data_1YF4 # _model_server_result.job_id rU2AI_bsbY7KhUdYTYWnug _model_server_result.datetime_utc '2025-03-04 23:21:00' _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 1yf4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1}' # _entry.id 1YF4 # _exptl.entry_id 1YF4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _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 1YF4 _cell.length_a 59.274 _cell.length_b 61.953 _cell.length_c 69.146 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YF4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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,D,E _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 3 _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 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 B SG CYS 1 B CYS 1 1_555 B SG CYS 6 B CYS 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 B C GLY 9 B GLY 9 1_555 B N NH2 10 B NH2 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 C CA CA . A CA 1 1_555 A OE1 GLU 52 A GLU 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc2 C CA CA . A CA 1 1_555 A O ASN 54 A ASN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc3 C CA CA . A CA 1 1_555 A O VAL 57 A VAL 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc4 C CA CA . A CA 1 1_555 A OE1 GLU 59 A GLU 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.84 ? metalc ? metalc5 C CA CA . A CA 1 1_555 A OE1 GLU 62 A GLU 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc6 C CA CA . A CA 1 1_555 D O HOH . A HOH 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1YF4 _atom_sites.fract_transf_matrix[1][1] 0.016871 _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] 0.016141 _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] 0.014462 _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 3 CA A 1 1 1 CA CA . D 4 HOH A 1 246 1 HOH HOH . D 4 HOH A 2 247 2 HOH HOH . D 4 HOH A 3 248 3 HOH HOH . D 4 HOH A 4 249 4 HOH HOH . D 4 HOH A 5 250 5 HOH HOH . D 4 HOH A 6 251 6 HOH HOH . D 4 HOH A 7 252 7 HOH HOH . D 4 HOH A 8 253 8 HOH HOH . D 4 HOH A 9 254 9 HOH HOH . D 4 HOH A 10 255 10 HOH HOH . D 4 HOH A 11 256 11 HOH HOH . D 4 HOH A 12 257 12 HOH HOH . D 4 HOH A 13 258 13 HOH HOH . D 4 HOH A 14 259 14 HOH HOH . D 4 HOH A 15 260 15 HOH HOH . D 4 HOH A 16 261 16 HOH HOH . D 4 HOH A 17 262 17 HOH HOH . D 4 HOH A 18 263 18 HOH HOH . D 4 HOH A 19 264 19 HOH HOH . D 4 HOH A 20 265 20 HOH HOH . D 4 HOH A 21 266 21 HOH HOH . D 4 HOH A 22 267 23 HOH HOH . D 4 HOH A 23 268 24 HOH HOH . D 4 HOH A 24 269 25 HOH HOH . D 4 HOH A 25 270 27 HOH HOH . D 4 HOH A 26 271 28 HOH HOH . D 4 HOH A 27 272 29 HOH HOH . D 4 HOH A 28 273 30 HOH HOH . D 4 HOH A 29 274 31 HOH HOH . D 4 HOH A 30 275 32 HOH HOH . D 4 HOH A 31 276 33 HOH HOH . D 4 HOH A 32 277 34 HOH HOH . D 4 HOH A 33 278 35 HOH HOH . D 4 HOH A 34 279 36 HOH HOH . D 4 HOH A 35 280 37 HOH HOH . D 4 HOH A 36 281 38 HOH HOH . D 4 HOH A 37 282 39 HOH HOH . D 4 HOH A 38 283 40 HOH HOH . D 4 HOH A 39 284 41 HOH HOH . D 4 HOH A 40 285 42 HOH HOH . D 4 HOH A 41 286 43 HOH HOH . D 4 HOH A 42 287 45 HOH HOH . D 4 HOH A 43 288 47 HOH HOH . D 4 HOH A 44 289 48 HOH HOH . D 4 HOH A 45 290 49 HOH HOH . D 4 HOH