data_8BGD # _model_server_result.job_id OHWTFRU5eewlVJzyBk35Iw _model_server_result.datetime_utc '2024-11-21 08:48:29' _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 8bgd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8BGD # _exptl.entry_id 8BGD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 448.513 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(phenylmethyl) N-[(2S)-4-methyl-1-[[(2S)-4-nitro-1-[(3R)-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-1-oxidanylidene-pentan-2-yl]carbamate' _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 8BGD _cell.length_a 44.721 _cell.length_b 62.661 _cell.length_c 106.128 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BGD _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 145 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 145 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C19 _struct_conn.ptnr2_label_comp_id QH0 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id QH0 _struct_conn.ptnr2_auth_seq_id 401 _struct_conn.ptnr2_symmetry 1_555 _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 1.822 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C22 H32 N4 O6' _chem_comp.formula_weight 448.513 _chem_comp.id QH0 _chem_comp.mon_nstd_flag . _chem_comp.name '(phenylmethyl) N-[(2S)-4-methyl-1-[[(2S)-4-nitro-1-[(3R)-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-1-oxidanylidene-pentan-2-yl]carbamate' _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 O22 N21 QH0 sing 277 n n O23 N21 QH0 doub 278 n n N21 C20 QH0 sing 279 n n C20 C19 QH0 sing 280 n n C19 C11 QH0 sing 281 n n C07 C06 QH0 sing 282 n n C11 N10 QH0 sing 283 n n C11 C12 QH0 sing 284 n n C05 C06 QH0 sing 285 n n C05 C04 QH0 sing 286 n n N10 C09 QH0 sing 287 n n C06 C08 QH0 sing 288 n n C09 O24 QH0 doub 289 n n C09 C04 QH0 sing 290 n n C12 C13 QH0 sing 291 n n C04 N03 QH0 sing 292 n n C13 C14 QH0 sing 293 n n C13 C17 QH0 sing 294 n n C14 C15 QH0 sing 295 n n N03 C02 QH0 sing 296 n n C17 O18 QH0 doub 297 n n C17 N16 QH0 sing 298 n n C15 N16 QH0 sing 299 n n C02 O01 QH0 doub 300 n n C02 O25 QH0 sing 301 n n C29 C28 QH0 doub 302 n y C29 C30 QH0 sing 303 n y C28 C27 QH0 sing 304 n y O25 C26 QH0 sing 305 n n C30 C31 QH0 doub 306 n y C27 C26 QH0 sing 307 n n C27 C32 QH0 doub 308 n y C31 C32 QH0 sing 309 n y C13 H1 QH0 sing 310 n n C15 H2 QH0 sing 311 n n C15 H3 QH0 sing 312 n n C20 H4 QH0 sing 313 n n C20 H5 QH0 sing 314 n n C26 H6 QH0 sing 315 n n C26 H7 QH0 sing 316 n n C28 H8 QH0 sing 317 n n N03 H9 QH0 sing 318 n n C04 H10 QH0 sing 319 n n C05 H11 QH0 sing 320 n n C05 H12 QH0 sing 321 n n C06 H13 QH0 sing 322 n n C07 H14 QH0 sing 323 n n C07 H15 QH0 sing 324 n n C07 H16 QH0 sing 325 n n C08 H17 QH0 sing 326 n n C08 H18 QH0 sing 327 n n C08 H19 QH0 sing 328 n n N10 H20 QH0 sing 329 n n