data_1YQL # _model_server_result.job_id 7Xr7wtFOQ3HAfTlB_g1GCA _model_server_result.datetime_utc '2024-12-24 14:01:05' _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 1yql # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":328}' # _entry.id 1YQL # _exptl.entry_id 1YQL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM 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 120 _cell.entry_id 1YQL _cell.length_a 92.322 _cell.length_b 92.322 _cell.length_c 210.744 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YQL _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 D N N ? 4 E 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 covale ? covale1 B O3' DA 5 C DA 22 1_555 B P PPW 6 C PPW 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.602 ? covale ? covale2 B O3' PPW 6 C PPW 23 1_555 B P DG 7 C DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? metalc ? metalc1 B OP1 DG 7 C DG 24 1_555 D CA CA . C CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc2 B OP2 DC 9 C DC 26 1_555 E CA CA . A CA 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.394 ? metalc ? metalc3 B OP1 DC 9 C DC 26 1_555 E CA CA . A CA 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc4 C O CYS 233 A CYS 241 1_555 E CA CA . A CA 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc5 C O LEU 235 A LEU 243 1_555 E CA CA . A CA 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.704 ? metalc ? metalc6 C O VAL 238 A VAL 246 1_555 E CA CA . A CA 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? hydrog WATSON-CRICK hydrog1 A N1 DG 2 B DG 2 1_555 B N3 DC 12 C DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 2 B DG 2 1_555 B O2 DC 12 C DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 2 B DG 2 1_555 B N4 DC 12 C DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 DT 3 B DT 3 1_555 B N1 DA 11 C DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O4 DT 3 B DT 3 1_555 B N6 DA 11 C DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 DA 4 B DA 4 1_555 B N3 DT 10 C DT 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N6 DA 4 B DA 4 1_555 B O4 DT 10 C DT 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DG 5 B DG 5 1_555 B N3 DC 9 C DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N2 DG 5 B DG 5 1_555 B O2 DC 9 C DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O6 DG 5 B DG 5 1_555 B N4 DC 9 C DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N1 DA 6 B DA 6 1_555 B N3 DT 8 C DT 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N6 DA 6 B DA 6 1_555 B O4 DT 8 C DT 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N3 DC 7 B DC 7 1_555 B N1 DG 7 C DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N4 DC 7 B DC 7 1_555 B O6 DG 7 C DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O2 DC 7 B DC 7 1_555 B N2 DG 7 C DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N3 DT 9 B DT 9 1_555 B N1 DA 5 C DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O4 DT 9 B DT 9 1_555 B N6 DA 5 C DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N1 DG 10 B DG 10 1_555 B N3 DC 4 C DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N2 DG 10 B DG 10 1_555 B O2 DC 4 C DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O6 DG 10 B DG 10 1_555 B N4 DC 4 C DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog21 A N1 DG 11 B DG 11 1_555 B N3 DC 3 C DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N1 DA 12 B DA 12 1_555 B N3 DT 2 C DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N6 DA 12 B DA 12 1_555 B O4 DT 2 C DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N3 DC 13 B DC 13 1_555 B N1 DG 1 C DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N4 DC 13 B DC 13 1_555 B O6 DG 1 C DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O2 DC 13 B DC 13 1_555 B N2 DG 1 C DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 1YQL _atom_sites.fract_transf_matrix[1][1] 0.010832 _atom_sites.fract_transf_matrix[1][2] 0.006254 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012507 _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] 0.004745 _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 D 4 CA C 1 201 1 CA CA2 . E 4 CA A 1 328 2 CA CA2 . F 5 HOH B 1 75 75 HOH HOH . G 5 HOH C 1 202 28 HOH HOH . G 5 HOH C 2 203 52 HOH HOH . G 5 HOH C 3 204 55 HOH HOH . G 5 HOH C 4 205 124 HOH HOH . G 5 HOH C 5 206 126 HOH HOH . H 5 HOH A 1 329 3 HOH HOH . H 5 HOH A 2 330 4 HOH HOH . H 5 HOH A 3 331 5 HOH HOH . H 5 HOH A 4 332 6 HOH HOH . H 5 HOH A 5 333 7 HOH HOH . H 5 HOH A 6 334 8 HOH HOH . H 5 HOH A 7 335 9 HOH HOH . H 5 HOH A 8 336 10 HOH HOH . H 5 HOH A 9 337 11 HOH HOH . H 5 HOH A 10 338 12 HOH HOH . H 5 HOH A 11 339 13 HOH HOH . H 5 HOH A 12 340 14 HOH HOH . H 5 HOH A 13 341 15 HOH HOH . H 5 HOH A 14 342 16 HOH HOH . H 5 HOH A 15 343 17 HOH HOH . H 5 HOH A 16 344 18 HOH HOH . H 5 HOH A 17 345 19 HOH HOH . H 5 HOH A 18 346 20 HOH HOH . H 5 HOH A 19 347 21 HOH HOH . H 5 HOH A 20 348 22 HOH HOH . H 5 HOH A 21 349 23 HOH HOH . H 5 HOH A 22 350 24 HOH HOH . H 5 HOH A 23 351 25 HOH HOH . H 5 HOH A 24 352 26 HOH HOH . H 5 HOH A 25 353 27 HOH HOH . H 5 HOH A 26 354 29 HOH HOH . H 5 HOH A 27 355 30 HOH HOH . H 5 HOH A 28 356 31 HOH HOH . H 5 HOH A 29 357 32 HOH HOH . H 5 HOH A 30 358 33 HOH HOH . H 5 HOH A 31 359 34 HOH HOH . H 5 HOH A 32 360 35 HOH HOH . H 5 HOH A 33 361 36 HOH HOH . H 5 HOH A 34 362 37 HOH HOH . H 5 HOH A 35 363 38 HOH HOH . H 5 HOH A 36 364 39 HOH HOH . H 5 HOH A 37 365 40 HOH HOH . H 5 HOH A 38 366 41 HOH HOH . H 5 HOH A 39 367 42 HOH HOH . H 5 HOH A 40 368 43 HOH HOH . H 5 HOH A 41 369 44 HOH HOH . H 5 HOH A 42 370 45 HOH HOH . H 5 HOH A 43 371 46 HOH HOH . H 5 HOH A 44 372 47 HOH HOH . H 5 HOH A 45 373 48 HOH HOH . H 5 HOH A 46 374 49 HOH HOH . H 5 HOH A 47 375 50 HOH HOH . H 5 HOH A 48 376 51 HOH HOH . H 5 HOH A 49 377 53 HOH HOH . H 5 HOH A 50 378 54 HOH HOH . H 5 HOH A 51 379 56 HOH HOH . H 5 HOH A 52 380 57 HOH HOH . H 5 HOH A 53 381 58 HOH HOH . H 5 HOH A 54 382 59 HOH HOH . H 5 HOH A 55 383 60 HOH HOH . H 5 HOH A 56 384 61 HOH HOH . H 5 HOH A 57 385 62 HOH HOH . H 5 HOH A 58 386 63 HOH HOH . H 5 HOH A 59 387 64 HOH HOH . H 5 HOH A 60 388 65 HOH HOH . H 5 HOH A 61 389 66 HOH HOH . H 5 HOH A 62 390 67 HOH HOH . H 5 HOH A 63 391 68 HOH HOH . H 5 HOH A 64 392 69 HOH HOH . H 5 HOH A 65 393 70 HOH HOH . H 5 HOH A 66 394 71 HOH HOH . H 5 HOH A 67 395 72 HOH HOH . H 5 HOH A 68 396 73 HOH HOH . H 5 HOH A 69 397 76 HOH HOH . H 5 HOH A 70 398 77 HOH HOH . H 5 HOH A 71 399 78 HOH HOH . H 5 HOH A 72 400 79 HOH HOH . H 5 HOH A 73 401 80 HOH HOH . H 5 HOH A 74 402 81 HOH HOH . H 5 HOH A 75 403 82 HOH HOH . H 5 HOH A 76 404 83 HOH HOH . H 5 HOH A 77 405 84 HOH HOH . H 5 HOH A 78 406 85 HOH HOH . H 5 HOH A 79 407 86 HOH HOH . H 5 HOH A 80 408 87 HOH HOH . H 5 HOH A 81 409 88 HOH HOH . H 5 HOH A 82 410 89 HOH HOH . H 5 HOH A 83 411 90 HOH HOH . H 5 HOH A 84 412 91 HOH HOH . H 5 HOH A 85 413 92 HOH HOH . H 5 HOH A 86 414 93 HOH HOH . H 5 HOH A 87 415 94 HOH HOH . H 5 HOH A 88 416 97 HOH HOH . H 5 HOH A 89 417 99 HOH HOH . H 5 HOH A 90 418 100 HOH HOH . H 5 HOH A 91 419 101 HOH HOH . H 5 HOH A 92 420 105 HOH HOH . H 5 HOH A 93 421 108 HOH HOH . H 5 HOH A 94 422 113 HOH HOH . H 5 HOH A 95 423 115 HOH HOH . H 5 HOH A 96 424 116 HOH HOH . H 5 HOH A 97 425 117 HOH HOH . H 5 HOH A 98 426 118 HOH HOH . H 5 HOH A 99 427 119 HOH HOH . H 5 HOH A 100 428 120 HOH HOH . H 5 HOH A 101 429 121 HOH HOH . H 5 HOH A 102 430 122 HOH HOH . H 5 HOH A 103 431 123 HOH HOH . H 5 HOH A 104 432 125 HOH HOH . H 5 HOH A 105 433 127 HOH HOH . H 5 HOH A 106 434 128 HOH HOH . H 5 HOH A 107 435 129 HOH HOH . H 5 HOH A 108 436 130 HOH HOH . H 5 HOH A 109 437 131 HOH HOH . H 5 HOH A 110 438 132 HOH HOH . H 5 HOH A 111 439 133 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 E _atom_site.label_entity_id 4 _atom_site.Cartn_x 6.256 _atom_site.Cartn_y 29.842 _atom_site.Cartn_z 40.295 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 49.47 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 328 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 1 #