data_8CDG # _model_server_result.job_id 8gsmurZ8zVHyw9WksqpTlg _model_server_result.datetime_utc '2024-12-26 16:36:08' _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 8cdg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 8CDG # _exptl.entry_id 8CDG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 786.956 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(9~{S},12~{R},19~{S})-9-[[4-[[(2~{S})-2-cyclohexyl-2-(2-phenylethanoylamino)ethanoyl]amino]phenyl]methyl]-12-methyl-7,10,13,21-tetrakis(oxidanylidene)-8,11,14,20-tetrazaspiro[4.17]docosane-19-carboxylic acid' _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 8CDG _cell.length_a 67.362 _cell.length_b 89.771 _cell.length_c 116.669 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CDG _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 # _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 # 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 disulf ? disulf1 A SG CYS 63 A CYS 71 1_555 A SG CYS 113 A CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf2 A SG CYS 68 A CYS 76 1_555 A SG CYS 115 A CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 B SG CYS 63 B CYS 71 1_555 B SG CYS 113 B CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf4 B SG CYS 68 B CYS 76 1_555 B SG CYS 115 B CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? # _chem_comp.formula 'C43 H58 N6 O8' _chem_comp.formula_weight 786.956 _chem_comp.id UTF _chem_comp.mon_nstd_flag . _chem_comp.name '(9~{S},12~{R},19~{S})-9-[[4-[[(2~{S})-2-cyclohexyl-2-(2-phenylethanoylamino)ethanoyl]amino]phenyl]methyl]-12-methyl-7,10,13,21-tetrakis(oxidanylidene)-8,11,14,20-tetrazaspiro[4.17]docosane-19-carboxylic acid' _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 OXT C UTF doub 356 n n C O UTF sing 357 n n C CA UTF sing 358 n n O48 C47 UTF doub 359 n n CA CB UTF sing 360 n n CA N UTF sing 361 n n CB CG UTF sing 362 n n C47 N UTF sing 363 n n C47 C46 UTF sing 364 n n CG CD UTF sing 365 n n CD CE UTF sing 366 n n C46 C41 UTF sing 367 n n C45 C44 UTF sing 368 n n C45 C41 UTF sing 369 n n CE NZ UTF sing 370 n n C44 C43 UTF sing 371 n n C41 C40 UTF sing 372 n n C41 C42 UTF sing 373 n n C40 C38 UTF sing 374 n n C42 C43 UTF sing 375 n n C33 C32 UTF sing 376 n n C33 C34 UTF sing 377 n n NZ C50 UTF sing 378 n n C32 C31 UTF sing 379 n n O39 C38 UTF doub 380 n n C38 N37 UTF sing 381 n n C31 C30 UTF sing 382 n n C50 O51 UTF doub 383 n n C50 C2 UTF sing 384 n n C34 C29 UTF sing 385 n n N37 C7 UTF sing 386 n n C29 C30 UTF sing 387 n n C29 C17 UTF sing 388 n n N4 C2 UTF sing 389 n n N4 C5 UTF sing 390 n n O16 C15 UTF doub 391 n n C2 C1 UTF sing 392 n n C5 C7 UTF sing 393 n n C5 O6 UTF doub 394 n n C7 C9 UTF sing 395 n n C15 C17 UTF sing 396 n n C15 N14 UTF sing 397 n n C17 N19 UTF sing 398 n n C9 C10 UTF sing 399 n n C10 C11 UTF doub 400 n y C10 C36 UTF sing 401 n y C11 C12 UTF sing 402 n y C36 C35 UTF doub 403 n y C12 C13 UTF doub 404 n y C35 C13 UTF sing 405 n y N19 C20 UTF sing 406 n n C13 N14 UTF sing 407 n n C20 C22 UTF sing 408 n n C20 O21 UTF doub 409 n n C22 C23 UTF sing 410 n n C23 C24 UTF doub 411 n y C23 C28 UTF sing 412 n y C24 C25 UTF sing 413 n y C28 C27 UTF doub 414 n y C25 C26 UTF doub 415 n y C27 C26 UTF sing 416 n