data_5WBA # _model_server_result.job_id GkSJPF4TRT7FZuOWbTq5kQ _model_server_result.datetime_utc '2024-11-13 19:16:13' _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 5wba # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5WBA # _exptl.entry_id 5WBA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 593.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[N-(2-{bis[2-(pyridin-2-yl-kappaN)ethyl]amino-kappaN}ethyl)-5-(2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl)pentanamide](hydrogen peroxido-kappaO)copper' _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 5WBA _cell.length_a 57.51 _cell.length_b 57.51 _cell.length_c 183.13 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WBA _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2,3,4 # 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' 8_665 -y+1,-x+1,-z 0 -1 0 -1 0 0 0 0 -1 57.51 57.51 0 3 'crystal symmetry operation' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 57.51 57.51 0 4 'crystal symmetry operation' 15_555 y,x,-z 0 1 0 1 0 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 metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NE2 _struct_conn.ptnr1_label_comp_id HIS _struct_conn.ptnr1_label_seq_id 87 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 87 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id E _struct_conn.ptnr2_label_atom_id CU _struct_conn.ptnr2_label_comp_id CU _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CU _struct_conn.ptnr2_auth_seq_id 204 _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 2.313 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C26 H37 Cu N6 O4 S' _chem_comp.formula_weight 593.221 _chem_comp.id SI8 _chem_comp.mon_nstd_flag . _chem_comp.name '[N-(2-{bis[2-(pyridin-2-yl-kappaN)ethyl]amino-kappaN}ethyl)-5-(2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl)pentanamide](hydrogen peroxido-kappaO)copper' _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 C24 C25 SI8 doub 283 n y C24 C23 SI8 sing 284 n y C25 C26 SI8 sing 285 n y C23 N6 SI8 doub 286 n y C26 C22 SI8 doub 287 n y N6 C22 SI8 sing 288 n y N6 CU1 SI8 sing 289 n n O4 O3 SI8 sing 290 n n O3 CU1 SI8 sing 291 n n C22 C21 SI8 sing 292 n n C16 C17 SI8 doub 293 n y C16 N5 SI8 sing 294 n y CU1 N5 SI8 sing 295 n n CU1 N4 SI8 sing 296 n n C17 C18 SI8 sing 297 n y N5 C15 SI8 doub 298 n y C21 C20 SI8 sing 299 n n C18 C19 SI8 doub 300 n y C20 N4 SI8 sing 301 n n C15 C19 SI8 sing 302 n y C15 C14 SI8 sing 303 n n N4 C12 SI8 sing 304 n n N4 C13 SI8 sing 305 n n C12 C11 SI8 sing 306 n n O2 C10 SI8 doub 307 n n C14 C13 SI8 sing 308 n n