C11 H21 QH0 sing 330 n n C12 H22 QH0 sing 331 n n C12 H23 QH0 sing 332 n n C14 H24 QH0 sing 333 n n C14 H25 QH0 sing 334 n n N16 H26 QH0 sing 335 n n C19 H27 QH0 sing 336 n n C19 H28 QH0 sing 337 n n C29 H29 QH0 sing 338 n n C30 H30 QH0 sing 339 n n C31 H31 QH0 sing 340 n n C32 H32 QH0 sing 341 n n # _atom_sites.entry_id 8BGD _atom_sites.fract_transf_matrix[1][1] 0.022361 _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] 0.015959 _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] 0.009423 _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 QH0 A 1 401 401 QH0 LIG . C 3 HOH A 1 501 100 HOH HOH . C 3 HOH A 2 502 169 HOH HOH . C 3 HOH A 3 503 123 HOH HOH . C 3 HOH A 4 504 160 HOH HOH . C 3 HOH A 5 505 106 HOH HOH . C 3 HOH A 6 506 164 HOH HOH . C 3 HOH A 7 507 46 HOH HOH . C 3 HOH A 8 508 125 HOH HOH . C 3 HOH A 9 509 127 HOH HOH . C 3 HOH A 10 510 121 HOH HOH . C 3 HOH A 11 511 93 HOH HOH . C 3 HOH A 12 512 26 HOH HOH . C 3 HOH A 13 513 107 HOH HOH . C 3 HOH A 14 514 166 HOH HOH . C 3 HOH A 15 515 27 HOH HOH . C 3 HOH A 16 516 139 HOH HOH . C 3 HOH A 17 517 114 HOH HOH . C 3 HOH A 18 518 132 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 124 HOH HOH . C 3 HOH A 21 521 31 HOH HOH . C 3 HOH A 22 522 62 HOH HOH . C 3 HOH A 23 523 102 HOH HOH . C 3 HOH A 24 524 131 HOH HOH . C 3 HOH A 25 525 5 HOH HOH . C 3 HOH A 26 526 70 HOH HOH . C 3 HOH A 27 527 60 HOH HOH . C 3 HOH A 28 528 145 HOH HOH . C 3 HOH A 29 529 29 HOH HOH . C 3 HOH A 30 530 10 HOH HOH . C 3 HOH A 31 531 80 HOH HOH . C 3 HOH A 32 532 15 HOH HOH . C 3 HOH A 33 533 129 HOH HOH . C 3 HOH A 34 534 110 HOH HOH . C 3 HOH A 35 535 56 HOH HOH . C 3 HOH A 36 536 146 HOH HOH . C 3 HOH A 37 537 49 HOH HOH . C 3 HOH A 38 538 18 HOH HOH . C 3 HOH A 39 539 82 HOH HOH . C 3 HOH A 40 540 71 HOH HOH . C 3 HOH A 41 541 3 HOH HOH . C 3 HOH A 42 542 111 HOH HOH . C 3 HOH A 43 543 171 HOH HOH . C 3 HOH A 44 544 154 HOH HOH . C 3 HOH A 45 545 98 HOH HOH . C 3 HOH A 46 546 96 HOH HOH . C 3 HOH A 47 547 20 HOH HOH . C 3 HOH A 48 548 167 HOH HOH . C 3 HOH A 49 549 147 HOH HOH . C 3 HOH A 50 550 64 HOH HOH . C 3 HOH A 51 551 32 HOH HOH . C 3 HOH A 52 552 157 HOH HOH . C 3 HOH A 53 553 99 HOH HOH . C 3 HOH A 54 554 170 HOH HOH . C 3 HOH A 55 555 35 HOH HOH . C 3 HOH A 56 556 117 HOH HOH . C 3 HOH A 57 557 73 HOH HOH . C 3 HOH A 58 558 4 HOH HOH . C 3 HOH A 59 559 112 HOH HOH . C 3 HOH A 60 560 33 HOH HOH . C 3 HOH A 61 561 105 HOH HOH . C 3 HOH A 62 562 92 HOH HOH . C 3 HOH A 63 563 38 HOH HOH . C 3 HOH A 64 564 141 HOH HOH . C 3 HOH A 65 565 51 HOH HOH . C 3 HOH A 66 566 34 HOH HOH . C 3 HOH A 67 567 52 HOH HOH . C 3 HOH A 68 568 1 HOH HOH . C 3 HOH A 69 569 150 HOH HOH . C 3 HOH A 70 570 118 HOH HOH . C 3 HOH A 71 571 14 HOH HOH . C 3 HOH A 72 572 7 HOH HOH . C 3 HOH A 73 573 104 HOH HOH . C 