y N H1 UTF sing 417 n n CA H2 UTF sing 418 n n O H3 UTF sing 419 n n CB H4 UTF sing 420 n n CB H5 UTF sing 421 n n CG H6 UTF sing 422 n n CG H7 UTF sing 423 n n CD H8 UTF sing 424 n n CD H9 UTF sing 425 n n CE H10 UTF sing 426 n n CE H11 UTF sing 427 n n NZ H12 UTF sing 428 n n C1 H13 UTF sing 429 n n C1 H14 UTF sing 430 n n C1 H15 UTF sing 431 n n C11 H16 UTF sing 432 n n C12 H17 UTF sing 433 n n C17 H18 UTF sing 434 n n C2 H19 UTF sing 435 n n C22 H20 UTF sing 436 n n C22 H21 UTF sing 437 n n C24 H22 UTF sing 438 n n C25 H23 UTF sing 439 n n C26 H24 UTF sing 440 n n C27 H25 UTF sing 441 n n C28 H26 UTF sing 442 n n C29 H27 UTF sing 443 n n C30 H28 UTF sing 444 n n C30 H29 UTF sing 445 n n C31 H30 UTF sing 446 n n C31 H31 UTF sing 447 n n C32 H32 UTF sing 448 n n C32 H33 UTF sing 449 n n C33 H34 UTF sing 450 n n C33 H35 UTF sing 451 n n C34 H36 UTF sing 452 n n C34 H37 UTF sing 453 n n C35 H38 UTF sing 454 n n C36 H39 UTF sing 455 n n C40 H40 UTF sing 456 n n C40 H41 UTF sing 457 n n C42 H42 UTF sing 458 n n C42 H43 UTF sing 459 n n C43 H44 UTF sing 460 n n C43 H45 UTF sing 461 n n C44 H46 UTF sing 462 n n C44 H47 UTF sing 463 n n C45 H48 UTF sing 464 n n C45 H49 UTF sing 465 n n C46 H50 UTF sing 466 n n C46 H51 UTF sing 467 n n C7 H52 UTF sing 468 n n C9 H53 UTF sing 469 n n C9 H54 UTF sing 470 n n N14 H55 UTF sing 471 n n N19 H56 UTF sing 472 n n N37 H57 UTF sing 473 n n N4 H58 UTF sing 474 n n # _atom_sites.entry_id 8CDG _atom_sites.fract_transf_matrix[1][1] 0.014845 _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] 0.011139 _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] 0.008571 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id UTF _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 201 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id UTF _pdbx_nonpoly_scheme.auth_mon_id UNL _pdbx_nonpoly_scheme.pdb_ins_code . # 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 N UTF . . . C 2 -21.987 -8.505 -23.474 1 102.49 ? N UTF 201 A 1 HETATM 2 C CA UTF . . . C 2 -22.889 -8.093 -24.533 1 97.99 ? CA UTF 201 A 1 HETATM 3 C C UTF . . . C 2 -22.343 -6.952 -25.374 1 105.44 ? C UTF 201 A 1 HETATM 4 O O UTF . . . C 2 -21.127 -6.677 -25.124 1 104.62 ? O UTF 201 A 1 HETATM 5 C CB UTF . . . C 2 -24.235 -7.574 -24.082 1 94.46 ? CB UTF 201 A 1 HETATM 6 C CG UTF . . . C 2 -24.165 -6.244 -23.361 1 93.77 ? CG UTF 201 A 1 HETATM 7 C CD UTF . . . C 2 -25.468 -5.784 -22.729 1 89 ? CD UTF 201 A 1 HETATM 8 C CE UTF . . . C 2 -26.043 -6.636 -21.63 1 82.83 ? CE UTF 201 A 1 HETATM 9 N NZ UTF . . . C 2 -25.493 -6.379 -20.316 1 89.79 ? NZ UTF 201 A 1 HETATM 10 O OXT UTF . . . C 2 -23.184 -6.441 -26.216 1 114.65 ? OXT UTF 201 A 1 HETATM 11 C C1 UTF . . . C 2 -26.386 -7.988 -17.123 1 81.55 ? C1 UTF 201 A 1 HETATM 12 C C10 UTF . . . C 2 -19.957 -9.61 -16.807 1 81.88 ? C10 UTF 201 A 1 HETATM 13 C C11 UTF . . . C 2 -18.642 -9.219 -16.846 1 83.78 ? C11 UTF 201 A 1 HETATM 14 C C12 UTF . . . C 2 -17.629 -10.142 -16.805 1 81.33 ? C12 UTF 201 A 1 HETATM 15 C C13 UTF . . . C 2 -17.919 -11.478 -16.713 1 77.35 ? C13 UTF 201 A 1 HETATM 16 C C15 UTF . . . C 2 -16.66 -13.42 -17.472 1 77.11 ? C15 UTF 201 A 1 HETATM 17 C C17 UTF . . . C 2 -15.288 -14.014 -17.247 1 77.33 ? C17 UTF 201 A 1 HETATM 18 C C2 UTF . . . C 2 -25.473 -7.175 -18.002 1 85.88 ? C2 UTF 201 A 1 HETATM 19 C C20 UTF . . . C 2 -15.013 -15.671 -15.382 1 85.32 ? C20 UTF 201 A 1 HETATM 20 C C22 UTF . . . C 2 -14.967 -17.156 -15.184 1 95.18 ? C22 UTF 201 A 1 HETATM 21 C C23 UTF . . . C 2 -15.452 -17.553 -13.821 1 105.78 ? C23 UTF 201 A 1 HETATM 22 C C24 UTF . . . C 2 -16.726 -18.094 -13.701 1 108.41 ? C24 UTF 201 A 1 HETATM 23 C C25 UTF . . . C 2 -17.245 -18.488 -12.479 1 110.07 ? C25 UTF 201 A 1 HETATM 24 C C26 UTF . . . C 2 -16.446 -18.328 -11.357 1 125.3 ? C26 UTF 201 A 1 HETATM 25 C C27 UTF . . . C 2 -15.164 -17.784 -11.457 1 116.65 ? C27 UTF 201 A 1 HETATM 26 C C28 UTF . . . C 2 -14.663 -17.393 -12.69 1 106.27 ? C28 UTF 201 A 1 HETATM 27 C C29 UTF . . . C 2 -14.543 -14.1 -18.564 1 78.28 ? C29 UTF 201 A 1 HETATM 28 C C30 UTF . . . C 2 -13.143 -14.621 -18.327 1 74.87 ? C30 UTF 201 A 1 HETATM 29 C C31 UTF . . . C 2 -12.267 -14.526 -19.56 1 73.46 ? C31 UTF 201 A 1 HETATM 30 C C32 UTF . . . C 2 -12.217 -13.122 -20.114 1 71.22 ? C32 UTF 201 A 1 HETATM 31 C C33 UTF . . . C 2 -13.609 -12.641 -20.446 1 74.74 ? C33 UTF 201 A 1 HETATM 32 C C34 UTF . . . C 2 -14.541 -12.747 -19.254 1 77.88 ? C34 UTF 201 A 1 HETATM 33 C C35 UTF . . . C 2 -19.231 -11.898 -16.663 1 75.24 ? C35 UTF 201 A 1 HETATM 34 C C36 UTF . . . C 2 -20.243 -10.959 -16.712 1 80.06 ? C36 UTF 201 A 1 HETATM 35 C C38 UTF . . . C 2 -22.079 -9.186 -19.877 1 89.67 ? C38 UTF 201 A 1 HETATM 36 C C40 UTF . . . C 2 -22.209 -10.232 -20.939 1 87.99 ? C40 UTF 201 A 1 HETATM 37 C C41 UTF . . . C 2 -20.914 -10.789 -21.465 1 87.94 ? C41 UTF 201 A 1 HETATM 38 C C42 UTF . . . C 2 -20.039 -11.368 -20.371 1 85.71 ? C42 UTF 201 A 1 HETATM 39 C C43 UTF . . . C 2 -20.528 -12.777 -20.154 1 81.31 ? C43 UTF 201 A 1 HETATM 40 C C44 UTF . . . C 2 -20.758 -13.252 -21.559 1 82.66 ? C44 UTF 201 A 1 HETATM 41 C C45 UTF . . . C 2 -21.253 -12.022 -22.29 1 90.04 ? C45 UTF 201 A 1 HETATM 42 C C46 UTF . . . C 2 -20.243 -9.755 -22.342 1 92.02 ? C46 UTF 201 A 1 HETATM 43 C C47 UTF . . . C 2 -20.962 -9.435 -23.629 1 97.41 ? C47 UTF 201 A 1 HETATM 44 C C5 UTF . . . C 2 -23.147 -7.658 -17.622 1 85.89 ? C5 UTF 201 A 1 HETATM 45 C C50 UTF . . . C 2 -26.248 -6.625 -19.17 1 91.22 ? C50 UTF 201 A 1 HETATM 46 C C7 UTF . . . C 2 -22.325 -8.905 -17.407 1 89.4 ? C7 UTF 201 A 1 HETATM 47 C C9 UTF . . . C 2 -20.968 -8.503 -16.868 1 82.22 ? C9 UTF 201 A 1 HETATM 48 N N14 UTF . . . C 2 -16.807 -12.332 -16.66 1 74.32 ? N14 UTF 201 A 1 HETATM 49 N N19 UTF . . . C 2 -15.475 -15.328 -16.652 1 78.72 ? N19 UTF 201 A 1 HETATM 50 N N37 UTF . . . C 2 -22.245 -9.708 -18.61 1 89.48 ? N37 UTF 201 A 1 HETATM 51 N N4 UTF . . . C 2 -24.292 -7.909 -18.34 1 83.85 ? N4 UTF 201 A 1 HETATM 52 O O16 UTF . . . C 2 -17.519 -13.844 -18.242 1 76.46 ? O16 UTF 201 A 1 HETATM 53 O O21 UTF . . . C 2 -14.645 -14.931 -14.471 1 85.61 ? O21 UTF 201 A 1 HETATM 54 O O39 UTF . . . C 2 -21.861 -8.01 -20.152 1 90.99 ? O39 UTF 201 A 1 HETATM 55 O O48 UTF . . . C 2 -20.654 -9.962 -24.7 1 97.83 ? O48 UTF 201 A 1 HETATM 56 O O51 UTF . . . C 2 -27.457 -6.419 -19.081 1 87.05 ? O51 UTF 201 A 1 HETATM 57 O O6 UTF . . . C 2 -22.837 -6.556 -17.18 1 80.37 ? O6 UTF 201 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 57 #