data_4NY5 # _model_server_result.job_id -zSHRBxwHSsLMyG7gctbYQ _model_server_result.datetime_utc '2024-12-23 10:07:44' _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 4ny5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4NY5 # _exptl.entry_id 4NY5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 101.07 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'RUTHENIUM ION' _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 4NY5 _cell.length_a 77.772 _cell.length_b 77.772 _cell.length_c 37.316 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NY5 _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 _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 B N N ? 2 C 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 A CYS 6 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 115 A CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf3 A SG CYS 64 A CYS 64 1_555 A SG CYS 80 A CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf4 A SG CYS 76 A CYS 76 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc1 A O SER 60 A SER 60 1_555 F NA NA . A NA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc2 A O CYS 64 A CYS 64 1_555 F NA NA . A NA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc3 A OG SER 72 A SER 72 1_555 F NA NA . A NA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? metalc ? metalc4 A O ARG 73 A ARG 73 1_555 F NA NA . A NA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc5 A OD1 ASP 101 A ASP 101 1_555 C RU RU . A RU 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc6 A OD2 ASP 119 A ASP 119 1_555 B RU RU . A RU 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc7 B RU RU . A RU 201 1_555 G O HOH . A HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? metalc ? metalc8 B RU RU . A RU 201 1_555 G O HOH . A HOH 420 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc9 B RU RU . A RU 201 1_555 G O HOH . A HOH 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc10 C RU RU . A RU 202 1_555 G O HOH . A HOH 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc11 C RU RU . A RU 202 1_555 G O HOH . A HOH 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc12 C RU RU . A RU 202 1_555 G O HOH . A HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc13 C RU RU . A RU 202 1_555 G O HOH . A HOH 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.792 ? metalc ? metalc14 F NA NA . A NA 205 1_555 G O HOH . A HOH 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? metalc ? metalc15 F NA NA . A NA 205 1_555 G O HOH . A HOH 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? # _chem_comp.formula 'Ru 3' _chem_comp.formula_weight 101.07 _chem_comp.id RU _chem_comp.mon_nstd_flag . _chem_comp.name 'RUTHENIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4NY5 _atom_sites.fract_transf_matrix[1][1] 0.012858 _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] 0.012858 _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] 0.026798 _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 RU A 1 201 44 RU RU . C 2 RU A 1 202 45 RU RU . D 3 CL A 1 203 1 CL CL . E 3 CL A 1 204 2 CL CL . F 4 NA A 1 205 10 NA NA . G 5 HOH A 1 301 2 HOH HOH . G 5 HOH A 2 302 3 HOH HOH . G 5 HOH A 3 303 4 HOH HOH . G 5 HOH A 4 304 5 HOH HOH . G 5 HOH A 5 305 7 HOH HOH . G 5 HOH A 6 306 9 HOH HOH . G 5 HOH A 7 307 48 HOH HOH . G 5 HOH A 8 308 49 HOH HOH . G 5 HOH A 9 309 51 HOH HOH . G 5 HOH A 10 310 53 HOH HOH . G 5 HOH A 11 311 54 HOH HOH . G 5 HOH A 12 312 55 HOH HOH . G 5 HOH A 13 313 56 HOH HOH . G 5 HOH A 14 314 57 HOH HOH . G 5 HOH A 15 315 58 HOH HOH . G 5 HOH A 16 316 60 HOH HOH . G 5 HOH A 17 317 61 HOH HOH . G 5 HOH A 18 318 64 HOH HOH . G 5 HOH A 19 319 66 HOH HOH . G 5 HOH A 20 320 70 HOH HOH . G 5 HOH A 21 321 72 HOH HOH . G 5 HOH A 22 322 73 HOH HOH . G 5 HOH A 23 323 76 HOH HOH . G 5 HOH A 24 324 77 HOH HOH . G 5 HOH A 25 325 79 HOH HOH . G 5 HOH A 26 326 80 HOH HOH . G 5 HOH A 27 327 82 HOH HOH . G 5 HOH A 28 328 85 HOH HOH . G 5 HOH A 29 329 86 HOH HOH . G 5 HOH A 30 330 87 HOH HOH . G 5 HOH A 31 331 88 HOH HOH . G 5 HOH A 32 332 89 HOH HOH . G 5 HOH A 33 333 90 HOH HOH . G 5 HOH A 34 334 91 HOH HOH . G 5 HOH A 35 335 92 HOH HOH . G 5 HOH A 36 336 94 HOH HOH . G 5 HOH A 37 337 97 HOH HOH . G 5 HOH A 38 338 98 HOH HOH . G 5 HOH A 39 339 101 HOH HOH . G 5 HOH A 40 340 102 HOH HOH . G 5 HOH A 41 341 104 HOH HOH . G 5 HOH A 42 342 109 HOH HOH . G 5 HOH A 43 343 114 HOH HOH . G 5 HOH A 44 344 116 HOH HOH . G 5 HOH A 45 345 117 HOH HOH . G 5 HOH A 46 346 127 HOH HOH . G 5 HOH A 47 347 133 HOH HOH . G 5 HOH A 48 348 138 HOH HOH . G 5 HOH A 49 349 139 HOH HOH . G 5 HOH A 50 350 141 HOH HOH . G 5 HOH A 51 351 69 HOH HOH . G 5 HOH A 52 352 81 HOH HOH . G 5 HOH A 53 353 1 HOH HOH . G 5 HOH A 54 354 3 HOH HOH . G 5 HOH A 55 355 4 HOH HOH . G 5 HOH A 56 356 5 HOH HOH . G 5 HOH A 57 357 6 HOH HOH . G 5 HOH A 58 358 1 HOH HOH . G 5 HOH A 59 359 2 HOH HOH . G 5 HOH A 60 360 3 HOH HOH . G 5 HOH A 61 361 4 HOH HOH . G 5 HOH A 62 362 5 HOH HOH . G 5 HOH A 63 363 6 HOH HOH . G 5 HOH A 64 364 7 HOH HOH . G 5 HOH A 65 365 9 HOH HOH . G 5 HOH A 66 366 10 HOH HOH . G 5 HOH A 67 367 11 HOH HOH . G 5 HOH A 68 368 12 HOH HOH . G 5 HOH A 69 369 13 HOH HOH . G 5 HOH A 70 370 15 HOH HOH . G 5 HOH A 71 371 16 HOH HOH . G 5 HOH A 72 372 17 HOH HOH . G 5 HOH A 73 373 18 HOH HOH . G 5 HOH A 74 374 20 HOH HOH . G 5 HOH A 75 375 21 HOH HOH . G 5 HOH A 76 376 22 HOH HOH . G 5 HOH A 77 377 23 HOH HOH . G 5 HOH A 78 378 25 HOH HOH . G 5 HOH A 79 379 26 HOH HOH . G 5 HOH A 80 380 27 HOH HOH . G 5 HOH A 81 381 28 HOH HOH . G 5 HOH A 82 382 29 HOH HOH . G 5 HOH A 83 383 30 HOH HOH . G 5 HOH A 84 384 32 HOH HOH . G 5 HOH A 85 385 33 HOH HOH . G 5 HOH A 86 386 34 HOH HOH . G 5 HOH A 87 387 35 HOH HOH . G 5 HOH A 88 388 36 HOH HOH . G 5 HOH A 89 389 37 HOH HOH . G 5 HOH A 90 390 38 HOH HOH . G 5 HOH A 91 391 39 HOH HOH . G 5 HOH A 92 392 40 HOH HOH . G 5 HOH A 93 393 41 HOH HOH . G 5 HOH A 94 394 43 HOH HOH . G 5 HOH A 95 395 44 HOH HOH . G 5 HOH A 96 396 45 HOH HOH . G 5 HOH A 97 397 46 HOH HOH . G 5 HOH A 98 398 50 HOH HOH . G 5 HOH A 99 399 49 HOH HOH . G 5 HOH A 100 400 52 HOH HOH . G 5 HOH A 101 401 53 HOH HOH . G 5 HOH A 102 402 70 HOH HOH . G 5 HOH A 103 403 54 HOH HOH . G 5 HOH A 104 404 55 HOH HOH . G 5 HOH A 105 405 59 HOH HOH . G 5 HOH A 106 406 60 HOH HOH . G 5 HOH A 107 407 61 HOH HOH . G 5 HOH A 108 408 62 HOH HOH . G 5 HOH A 109 409 63 HOH HOH . G 5 HOH A 110 410 64 HOH HOH . G 5 HOH A 111 411 65 HOH HOH . G 5 HOH A 112 412 66 HOH HOH . G 5 HOH A 113 413 67 HOH HOH . G 5 HOH A 114 414 68 HOH HOH . G 5 HOH A 115 415 69 HOH HOH . G 5 HOH A 116 416 57 HOH HOH . G 5 HOH A 117 417 31 HOH HOH . G 5 HOH A 118 418 47 HOH HOH . G 5 HOH A 119 419 48 HOH HOH . G 5 HOH A 120 420 56 HOH HOH . G 5 HOH A 121 421 58 HOH HOH . G 5 HOH A 122 422 71 HOH HOH . G 5 HOH A 123 423 72 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol RU _atom_site.label_atom_id RU _atom_site.label_comp_id RU _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id B _atom_site.label_entity_id 2 _atom_site.Cartn_x -35.085 _atom_site.Cartn_y -10.686 _atom_site.Cartn_z -22.383 _atom_site.occupancy 0.4 _atom_site.B_iso_or_equiv 61.07 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id RU _atom_site.auth_comp_id RU _atom_site.auth_seq_id 201 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #