 HETATM 3 C CG1 ILV . . . B 2 9.43 79.968 19.35 1 22.28 ? CG1 ILV 401 A 1 HETATM 4 C CA ILV . . . B 2 9.624 80.482 16.876 1 22.13 ? CA ILV 401 A 1 HETATM 5 C C ILV . . . B 2 8.26 80.77 16.716 1 21.65 ? C ILV 401 A 1 HETATM 6 O O ILV . . . B 2 7.691 81.578 17.439 1 24.09 ? O ILV 401 A 1 HETATM 7 N NAO ILV . . . B 2 7.522 80.165 15.675 1 21.88 ? NAO ILV 401 A 1 HETATM 8 C CAQ ILV . . . B 2 8.064 79.226 14.623 1 23.41 ? CAQ ILV 401 A 1 HETATM 9 C CAS ILV . . . B 2 6.891 78.686 13.774 1 24.37 ? CAS ILV 401 A 1 HETATM 10 O OAV ILV . . . B 2 6.012 79.777 13.389 1 25.39 ? OAV ILV 401 A 1 HETATM 11 C CAJ ILV . . . B 2 8.99 78.065 15.124 1 21.07 ? CAJ ILV 401 A 1 HETATM 12 C CAI ILV . . . B 2 10.251 78.095 14.482 1 24.56 ? CAI ILV 401 A 1 HETATM 13 C CAE ILV . . . B 2 11.201 79.108 14.45 1 20.84 ? CAE ILV 401 A 1 HETATM 14 C CAH ILV . . . B 2 10.741 77.07 13.771 1 20.98 ? CAH ILV 401 A 1 HETATM 15 N NAG ILV . . . B 2 11.931 77.396 13.296 1 19.75 ? NAG ILV 401 A 1 HETATM 16 C CAD ILV . . . B 2 12.223 78.638 13.688 1 20.83 ? CAD ILV 401 A 1 HETATM 17 C CAC ILV . . . B 2 13.325 79.36 13.407 1 22.01 ? CAC ILV 401 A 1 HETATM 18 C CAB ILV . . . B 2 13.475 80.647 13.911 1 17.98 ? CAB ILV 401 A 1 HETATM 19 C CAA ILV . . . B 2 12.431 81.147 14.68 1 17.88 ? CAA ILV 401 A 1 HETATM 20 C CAF ILV . . . B 2 11.27 80.396 14.96 1 22.24 ? CAF ILV 401 A 1 HETATM 21 N N ILV . . . B 2 10.42 81.097 15.78 1 23.04 ? N ILV 401 A 1 HETATM 22 C CAL ILV . . . B 2 10.499 82.576 15.857 1 17.36 ? CAL ILV 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 22 #