A 46 291 50 HOH HOH . D 4 HOH A 47 292 51 HOH HOH . D 4 HOH A 48 293 52 HOH HOH . D 4 HOH A 49 294 53 HOH HOH . D 4 HOH A 50 295 54 HOH HOH . D 4 HOH A 51 296 55 HOH HOH . D 4 HOH A 52 297 56 HOH HOH . D 4 HOH A 53 298 57 HOH HOH . D 4 HOH A 54 299 58 HOH HOH . D 4 HOH A 55 300 59 HOH HOH . D 4 HOH A 56 301 60 HOH HOH . D 4 HOH A 57 302 61 HOH HOH . D 4 HOH A 58 303 62 HOH HOH . D 4 HOH A 59 304 63 HOH HOH . D 4 HOH A 60 305 64 HOH HOH . D 4 HOH A 61 306 65 HOH HOH . D 4 HOH A 62 307 66 HOH HOH . D 4 HOH A 63 308 68 HOH HOH . D 4 HOH A 64 309 69 HOH HOH . D 4 HOH A 65 310 70 HOH HOH . D 4 HOH A 66 311 71 HOH HOH . D 4 HOH A 67 312 72 HOH HOH . D 4 HOH A 68 313 73 HOH HOH . D 4 HOH A 69 314 74 HOH HOH . D 4 HOH A 70 315 75 HOH HOH . D 4 HOH A 71 316 76 HOH HOH . D 4 HOH A 72 317 77 HOH HOH . D 4 HOH A 73 318 78 HOH HOH . D 4 HOH A 74 319 79 HOH HOH . D 4 HOH A 75 320 80 HOH HOH . D 4 HOH A 76 321 81 HOH HOH . D 4 HOH A 77 322 82 HOH HOH . D 4 HOH A 78 323 83 HOH HOH . D 4 HOH A 79 324 84 HOH HOH . D 4 HOH A 80 325 85 HOH HOH . D 4 HOH A 81 326 86 HOH HOH . D 4 HOH A 82 327 87 HOH HOH . D 4 HOH A 83 328 88 HOH HOH . D 4 HOH A 84 329 90 HOH HOH . D 4 HOH A 85 330 91 HOH HOH . D 4 HOH A 86 331 92 HOH HOH . D 4 HOH A 87 332 93 HOH HOH . D 4 HOH A 88 333 94 HOH HOH . D 4 HOH A 89 334 95 HOH HOH . D 4 HOH A 90 335 96 HOH HOH . D 4 HOH A 91 336 98 HOH HOH . D 4 HOH A 92 337 99 HOH HOH . D 4 HOH A 93 338 100 HOH HOH . D 4 HOH A 94 339 101 HOH HOH . D 4 HOH A 95 340 102 HOH HOH . D 4 HOH A 96 341 103 HOH HOH . D 4 HOH A 97 342 104 HOH HOH . D 4 HOH A 98 343 105 HOH HOH . D 4 HOH A 99 344 107 HOH HOH . D 4 HOH A 100 345 108 HOH HOH . D 4 HOH A 101 346 109 HOH HOH . D 4 HOH A 102 347 110 HOH HOH . D 4 HOH A 103 348 111 HOH HOH . D 4 HOH A 104 349 112 HOH HOH . D 4 HOH A 105 350 113 HOH HOH . D 4 HOH A 106 351 114 HOH HOH . D 4 HOH A 107 352 116 HOH HOH . D 4 HOH A 108 353 118 HOH HOH . D 4 HOH A 109 354 119 HOH HOH . D 4 HOH A 110 355 120 HOH HOH . D 4 HOH A 111 356 125 HOH HOH . D 4 HOH A 112 357 126 HOH HOH . D 4 HOH A 113 358 127 HOH HOH . D 4 HOH A 114 359 128 HOH HOH . D 4 HOH A 115 360 129 HOH HOH . D 4 HOH A 116 361 130 HOH HOH . D 4 HOH A 117 362 131 HOH HOH . D 4 HOH A 118 363 132 HOH HOH . D 4 HOH A 119 364 133 HOH HOH . D 4 HOH A 120 365 134 HOH HOH . D 4 HOH A 121 366 135 HOH HOH . D 4 HOH A 122 367 136 HOH HOH . D 4 HOH A 123 368 137 HOH HOH . D 4 HOH A 124 369 138 HOH HOH . D 4 HOH A 125 370 139 HOH HOH . D 4 HOH A 126 371 140 HOH HOH . D 4 HOH A 127 372 141 HOH HOH . D 4 HOH A 128 373 142 HOH HOH . D 4 HOH A 129 374 143 HOH HOH . D 4 HOH A 130 375 144 HOH HOH . D 4 HOH A 131 376 145 HOH HOH . D 4 HOH A 132 377 146 HOH HOH . D 4 HOH A 133 378 147 HOH HOH . E 4 HOH B 1 22 22 HOH HOH . E 4 HOH B 2 26 26 HOH HOH . E 4 HOH B 3 44 44 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id C _atom_site.label_entity_id 3 _atom_site.Cartn_x 4.627 _atom_site.Cartn_y 29.914 _atom_site.Cartn_z -22.107 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 19.83 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 1 _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 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #