data_8BGA # _model_server_result.job_id JBMthqld7k66a-JVtqhH0A _model_server_result.datetime_utc '2025-01-28 23:51:09' _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 8bga # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 8BGA # _exptl.entry_id 8BGA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 487.549 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-methoxy-~{N}-[(2~{S})-4-methyl-1-[[(2~{S})-4-nitro-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-1-oxidanylidene-pentan-2-yl]-1~{H}-indole-2-carboxamide _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 107.241 _cell.angle_gamma 90 _cell.entry_id 8BGA _cell.length_a 54.543 _cell.length_b 98.711 _cell.length_c 58.981 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BGA _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,D,E,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N 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 covale ? covale1 A SG CYS 145 A CYS 145 1_555 C C19 QQL . A QQL 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.83 ? covale ? covale2 B SG CYS 145 B CYS 145 1_555 D C19 QQL . B QQL 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? # _chem_comp.formula 'C24 H33 N5 O6' _chem_comp.formula_weight 487.549 _chem_comp.id QQL _chem_comp.mon_nstd_flag . _chem_comp.name 4-methoxy-~{N}-[(2~{S})-4-methyl-1-[[(2~{S})-4-nitro-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-1-oxidanylidene-pentan-2-yl]-1~{H}-indole-2-carboxamide _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 O23 N21 QQL sing 277 n n O22 N21 QQL doub 278 n n N21 C20 QQL sing 279 n n C19 C20 QQL sing 280 n n C19 C11 QQL sing 281 n n C07 C06 QQL sing 282 n n C12 C11 QQL sing 283 n n C12 C13 QQL sing 284 n n C11 N10 QQL sing 285 n n O18 C17 QQL doub 286 n n N10 C09 QQL sing 287 n n C06 C08 QQL sing 288 n n C06 C05 QQL sing 289 n n C17 C13 QQL sing 290 n n C17 N16 QQL sing 291 n n C05 C04 QQL sing 292 n n C13 C14 QQL sing 293 n n C09 C04 QQL sing 294 n n C09 O24 QQL doub 295 n n C04 N03 QQL sing 296 n n N16 C15 QQL sing 297 n n C14 C15 QQL sing 298 n n O01 C02 QQL doub 299 n n N03 C02 QQL sing 300 n n C02 C25 QQL sing 301 n n C25 N35 QQL sing 302 n y C25 C26 QQL doub 303 n y N35 C34 QQL sing 304 n y C26 C27 QQL sing 305 n y C34 C27 QQL doub 306 n y C34 C33 QQL sing 307 n y C27 C28 QQL sing 308 n y C33 C32 QQL doub 309 n y C28 O29 QQL sing 310 n n C28 C31 QQL doub 311 n y O29 C30 QQL sing 312 n n C32 C31 QQL sing 313 n y C13 H1 QQL sing 314 n n C15 H2 QQL sing 315 n n C15 H3 QQL sing 316 n n C20 H4 QQL sing 317 n n C20 H5 QQL sing 318 n n C26 H6 QQL sing 319 n n N03 H7 QQL sing 320 n n C04 H8 QQL sing 321 n n C05 H9 QQL sing 322 n n C05 H10 QQL sing 323 n n C06 H11 QQL sing 324 n n C07 H12 QQL sing 325 n n C07 H13 QQL sing 326 n n C07 H14 QQL sing 327 n n C08 H15 QQL sing 328 n n C08 H16 QQL sing 329 n n C08 H17 QQL sing 330 n n N10 H18 QQL sing 331 n n C11 H19 QQL sing 332 n n C12 H20 QQL sing 333 n n C12 H21 QQL sing 334 n n C14 H22 QQL sing 335 n n C14 H23 QQL sing 336 n n N16 H24 QQL sing 337 n n C19 H25 QQL sing 338 n n C19 H26 QQL sing 339 n n C30 H27 QQL sing 340 n n C30 H28 QQL sing 341 n n C30 H29 QQL sing 342 n n C31 H30 QQL sing 343 n n C32 H31 QQL sing 344 n n C33 H32 QQL sing 345 n n N35 H33 QQL sing 346 n n # _atom_sites.entry_id 8BGA _atom_sites.fract_transf_matrix[1][1] 0.018334 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00569 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010131 _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] 0.017752 _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 QQL A 1 401 401 QQL LIG . D 2 QQL B 1 401 401 QQL LIG . E 3 HOH A 1 501 28 HOH HOH . E 3 HOH A 2 502 89 HOH HOH . E 3 HOH A 3 503 155 HOH HOH . E 3 HOH A 4 504 133 HOH HOH . E 3 HOH A 5 505 4 HOH HOH . E 3 HOH A 6 506 22 HOH HOH . E 3 HOH A 7 507 142 HOH HOH . E 3 HOH A 8 508 113 HOH HOH . E 3 HOH A 9 509 137 HOH HOH . E 3 HOH A 10 510 149 HOH HOH . E 3 HOH A 11 511 53 HOH HOH . E 3 HOH A 12 512 105 HOH HOH . E 3 HOH A 13 513 18 HOH HOH . E 3 HOH A 14 514 164 HOH HOH . E 3 HOH A 15 515 57 HOH HOH . E 3 HOH A 16 516 134 HOH HOH . E 3 HOH A 17 517 98 HOH HOH . E 3 HOH A 18 518 128 HOH HOH . E 3 HOH A 19 519 40 HOH HOH . E 3 HOH A 20 520 127 HOH HOH . E 3 HOH A 21 521 91 HOH HOH . E 3 HOH A 22 522 30 HOH HOH . E 3 HOH A 23 523 1 HOH HOH . E 3 HOH A 24 524 7 HOH HOH . E 3 HOH A 25 525 39 HOH HOH . E 3 HOH A 26 526 138 HOH HOH . E 3 HOH A 27 527 17 HOH HOH . E 3 HOH A 28 528 93 HOH HOH . E 3 HOH A 29 529 10 HOH HOH . E 3 HOH A 30 530 45 HOH HOH . E 3 HOH A 31 531 29 HOH HOH . E 3 HOH A 32 532 41 HOH HOH . E 3 HOH A 33 533 75 HOH HOH . E 3 HOH A 34 534 61 HOH HOH . E 3 HOH A 35 535 102 HOH HOH . E 3 HOH A 36 536 74 HOH HOH . E 3 HOH A 37 537 107 HOH HOH . E 3 HOH A 38 538 42 HOH HOH . E 3 HOH A 39 539 84 HOH HOH . E 3 HOH A 40 540 19 HOH HOH . E 3 HOH A 41 541 65 HOH HOH . E 3 HOH A 42 542 8 HOH HOH . E 3 HOH A 43 543 5 HOH HOH . E 3 HOH A 44 544 32 HOH HOH . E 3 HOH A 45 545 64 HOH HOH . E 3 HOH A 46 546 20 HOH HOH . E 3 HOH A 47 547 78 HOH HOH . E 3 HOH A 48 548 117 HOH HOH . E 3 HOH A 49 549 132 HOH HOH . E 3 HOH A 50 550 76 HOH HOH . E 3 HOH A 51 551 101 HOH HOH . E 3 HOH A 52 552 79 HOH HOH . E 3 HOH A 53 553 83 HOH HOH . E 3 HOH A 54 554 150 HOH HOH . E 3 HOH A 55 555 90 HOH HOH . E 3 HOH A 56 556 116 HOH HOH . E 3 HOH A 57 557 110 HOH HOH . E 3 HOH A 58 558 14 HOH HOH . E 3 HOH A 59 559 36 HOH HOH . E 3 HOH A 60 560 125 HOH HOH . E 3 HOH A 61 561 154 HOH HOH . E 3 HOH A 62 562 109 HOH HOH . E 3 HOH A 63 563 56 HOH HOH . E 3 HOH A 64 564 136 HOH HOH . E 3 HOH A 65 565 118 HOH HOH . E 3 HOH A 66 566 104 HOH HOH . E 3 HOH A 67 567 96 HOH HOH . E 3 HOH A 68 568 124 HOH HOH . E 3 HOH A 69 569 165 HOH HOH . E 3 HOH A 70 570 156 HOH HOH . E 3 HOH A 71 571 106 HOH HOH . E 3 HOH A 72 572 131 HOH HOH . E 3 HOH A 73 573 152 HOH HOH . E 3 HOH A 74 574 126 HOH HOH . E 3 HOH A 75 575 141 HOH HOH . E 3 HOH A 76 576 112 HOH HOH . E 3 HOH A 77 577 153 HOH HOH . E 3 HOH A 78 578 143 HOH HOH . F 3 HOH B 1 501 94 HOH HOH . F 3 HOH B 2 502 92 HOH HOH . F 3 HOH B 3 503 71 HOH HOH . F 3 HOH B 4 504 48 HOH HOH . F 3 HOH B 5 505 21 HOH HOH . F 3 HOH B 6 506 55 HOH HOH . F 3 HOH B 7 507 33 HOH HOH . F 3 HOH B 8 508 44 HOH HOH . F 3 HOH B 9 509 59 HOH HOH . F 3 HOH B 10 510 50 HOH HOH . F 3 HOH B 11 511 6 HOH HOH . F 3 HOH B 12 512 158 HOH HOH . F 3 HOH B 13 513 43 HOH HOH . F 3 HOH B 14 514 119 HOH HOH . F 3 HOH B 15 515 63 HOH HOH . F 3 HOH B 16 516 47 HOH HOH . F 3 HOH B 17 517 54 HOH HOH . F 3 HOH B 18 518 11 HOH HOH . F 3 HOH B 19 519 24 HOH HOH . F 3 HOH B 20 520 2 HOH HOH . F 3 HOH B 21 521 15 HOH HOH . F 3 HOH B 22 522 58 HOH HOH . F 3 HOH B 23 523 51 HOH HOH . F 3 HOH B 24 524 13 HOH HOH . F 3 HOH B 25 525 82 HOH HOH . F 3 HOH B 26 526 12 HOH HOH . F 3 HOH B 27 527 25 HOH HOH . F 3 HOH B 28 528 85 HOH HOH . F 3 HOH B 29 529 81 HOH HOH . F 3 HOH B 30 530 159 HOH HOH . F 3 HOH B 31 531 49 HOH HOH . F 3 HOH B 32 532 3 HOH HOH . F 3 HOH B 33 533 37 HOH HOH . F 3 HOH B 34 534 103 HOH HOH . F 3 HOH B 35 535 99 HOH HOH . F 3 HOH B 36 536 27 HOH HOH . F 3 HOH B 37 537 35 HOH HOH . F 3 HOH B 38 538 62 HOH HOH . F 3 HOH B 39 539 135 HOH HOH . F 3 HOH B 40 540 95 HOH HOH . F 3 HOH B 41 541 108 HOH HOH . F 3 HOH B 42 542 73 HOH HOH . F 3 HOH B 43 543 9 HOH HOH . F 3 HOH B 44 544 120 HOH HOH . F 3 HOH B 45 545 123 HOH HOH . F 3 HOH B 46 546 122 HOH HOH . F 3 HOH B 47 547 114 HOH HOH . F 3 HOH B 48 548 46 HOH HOH . F 3 HOH B 49 549 72 HOH HOH . F 3 HOH B 50 550 34 HOH HOH . F 3 HOH B 51 551 16 HOH HOH . F 3 HOH B 52 552 38 HOH HOH . F 3 HOH B 53 553 69 HOH HOH . F 3 HOH B 54 554 80 HOH HOH . F 3 HOH B 55 555 88 HOH HOH . F 3 HOH B 56 556 67 HOH HOH . F 3 HOH B 57 557 87 HOH HOH . F 3 HOH B 58 558 100 HOH HOH . F 3 HOH B 59 559 68 HOH HOH . F 3 HOH B 60 560 144 HOH HOH . F 3 HOH B 61 561 70 HOH HOH . F 3 HOH B 62 562 23 HOH HOH . F 3 HOH B 63 563 86 HOH HOH . F 3 HOH B 64 564 77 HOH HOH . F 3 HOH B 65 565 121 HOH HOH . F 3 HOH B 66 566 66 HOH HOH . F 3 HOH B 67 567 31 HOH HOH . F 3 HOH B 68 568 26 HOH HOH . F 3 HOH B 69 569 162 HOH HOH . F 3 HOH B 70 570 157 HOH HOH . F 3 HOH B 71 571 140 HOH HOH . F 3 HOH B 72 572 111 HOH HOH . F 3 HOH B 73 573 139 HOH HOH . F 3 HOH B 74 574 60 HOH HOH . F 3 HOH B 75 575 160 HOH HOH . F 3 HOH B 76 576 161 HOH HOH . F 3 HOH B 77 577 129 HOH HOH . F 3 HOH B 78 578 163 HOH HOH . F 3 HOH B 79 579 97 HOH HOH . F 3 HOH B 80 580 115 HOH HOH . F 3 HOH B 81 581 148 HOH HOH . F 3 HOH B 82 582 52 HOH HOH . F 3 HOH B 83 583 151 HOH HOH . F 3 HOH B 84 584 145 HOH HOH . F 3 HOH B 85 585 147 HOH HOH . F 3 HOH B 86 586 146 HOH HOH . F 3 HOH B 87 587 130 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 QQL . . . D 2 -15.187 11.37 1.606 1 48.42 0 C13 QQL 401 B 1 HETATM 2 C C15 QQL . . . D 2 -13.757 13.271 1.524 1 48.06 0 C15 QQL 401 B 1 HETATM 3 C C17 QQL . . . D 2 -14.594 11.644 3.052 1 48.31 0 C17 QQL 401 B 1 HETATM 4 C C20 QQL . . . D 2 -17.893 9.47 -1.944 1 51.03 0 C20 QQL 401 B 1 HETATM 5 C C26 QQL . . . D 2 -20.435 17.287 1.626 1 45.08 0 C26 QQL 401 B 1 HETATM 6 C C28 QQL . . . D 2 -20.634 19.988 2.015 1 52.1 0 C28 QQL 401 B 1 HETATM 7 O O01 QQL . . . D 2 -19.007 14.057 2.626 1 43.55 0 O01 QQL 401 B 1 HETATM 8 C C02 QQL . . . D 2 -19.675 14.796 1.939 1 41.54 0 C02 QQL 401 B 1 HETATM 9 N N03 QQL . . . D 2 -20.396 14.281 0.905 1 40.94 0 N03 QQL 401 B 1 HETATM 10 C C04 QQL . . . D 2 -20.403 12.89 0.538 1 43.11 0 C04 QQL 401 B 1 HETATM 11 C C05 QQL . . . D 2 -21.382 12.574 -0.623 1 43.19 0 C05 QQL 401 B 1 HETATM 12 C C06 QQL . . . D 2 -22.936 12.737 -0.264 1 43.69 0 C06 QQL 401 B 1 HETATM 13 C C07 QQL . . . D 2 -23.334 11.792 0.903 1 43.8 0 C07 QQL 401 B 1 HETATM 14 C C08 QQL . . . D 2 -23.85 12.536 -1.533 1 43.04 0 C08 QQL 401 B 1 HETATM 15 C C09 QQL . . . D 2 -18.924 12.457 0.152 1 42.56 0 C09 QQL 401 B 1 HETATM 16 N N10 QQL . . . D 2 -18.554 11.228 0.485 1 40.52 0 N10 QQL 401 B 1 HETATM 17 C C11 QQL . . . D 2 -17.205 10.682 0.215 1 46.38 0 C11 QQL 401 B 1 HETATM 18 C C12 QQL . . . D 2 -16.452 10.6 1.561 1 42.3 0 C12 QQL 401 B 1 HETATM 19 C C14 QQL . . . D 2 -15.172 12.769 1.006 1 46.71 0 C14 QQL 401 B 1 HETATM 20 N N16 QQL . . . D 2 -13.71 12.764 2.946 1 49.07 0 N16 QQL 401 B 1 HETATM 21 O O18 QQL . . . D 2 -14.875 10.978 4.052 1 43.73 0 O18 QQL 401 B 1 HETATM 22 C C19 QQL . . . D 2 -17.372 9.38 -0.524 1 44.59 0 C19 QQL 401 B 1 HETATM 23 N N21 QQL . . . D 2 -17.245 8.47 -3.011 1 66.61 0 N21 QQL 401 B 1 HETATM 24 O O22 QQL . . . D 2 -17.763 8.321 -4.107 1 82.05 -1 O22 QQL 401 B 1 HETATM 25 O O23 QQL . . . D 2 -16.24 7.903 -2.638 1 64.56 0 O23 QQL 401 B 1 HETATM 26 O O24 QQL . . . D 2 -18.154 13.255 -0.417 1 39.33 0 O24 QQL 401 B 1 HETATM 27 C C25 QQL . . . D 2 -19.711 16.281 2.258 1 43.5 0 C25 QQL 401 B 1 HETATM 28 C C27 QQL . . . D 2 -20.178 18.59 2.255 1 49.51 0 C27 QQL 401 B 1 HETATM 29 O O29 QQL . . . D 2 -21.602 20.248 0.922 1 56.34 0 O29 QQL 401 B 1 HETATM 30 C C30 QQL . . . D 2 -21.683 21.515 0.259 1 51.36 0 C30 QQL 401 B 1 HETATM 31 C C31 QQL . . . D 2 -20.108 20.998 2.876 1 50.53 0 C31 QQL 401 B 1 HETATM 32 C C32 QQL . . . D 2 -19.15 20.699 3.935 1 46.87 0 C32 QQL 401 B 1 HETATM 33 C C33 QQL . . . D 2 -18.715 19.379 4.171 1 47.13 0 C33 QQL 401 B 1 HETATM 34 C C34 QQL . . . D 2 -19.219 18.302 3.322 1 45.85 0 C34 QQL 401 B 1 HETATM 35 N N35 QQL . . . D 2 -18.955 16.898 3.298 1 44.56 0 N35 QQL 401 B 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 35 #