data_8BPJ # _model_server_result.job_id DdvWDAOtDXyvwOW4bVOL2Q _model_server_result.datetime_utc '2024-11-05 06:38:31' _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 8bpj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":207}' # _entry.id 8BPJ # _exptl.entry_id 8BPJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 554.473 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 9,11-bis(4-fluorophenyl)-3,7-dimethyl-2,4,6,8-tetraoxa-9,11-diaza-1$l^{4},5$l^{4}-diruthenatricyclo[3.3.3.0^{1,5}]undecane _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 90 _cell.angle_gamma 90 _cell.entry_id 8BPJ _cell.length_a 77.48 _cell.length_b 77.48 _cell.length_c 37.27 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BPJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,G,H,I,J _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 ? 4 H N N ? 4 I 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 disulf ? disulf1 A SG CYS 6 AAA CYS 6 1_555 A SG CYS 127 AAA CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? disulf ? disulf2 A SG CYS 30 AAA CYS 30 1_555 A SG CYS 115 AAA CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 64 AAA CYS 64 1_555 A SG CYS 80 AAA CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 76 AAA CYS 76 1_555 A SG CYS 94 AAA CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc1 A O SER 60 AAA SER 60 1_555 B NA NA . AAA NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc2 A O CYS 64 AAA CYS 64 1_555 B NA NA . AAA NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc3 A OG SER 72 AAA SER 72 1_555 B NA NA . AAA NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc4 A O ARG 73 AAA ARG 73 1_555 B NA NA . AAA NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc5 A OD1 ASP 101 AAA ASP 101 1_555 I RU2 TZ6 . AAA TZ6 208 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.263 ? metalc ? metalc6 A OD2 ASP 101 AAA ASP 101 1_555 I RU1 TZ6 . AAA TZ6 208 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.144 ? metalc ? metalc7 A OD1 ASP 119 AAA ASP 119 1_555 H RU2 TZ6 . AAA TZ6 207 4_544 ? A ? ? A ? ? ? ? ? ? ? 2.174 ? metalc ? metalc8 A OD2 ASP 119 AAA ASP 119 1_555 H RU1 TZ6 . AAA TZ6 207 4_544 ? A ? ? A ? ? ? ? ? ? ? 2.033 ? metalc ? metalc9 B NA NA . AAA NA 201 1_555 C O3 NO3 . AAA NO3 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.789 ? metalc ? metalc10 B NA NA . AAA NA 201 1_555 J O HOH . AAA HOH 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc11 H RU2 TZ6 . AAA TZ6 207 1_555 J O HOH . AAA HOH 339 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc12 H RU1 TZ6 . AAA TZ6 207 1_555 J O HOH . AAA HOH 340 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.035 ? # _chem_comp.formula 'C17 H18 F2 N2 O4 Ru2' _chem_comp.formula_weight 554.473 _chem_comp.id TZ6 _chem_comp.mon_nstd_flag . _chem_comp.name 9,11-bis(4-fluorophenyl)-3,7-dimethyl-2,4,6,8-tetraoxa-9,11-diaza-1$l^{4},5$l^{4}-diruthenatricyclo[3.3.3.0^{1,5}]undecane _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 F1 C5 TZ6 sing 361 n n C4 C5 TZ6 doub 362 n y C4 C3 TZ6 sing 363 n y RU1 O1 TZ6 sing 364 n n RU1 O3 TZ6 sing 365 n n RU1 N1 TZ6 sing 366 n n RU1 RU2 TZ6 sing 367 n n C5 C6 TZ6 sing 368 n y C3 C2 TZ6 doub 369 n y C6 C7 TZ6 doub 370 n y C2 C7 TZ6 sing 371 n y C2 N1 TZ6 sing 372 n n O4 RU2 TZ6 sing 373 n n N1 C1 TZ6 sing 374 n n RU2 O2 TZ6 sing 375 n n RU2 N2 TZ6 sing 376 n n C1 N2 TZ6 sing 377 n n N2 C8 TZ6 sing 378 n n C8 C9 TZ6 doub 379 n y C8 C13 TZ6 sing 380 n y C9 C10 TZ6 sing 381 n y C13 C12 TZ6 doub 382 n y C10 C11 TZ6 doub 383 n y C12 C11 TZ6 sing 384 n y C11 F2 TZ6 sing 385 n n C12 H1 TZ6 sing 386 n n C13 H2 TZ6 sing 387 n n C3 H7 TZ6 sing 388 n n C4 H8 TZ6 sing 389 n n C7 H9 TZ6 sing 390 n n C1 H10 TZ6 sing 391 n n C1 H11 TZ6 sing 392 n n C6 H12 TZ6 sing 393 n n C10 H13 TZ6 sing 394 n n C9 H14 TZ6 sing 395 n n O1 C15 TZ6 sing 396 n n O2 C15 TZ6 sing 397 n n O4 C16 TZ6 sing 398 n n O3 C16 TZ6 sing 399 n n C16 C14 TZ6 sing 400 n n C15 C17 TZ6 sing 401 n n C15 H3 TZ6 sing 402 n n C16 H4 TZ6 sing 403 n n C14 H5 TZ6 sing 404 n n C14 H6 TZ6 sing 405 n n C14 H15 TZ6 sing 406 n n C17 H16 TZ6 sing 407 n n C17 H17 TZ6 sing 408 n n C17 H18 TZ6 sing 409 n n # _atom_sites.entry_id 8BPJ _atom_sites.fract_transf_matrix[1][1] 0.012907 _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] 0.012907 _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] 0.026831 _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 NA AAA 1 201 131 NA NA . C 3 NO3 AAA 1 202 132 NO3 NO3 . D 3 NO3 AAA 1 203 133 NO3 NO3 . E 3 NO3 AAA 1 204 134 NO3 NO3 . F 3 NO3 AAA 1 205 135 NO3 NO3 . G 3 NO3 AAA 1 206 136 NO3 NO3 . H 4 TZ6 AAA 1 207 1 TZ6 TM5 . I 4 TZ6 AAA 1 208 2 TZ6 TM5 . J 5 HOH AAA 1 301 56 HOH HOH . J 5 HOH AAA 2 302 111 HOH HOH . J 5 HOH AAA 3 303 38 HOH HOH . J 5 HOH AAA 4 304 108 HOH HOH . J 5 HOH AAA 5 305 148 HOH HOH . J 5 HOH AAA 6 306 27 HOH HOH . J 5 HOH AAA 7 307 75 HOH HOH . J 5 HOH AAA 8 308 24 HOH HOH . J 5 HOH AAA 9 309 85 HOH HOH . J 5 HOH AAA 10 310 46 HOH HOH . J 5 HOH AAA 11 311 69 HOH HOH . J 5 HOH AAA 12 312 130 HOH HOH . J 5 HOH AAA 13 313 29 HOH HOH . J 5 HOH AAA 14 314 50 HOH HOH . J 5 HOH AAA 15 315 4 HOH HOH . J 5 HOH AAA 16 316 128 HOH HOH . J 5 HOH AAA 17 317 53 HOH HOH . J 5 HOH AAA 18 318 5 HOH HOH . J 5 HOH AAA 19 319 101 HOH HOH . J 5 HOH AAA 20 320 23 HOH HOH . J 5 HOH AAA 21 321 99 HOH HOH . J 5 HOH AAA 22 322 96 HOH HOH . J 5 HOH AAA 23 323 134 HOH HOH . J 5 HOH AAA 24 324 110 HOH HOH . J 5 HOH AAA 25 325 20 HOH HOH . J 5 HOH AAA 26 326 74 HOH HOH . J 5 HOH AAA 27 327 100 HOH HOH . J 5 HOH AAA 28 328 6 HOH HOH . J 5 HOH AAA 29 329 55 HOH HOH . J 5 HOH AAA 30 330 41 HOH HOH . J 5 HOH AAA 31 331 36 HOH HOH . J 5 HOH AAA 32 332 57 HOH HOH . J 5 HOH AAA 33 333 44 HOH HOH . J 5 HOH AAA 34 334 25 HOH HOH . J 5 HOH AAA 35 335 77 HOH HOH . J 5 HOH AAA 36 336 2 HOH HOH . J 5 HOH AAA 37 337 70 HOH HOH . J 5 HOH AAA 38 338 71 HOH HOH . J 5 HOH AAA 39 339 81 HOH HOH . J 5 HOH AAA 40 340 80 HOH HOH . J 5 HOH AAA 41 341 16 HOH HOH . J 5 HOH AAA 42 342 3 HOH HOH . J 5 HOH AAA 43 343 15 HOH HOH . J 5 HOH AAA 44 344 7 HOH HOH . J 5 HOH AAA 45 345 103 HOH HOH . J 5 HOH AAA 46 346 12 HOH HOH . J 5 HOH AAA 47 347 67 HOH HOH . J 5 HOH AAA 48 348 33 HOH HOH . J 5 HOH AAA 49 349 22 HOH HOH . J 5 HOH AAA 50 350 87 HOH HOH . J 5 HOH AAA 51 351 1 HOH HOH . J 5 HOH AAA 52 352 45 HOH HOH . J 5 HOH AAA 53 353 17 HOH HOH . J 5 HOH AAA 54 354 98 HOH HOH . J 5 HOH AAA 55 355 37 HOH HOH . J 5 HOH AAA 56 356 10 HOH HOH . J 5 HOH AAA 57 357 91 HOH HOH . J 5 HOH AAA 58 358 88 HOH HOH . J 5 HOH AAA 59 359 30 HOH HOH . J 5 HOH AAA 60 360 59 HOH HOH . J 5 HOH AAA 61 361 42 HOH HOH . J 5 HOH AAA 62 362 14 HOH HOH . J 5 HOH AAA 63 363 84 HOH HOH . J 5 HOH AAA 64 364 13 HOH HOH . J 5 HOH AAA 65 365 26 HOH HOH . J 5 HOH AAA 66 366 151 HOH HOH . J 5 HOH AAA 67 367 63 HOH HOH . J 5 HOH AAA 68 368 82 HOH HOH . J 5 HOH AAA 69 369 65 HOH HOH . J 5 HOH AAA 70 370 149 HOH HOH . J 5 HOH AAA 71 371 60 HOH HOH . J 5 HOH AAA 72 372 92 HOH HOH . J 5 HOH AAA 73 373 106 HOH HOH . J 5 HOH AAA 74 374 58 HOH HOH . J 5 HOH AAA 75 375 54 HOH HOH . J 5 HOH AAA 76 376 66 HOH HOH . J 5 HOH AAA 77 377 136 HOH HOH . J 5 HOH AAA 78 378 107 HOH HOH . J 5 HOH AAA 79 379 32 HOH HOH . J 5 HOH AAA 80 380 94 HOH HOH . J 5 HOH AAA 81 381 72 HOH HOH . J 5 HOH AAA 82 382 34 HOH HOH . J 5 HOH AAA 83 383 78 HOH HOH . J 5 HOH AAA 84 384 127 HOH HOH . J 5 HOH AAA 85 385 8 HOH HOH . J 5 HOH AAA 86 386 95 HOH HOH . J 5 HOH AAA 87 387 68 HOH HOH . J 5 HOH AAA 88 388 83 HOH HOH . J 5 HOH AAA 89 389 104 HOH HOH . J 5 HOH AAA 90 390 19 HOH HOH . J 5 HOH AAA 91 391 143 HOH HOH . J 5 HOH AAA 92 392 48 HOH HOH . J 5 HOH AAA 93 393 140 HOH HOH . J 5 HOH AAA 94 394 89 HOH HOH . J 5 HOH AAA 95 395 90 HOH HOH . J 5 HOH AAA 96 396 76 HOH HOH . J 5 HOH AAA 97 397 49 HOH HOH . J 5 HOH AAA 98 398 133 HOH HOH . J 5 HOH AAA 99 399 40 HOH HOH . J 5 HOH AAA 100 400 126 HOH HOH . J 5 HOH AAA 101 401 150 HOH HOH . J 5 HOH AAA 102 402 93 HOH HOH . J 5 HOH AAA 103 403 39 HOH HOH . J 5 HOH AAA 104 404 141 HOH HOH . J 5 HOH AAA 105 405 86 HOH HOH . J 5 HOH AAA 106 406 64 HOH HOH . J 5 HOH AAA 107 407 43 HOH HOH . J 5 HOH AAA 108 408 51 HOH HOH . J 5 HOH AAA 109 409 97 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 C11 TZ6 . A . H 4 0.892 -31.522 23.788 0.5 28.61 0 C11 TZ6 207 AAA 1 HETATM 2 C C12 TZ6 . A . H 4 2.116 -31.813 23.266 0.5 31.28 0 C12 TZ6 207 AAA 1 HETATM 3 C C13 TZ6 . A . H 4 2.285 -31.785 21.906 0.5 30.8 0 C13 TZ6 207 AAA 1 HETATM 4 RU RU1 TZ6 . A . H 4 1.229 -31.154 16.673 0.5 24.98 0 RU1 TZ6 207 AAA 1 HETATM 5 RU RU2 TZ6 . A . H 4 0.832 -29.909 18.508 0.5 25.68 0 RU2 TZ6 207 AAA 1 HETATM 6 F F1 TZ6 . A . H 4 3.213 -37.855 16.052 0.5 35.93 0 F1 TZ6 207 AAA 1 HETATM 7 F F2 TZ6 . A . H 4 0.708 -31.549 25.127 0.5 28.84 0 F2 TZ6 207 AAA 1 HETATM 8 O O3 TZ6 . A . H 4 3.206 -30.66 16.74 0.5 26.62 0 O3 TZ6 207 AAA 1 HETATM 9 O O1 TZ6 . A . H 4 0.81 -29.547 15.441 0.5 20.5 0 O1 TZ6 207 AAA 1 HETATM 10 O O2 TZ6 . A . H 4 0.224 -28.422 17.25 0.5 26.14 0 O2 TZ6 207 AAA 1 HETATM 11 O O4 TZ6 . A . H 4 2.755 -29.222 18.389 0.5 25.2 0 O4 TZ6 207 AAA 1 HETATM 12 N N1 TZ6 . A . H 4 1.524 -32.81 17.806 0.5 27.83 0 N1 TZ6 207 AAA 1 HETATM 13 N N2 TZ6 . A . H 4 1.389 -31.451 19.661 0.5 25.73 0 N2 TZ6 207 AAA 1 HETATM 14 C C2 TZ6 . A . H 4 1.964 -34.098 17.344 0.5 32.01 0 C2 TZ6 207 AAA 1 HETATM 15 C C3 TZ6 . A . H 4 3.142 -34.688 17.801 0.5 33.13 0 C3 TZ6 207 AAA 1 HETATM 16 C C4 TZ6 . A . H 4 3.599 -35.939 17.386 0.5 33.5 0 C4 TZ6 207 AAA 1 HETATM 17 C C7 TZ6 . A . H 4 1.235 -34.826 16.409 0.5 33.96 0 C7 TZ6 207 AAA 1 HETATM 18 C C1 TZ6 . A . H 4 1.44 -32.659 19.111 0.5 30.08 0 C1 TZ6 207 AAA 1 HETATM 19 C C6 TZ6 . A . H 4 1.662 -36.061 15.981 0.5 37.01 0 C6 TZ6 207 AAA 1 HETATM 20 C C5 TZ6 . A . H 4 2.811 -36.617 16.476 0.5 35.14 0 C5 TZ6 207 AAA 1 HETATM 21 C C8 TZ6 . A . H 4 1.221 -31.477 21.084 0.5 28.94 0 C8 TZ6 207 AAA 1 HETATM 22 C C10 TZ6 . A . H 4 -0.165 -31.229 22.997 0.5 28.33 0 C10 TZ6 207 AAA 1 HETATM 23 C C9 TZ6 . A . H 4 -0.028 -31.181 21.629 0.5 24.64 0 C9 TZ6 207 AAA 1 HETATM 24 C C15 TZ6 . A . H 4 0.605 -28.446 16.052 0.5 23.56 0 C15 TZ6 207 AAA 1 HETATM 25 C C16 TZ6 . A . H 4 3.566 -29.769 17.563 0.5 27.35 0 C16 TZ6 207 AAA 1 HETATM 26 C C14 TZ6 . A . H 4 4.995 -29.374 17.513 0.5 27.66 0 C14 TZ6 207 AAA 1 HETATM 27 C C17 TZ6 . A . H 4 0.84 -27.143 15.361 0.5 27.56 0 C17 TZ6 207 AAA 1 # _model_server_stats.io_time_ms 93 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 27 #