C10 N3 SI8 sing 309 n n C10 C9 SI8 sing 310 n n C11 N3 SI8 sing 311 n n C9 C8 SI8 sing 312 n n C8 C7 SI8 sing 313 n n C7 C6 SI8 sing 314 n n C6 C5 SI8 sing 315 n n C5 C4 SI8 sing 316 n n C5 S1 SI8 sing 317 n n C4 N2 SI8 sing 318 n n C4 C2 SI8 sing 319 n n N2 C1 SI8 sing 320 n n S1 C3 SI8 sing 321 n n C1 O1 SI8 doub 322 n n C1 N1 SI8 sing 323 n n C2 C3 SI8 sing 324 n n C2 N1 SI8 sing 325 n n C23 H1 SI8 sing 326 n n C24 H2 SI8 sing 327 n n C25 H3 SI8 sing 328 n n C26 H4 SI8 sing 329 n n C21 H5 SI8 sing 330 n n C21 H6 SI8 sing 331 n n C20 H7 SI8 sing 332 n n C20 H8 SI8 sing 333 n n C16 H9 SI8 sing 334 n n C17 H10 SI8 sing 335 n n C18 H11 SI8 sing 336 n n C19 H12 SI8 sing 337 n n C14 H13 SI8 sing 338 n n C14 H14 SI8 sing 339 n n C13 H15 SI8 sing 340 n n C13 H16 SI8 sing 341 n n C12 H17 SI8 sing 342 n n C12 H18 SI8 sing 343 n n C11 H19 SI8 sing 344 n n C11 H20 SI8 sing 345 n n N3 H21 SI8 sing 346 n n C9 H22 SI8 sing 347 n n C9 H23 SI8 sing 348 n n C8 H24 SI8 sing 349 n n C8 H25 SI8 sing 350 n n C7 H26 SI8 sing 351 n n C7 H27 SI8 sing 352 n n C6 H28 SI8 sing 353 n n C6 H29 SI8 sing 354 n n C5 H30 SI8 sing 355 n n C4 H31 SI8 sing 356 n n N2 H32 SI8 sing 357 n n C3 H33 SI8 sing 358 n n C3 H34 SI8 sing 359 n n C2 H35 SI8 sing 360 n n N1 H36 SI8 sing 361 n n O4 H37 SI8 sing 362 n n # _atom_sites.entry_id 5WBA _atom_sites.fract_transf_matrix[1][1] 0.017388 _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] 0.017388 _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] 0.005461 _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 SI8 A 1 201 1 SI8 SI8 . C 3 ACT A 1 202 1 ACT ACT . D 4 SO4 A 1 203 3 SO4 SO4 . E 5 CU A 1 204 2 CU CU . F 6 HOH A 1 301 22 HOH HOH . F 6 HOH A 2 302 3 HOH HOH . F 6 HOH A 3 303 38 HOH HOH . F 6 HOH A 4 304 2 HOH HOH . F 6 HOH A 5 305 31 HOH HOH . F 6 HOH A 6 306 49 HOH HOH . F 6 HOH A 7 307 99 HOH HOH . F 6 HOH A 8 308 58 HOH HOH . F 6 HOH A 9 309 10 HOH HOH . F 6 HOH A 10 310 42 HOH HOH . F 6 HOH A 11 311 100 HOH HOH . F 6 HOH A 12 312 66 HOH HOH . F 6 HOH A 13 313 79 HOH HOH . F 6 HOH A 14 314 91 HOH HOH . F 6 HOH A 15 315 9 HOH HOH . F 6 HOH A 16 316 35 HOH HOH . F 6 HOH A 17 317 63 HOH HOH . F 6 HOH A 18 318 69 HOH HOH . F 6 HOH A 19 319 12 HOH HOH . F 6 HOH A 20 320 82 HOH HOH . F 6 HOH A 21 321 47 HOH HOH . F 6 HOH A 22 322 59 HOH HOH . F 6 HOH A 23 323 55 HOH HOH . F 6 HOH A 24 324 15 HOH HOH . F 6 HOH A 25 325 81 HOH HOH . F 6 HOH A 26 326 96 HOH HOH . F 6 HOH A 27 327 43 HOH HOH . F 6 HOH A 28 328 73 HOH HOH . F 6 HOH A 29 329 78 HOH HOH . F 6 HOH A 30 330 28 HOH HOH . F 6 HOH A 31 331 32 HOH HOH . F 6 HOH A 32 332 1 HOH HOH . F 6 HOH A 33 333 13 HOH HOH . F 6 HOH A 34 334 45 HOH HOH . F 6 HOH A 35 335 21 HOH HOH . F 6 HOH A 36 336 89 HOH HOH . F 6 HOH A 37 337 94 HOH HOH . F 6 HOH A 38 338 48 HOH HOH . F 6 HOH A 39 339 46 HOH HOH . F 6 HOH A 40 340 18 HOH HOH . F 6 HOH A 41 341 68 HOH HOH . F 6 HOH A 42 342 93 HOH HOH . F 6 HOH A 43 343 104 HOH HOH . F 6 HOH A 44 344 5 HOH HOH . F 6 HOH A 45 345 41 HOH HOH . F 6 HOH A 46 346 51 HOH HOH . F 6 HOH A 47 347 25 HOH HOH . F 6 HOH A 48 348 60 HOH HOH . F 6 HOH A 49 349 6 HOH HOH . F 6 HOH A 50 350 77 HOH HOH . F 6 HOH A 51 351 26 HOH HOH . F 6 HOH A 52 352 4 HOH HOH . F 6 HOH A 53 353 17 HOH HOH . F 6 HOH A 54 354 50 HOH HOH . F 6 HOH A 55 355 27 HOH HOH . F 6 HOH A 56 356 20 HOH HOH . F 6 HOH A 57 357 16 HOH HOH . F 6 HOH A 58 358 65 HOH HOH . F 6 HOH A 59 359 90 HOH HOH . F 6 HOH A 60 360 76 HOH HOH . F 6 HOH A 61 361 88 HOH HOH . F 6 HOH A 62 362 8 HOH HOH . F 6 HOH A 63 363 56 HOH HOH . F 6 HOH A 64 364 37 HOH HOH . F 6 HOH A 65 365 34 HOH HOH . F 6 HOH A 66 366 53 HOH HOH . F 6 HOH A 67 367 33 HOH HOH . F 6 HOH A 68 368 80 HOH HOH . F 6 HOH A 69 369 36 HOH HOH . F 6 HOH A 70 370 29 HOH HOH . F 6 HOH A 71 371 24 HOH HOH . F 6 HOH A 72 372 72 HOH HOH . F 6 HOH A 73 373 11 HOH HOH . F 6 HOH A 74 374 44 HOH HOH . F 6 HOH A 75 375 40 HOH HOH . F 6 HOH A 76 376 7 HOH HOH . F 6 HOH A 77 377 98 HOH HOH . F 6 HOH A 78 378 14 HOH HOH . F 6 HOH A 79 379 92 HOH HOH . F 6 HOH A 80 380 71 HOH HOH . F 6 HOH A 81 381 30 HOH HOH . F 6 HOH A 82 382 19 HOH HOH . F 6 HOH A 83 383 95 HOH HOH . F 6 HOH A 84 384 23 HOH HOH . F 6 HOH A 85 385 57 HOH HOH . F 6 HOH A 86 386 61 HOH HOH . F 6 HOH A 87 387 39 HOH HOH . F 6 HOH A 88 388 103 HOH HOH . F 6 HOH A 89 389 83 HOH HOH . F 6 HOH A 90 390 75 HOH HOH . F 6 HOH A 91 391 97 HOH HOH . F 6 HOH A 92 392 74 HOH HOH . F 6 HOH A 93 393 70 HOH HOH . F 6 HOH A 94 394 87 HOH HOH . F 6 HOH A 95 395 85 HOH HOH . F 6 HOH A 96 396 52 HOH HOH . F 6 HOH A 97 397 86 HOH HOH . F 6 HOH A 98 398 54 HOH HOH . F 6 HOH A 99 399 101 HOH HOH . F 6 HOH A 100 400 84 HOH HOH . F 6 HOH A 101 401 64 HOH HOH . F 6 HOH A 102 402 67 HOH HOH . F 6 HOH A 103 403 105 HOH HOH . F 6 HOH A 104 404 62 HOH HOH . F 6 HOH A 105 405 102 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 CU CU1 SI8 . . . B 2 24.358 25.285 -17.656 1 37.81 ? CU1 SI8 201 A 1 HETATM 2 N N6 SI8 . . . B 2 22.918 26.18 -18.682 1 39.85 ? N6 SI8 201 A 1 HETATM 3 C C23 SI8 . . . B 2 22.823 25.98 -20.086 1 42.5 ? C23 SI8 201 A 1 HETATM 4 C C24 SI8 . . . B 2 21.814 26.614 -20.806 1 42.42 ? C24 SI8 201 A 1 HETATM 5 C C25 SI8 . . . B 2 20.899 27.445 -20.153 1 41.1 ? C25 SI8 201 A 1 HETATM 6 C C26 SI8 . . . B 2 20.984 27.659 -18.773 1 38.52 ? C26 SI8 201 A 1 HETATM 7 C C22 SI8 . . . B 2 21.99 27.039 -18.026 1 37.12 ? C22 SI8 201 A 1 HETATM 8 C C21 SI8 . . . B 2 22.07 27.245 -16.529 1 35.59 ? C21 SI8 201 A 1 HETATM 9 C C20 SI8 . . . B 2 23.492 27.001 -16.043 1 33.38 ? C20 SI8 201 A 1 HETATM 10 N N4 SI8 . . . B 2 23.727 25.58 -15.774 1 30.14 ? N4 SI8 201 A 1 HETATM 11 N N5 SI8 . . . B 2 26.049 24.381 -17.114 1 40.19 ? N5 SI8 201 A 1 HETATM 12 C C16 SI8 . . . B 2 26.679 23.451 -17.987 1 44.13 ? C16 SI8 201 A 1 HETATM 13 C C17 SI8 . . . B 2 27.865 22.823 -17.594 1 45.08 ? C17 SI8 201 A 1 HETATM 14 C C18 SI8 . . . B 2 28.436 23.104 -16.346 1 40.86 ? C18 SI8 201 A 1 HETATM 15 C C19 SI8 . . . B 2 27.828 24.015 -15.48 1 39.9 ? C19 SI8 201 A 1 HETATM 16 C C15 SI8 . . . B 2 26.648 24.662 -15.854 1 36.74 ? C15 SI8 201 A 1 HETATM 17 C C14 SI8 . . . B 2 25.99 25.625 -14.917 1 37.32 ? C14 SI8 201 A 1 HETATM 18 C C13 SI8 . . . B 2 24.527 25.459 -14.585 1 34.71 ? C13 SI8 201 A 1 HETATM 19 C C12 SI8 . . . B 2 22.474 24.847 -15.593 1 26.76 ? C12 SI8 201 A 1 HETATM 20 C C11 SI8 . . . B 2 22.028 24.842 -14.123 1 20.82 ? C11 SI8 201 A 1 HETATM 21 N N3 SI8 . . . B 2 20.857 24.01 -13.96 1 15.27 ? N3 SI8 201 A 1 HETATM 22 C C10 SI8 . . . B 2 19.718 24.726 -14.18 1 13.85 ? C10 SI8 201 A 1 HETATM 23 O O2 SI8 . . . B 2 19.746 25.89 -14.937 1 14.44 ? O2 SI8 201 A 1 HETATM 24 C C9 SI8 . . . B 2 18.387 24.191 -13.677 1 12.69 ? C9 SI8 201 A 1 HETATM 25 C C8 SI8 . . . B 2 17.553 25.336 -13.09 1 12.42 ? C8 SI8 201 A 1 HETATM 26 C C7 SI8 . . . B 2 18.251 25.928 -11.861 1 11.41 ? C7 SI8 201 A 1 HETATM 27 C C6 SI8 . . . B 2 17.382 27.027 -11.251 1 11.68 ? C6 SI8 201 A 1 HETATM 28 C C5 SI8 . . . B 2 18.111 27.672 -10.061 1 11.01 ? C5 SI8 201 A 1 HETATM 29 C C4 SI8 . . . B 2 17.438 28.984 -9.694 1 10.36 ? C4 SI8 201 A 1 HETATM 30 N N2 SI8 . . . B 2 15.985 29.064 -9.689 1 10.44 ? N2 SI8 201 A 1 HETATM 31 S S1 SI8 . . . B 2 17.885 26.688 -8.571 1 11.23 ? S1 SI8 201 A 1 HETATM 32 C C3 SI8 . . . B 2 18.612 28.061 -7.679 1 11.13 ? C3 SI8 201 A 1 HETATM 33 C C2 SI8 . . . B 2 17.74 29.224 -8.138 1 10.41 ? C2 SI8 201 A 1 HETATM 34 N N1 SI8 . . . B 2 16.447 29.415 -7.54 1 10.69 ? N1 SI8 201 A 1 HETATM 35 C C1 SI8 . . . B 2 15.509 29.326 -8.477 1 10.33 ? C1 SI8 201 A 1 HETATM 36 O O1 SI8 . . . B 2 14.176 29.36 -8.202 1 11.57 ? O1 SI8 201 A 1 HETATM 37 O O3 SI8 . . . B 2 23.618 23.6 -18.252 1 40.51 ? O3 SI8 201 A 1 HETATM 38 O O4 SI8 . . . B 2 22.308 22.79 -18.355 1 42.07 ? O4 SI8 201 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 38 #