3 HOH A 74 574 84 HOH HOH . C 3 HOH A 75 575 159 HOH HOH . C 3 HOH A 76 576 75 HOH HOH . C 3 HOH A 77 577 149 HOH HOH . C 3 HOH A 78 578 134 HOH HOH . C 3 HOH A 79 579 135 HOH HOH . C 3 HOH A 80 580 81 HOH HOH . C 3 HOH A 81 581 54 HOH HOH . C 3 HOH A 82 582 55 HOH HOH . C 3 HOH A 83 583 23 HOH HOH . C 3 HOH A 84 584 90 HOH HOH . C 3 HOH A 85 585 67 HOH HOH . C 3 HOH A 86 586 76 HOH HOH . C 3 HOH A 87 587 8 HOH HOH . C 3 HOH A 88 588 21 HOH HOH . C 3 HOH A 89 589 95 HOH HOH . C 3 HOH A 90 590 44 HOH HOH . C 3 HOH A 91 591 41 HOH HOH . C 3 HOH A 92 592 151 HOH HOH . C 3 HOH A 93 593 88 HOH HOH . C 3 HOH A 94 594 9 HOH HOH . C 3 HOH A 95 595 45 HOH HOH . C 3 HOH A 96 596 161 HOH HOH . C 3 HOH A 97 597 85 HOH HOH . C 3 HOH A 98 598 50 HOH HOH . C 3 HOH A 99 599 24 HOH HOH . C 3 HOH A 100 600 61 HOH HOH . C 3 HOH A 101 601 108 HOH HOH . C 3 HOH A 102 602 57 HOH HOH . C 3 HOH A 103 603 22 HOH HOH . C 3 HOH A 104 604 2 HOH HOH . C 3 HOH A 105 605 116 HOH HOH . C 3 HOH A 106 606 137 HOH HOH . C 3 HOH A 107 607 128 HOH HOH . C 3 HOH A 108 608 47 HOH HOH . C 3 HOH A 109 609 13 HOH HOH . C 3 HOH A 110 610 156 HOH HOH . C 3 HOH A 111 611 144 HOH HOH . C 3 HOH A 112 612 43 HOH HOH . C 3 HOH A 113 613 103 HOH HOH . C 3 HOH A 114 614 97 HOH HOH . C 3 HOH A 115 615 59 HOH HOH . C 3 HOH A 116 616 11 HOH HOH . C 3 HOH A 117 617 39 HOH HOH . C 3 HOH A 118 618 65 HOH HOH . C 3 HOH A 119 619 42 HOH HOH . C 3 HOH A 120 620 25 HOH HOH . C 3 HOH A 121 621 113 HOH HOH . C 3 HOH A 122 622 28 HOH HOH . C 3 HOH A 123 623 115 HOH HOH . C 3 HOH A 124 624 37 HOH HOH . C 3 HOH A 125 625 140 HOH HOH . C 3 HOH A 126 626 126 HOH HOH . C 3 HOH A 127 627 172 HOH HOH . C 3 HOH A 128 628 12 HOH HOH . C 3 HOH A 129 629 30 HOH HOH . C 3 HOH A 130 630 40 HOH HOH . C 3 HOH A 131 631 6 HOH HOH . C 3 HOH A 132 632 63 HOH HOH . C 3 HOH A 133 633 87 HOH HOH . C 3 HOH A 134 634 89 HOH HOH . C 3 HOH A 135 635 16 HOH HOH . C 3 HOH A 136 636 142 HOH HOH . C 3 HOH A 137 637 83 HOH HOH . C 3 HOH A 138 638 155 HOH HOH . C 3 HOH A 139 639 69 HOH HOH . C 3 HOH A 140 640 94 HOH HOH . C 3 HOH A 141 641 158 HOH HOH . C 3 HOH A 142 642 74 HOH HOH . C 3 HOH A 143 643 109 HOH HOH . C 3 HOH A 144 644 165 HOH HOH . C 3 HOH A 145 645 91 HOH HOH . C 3 HOH A 146 646 79 HOH HOH . C 3 HOH A 147 647 136 HOH HOH . C 3 HOH A 148 648 101 HOH HOH . C 3 HOH A 149 649 122 HOH HOH . C 3 HOH A 150 650 119 HOH HOH . C 3 HOH A 151 651 78 HOH HOH . C 3 HOH A 152 652 143 HOH HOH . C 3 HOH A 153 653 168 HOH HOH . C 3 HOH A 154 654 58 HOH HOH . C 3 HOH A 155 655 68 HOH HOH . C 3 HOH A 156 656 53 HOH HOH . C 3 HOH A 157 657 133 HOH HOH . C 3 HOH A 158 658 120 HOH HOH . C 3 HOH A 159 659 153 HOH HOH . C 3 HOH A 160 660 66 HOH HOH . C 3 HOH A 161 661 138 HOH HOH . C 3 HOH A 162 662 162 HOH HOH . C 3 HOH A 163 663 163 HOH HOH . C 3 HOH A 164 664 77 HOH HOH . C 3 HOH A 165 665 130 HOH HOH . C 3 HOH A 166 666 72 HOH HOH . C 3 HOH A 167 667 86 HOH HOH . C 3 HOH A 168 668 36 HOH HOH . C 3 HOH A 169 669 48 HOH HOH . C 3 HOH A 170 670 17 HOH HOH . C 3 HOH A 171 671 152 HOH HOH . C 3 HOH A 172 672 148 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 C13 QH0 . . . B 2 17.242 10.045 26.202 1 38.43 0 C13 QH0 401 A 1 HETATM 2 C C15 QH0 . . . B 2 18.274 8.806 27.917 1 32.74 0 C15 QH0 401 A 1 HETATM 3 C C17 QH0 . . . B 2 16.307 9.924 27.379 1 33.68 0 C17 QH0 401 A 1 HETATM 4 C C20 QH0 . . . B 2 18.919 11.679 22.06 1 38.77 0 C20 QH0 401 A 1 HETATM 5 C C26 QH0 . . . B 2 20.19 13.384 30.132 1 46.02 0 C26 QH0 401 A 1 HETATM 6 C C28 QH0 . . . B 2 21.401 11.448 28.892 1 48.33 0 C28 QH0 401 A 1 HETATM 7 O O01 QH0 . . . B 2 18.699 13.884 28 1 34.87 0 O01 QH0 401 A 1 HETATM 8 C C02 QH0 . . . B 2 19.796 14.413 27.976 1 40.91 0 C02 QH0 401 A 1 HETATM 9 N N03 QH0 . . . B 2 20.249 15.065 26.898 1 37.7 0 N03 QH0 401 A 1 HETATM 10 C C04 QH0 . . . B 2 19.59 14.903 25.613 1 36.91 0 C04 QH0 401 A 1 HETATM 11 C C05 QH0 . . . B 2 20.363 15.722 24.535 1 37.98 0 C05 QH0 401 A 1 HETATM 12 C C06 QH0 . . . B 2 20.435 17.206 24.861 1 39.32 0 C06 QH0 401 A 1 HETATM 13 C C07 QH0 . . . B 2 21.165 18.037 23.753 1 43.34 0 C07 QH0 401 A 1 HETATM 14 C C08 QH0 . . . B 2 19.069 17.824 25.024 1 38.96 0 C08 QH0 401 A 1 HETATM 15 C C09 QH0 . . . B 2 19.47 13.445 25.206 1 39.44 0 C09 QH0 401 A 1 HETATM 16 N N10 QH0 . . . B 2 18.306 12.95 24.728 1 33.28 0 N10 QH0 401 A 1 HETATM 17 C C11 QH0 . . . B 2 18.079 11.617 24.372 1 32.15 0 C11 QH0 401 A 1 HETATM 18 C C12 QH0 . . . B 2 16.957 11.119 25.241 1 35.02 0 C12 QH0 401 A 1 HETATM 19 C C14 QH0 . . . B 2 18.6 9.848 26.852 1 32.27 0 C14 QH0 401 A 1 HETATM 20 N N16 QH0 . . . B 2 16.901 9.132 28.271 1 31.24 0 N16 QH0 401 A 1 HETATM 21 O O18 QH0 . . . B 2 15.174 10.366 27.501 1 29.89 0 O18 QH0 401 A 1 HETATM 22 C C19 QH0 . . . B 2 17.697 11.468 22.889 1 36.49 0 C19 QH0 401 A 1 HETATM 23 N N21 QH0 . . . B 2 19.072 10.693 20.89 1 48.17 1 N21 QH0 401 A 1 HETATM 24 O O22 QH0 . . . B 2 20.04 10.866 20.181 1 63.29 -1 O22 QH0 401 A 1 HETATM 25 O O23 QH0 . . . B 2 18.259 9.814 20.712 1 46.58 0 O23 QH0 401 A 1 HETATM 26 O O24 QH0 . . . B 2 20.408 12.695 25.312 1 39.69 0 O24 QH0 401 A 1 HETATM 27 O O25 QH0 . . . B 2 20.614 14.329 29.072 1 46.8 0 O25 QH0 401 A 1 HETATM 28 C C27 QH0 . . . B 2 20.557 11.925 29.951 1 47.03 0 C27 QH0 401 A 1 HETATM 29 C C29 QH0 . . . B 2 21.742 10.074 28.783 1 46.7 0 C29 QH0 401 A 1 HETATM 30 C C30 QH0 . . . B 2 21.277 9.136 29.739 1 50.49 0 C30 QH0 401 A 1 HETATM 31 C C31 QH0 . . . B 2 20.459 9.585 30.808 1 42.34 0 C31 QH0 401 A 1 HETATM 32 C C32 QH0 . . . B 2 20.09 10.953 30.883 1 43.66 0 C32 QH0 401 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #