data_5D2U # _model_server_result.job_id S5kVjtyJoF0JGMa79ETY7g _model_server_result.datetime_utc '2024-10-14 09:22:38' _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 5d2u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5D2U # _exptl.entry_id 5D2U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 4 _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 5D2U _cell.length_a 38.042 _cell.length_b 153.872 _cell.length_c 82.761 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D2U _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 ? 2 D N N ? 2 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 metalc ? metalc1 A OD1 ASP 37 A ASP 34 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.033 ? metalc ? metalc2 A OD2 ASP 37 A ASP 34 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc3 A OD1 ASP 37 A ASP 34 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc4 A O GLY 38 A GLY 35 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc5 A OD2 ASP 122 A ASP 119 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc6 A OD1 ASP 196 A ASP 193 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc7 A OD2 ASP 196 A ASP 193 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc8 A OE1 GLU 201 A GLU 198 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc9 A O HIS 230 A HIS 227 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc10 A OD2 ASP 234 A ASP 231 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc11 B CA CA . A CA 301 1_555 F O HOH . A HOH 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc12 B CA CA . A CA 301 1_555 F O HOH . A HOH 429 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc13 B CA CA . A CA 301 1_555 F O HOH . A HOH 441 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc14 B CA CA . A CA 301 1_555 F O HOH . A HOH 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.811 ? metalc ? metalc15 C CA CA . A CA 302 1_555 F O HOH . A HOH 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc16 C CA CA . A CA 302 1_555 F O HOH . A HOH 429 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc17 C CA CA . A CA 302 1_555 F O HOH . A HOH 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.153 ? metalc ? metalc18 C CA CA . A CA 302 1_555 F O HOH . A HOH 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc19 C CA CA . A CA 302 1_555 F O HOH . A HOH 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc20 C CA CA . A CA 302 1_555 F O HOH . A HOH 484 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc21 D CA CA . A CA 303 1_555 F O HOH . A HOH 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc22 D CA CA . A CA 303 1_555 F O HOH . A HOH 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc23 E CA CA . A CA 304 1_555 F O HOH . A HOH 443 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc24 E CA CA . A CA 304 1_555 F O HOH . A HOH 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? metalc ? metalc25 E CA CA . A CA 304 1_555 F O HOH . A HOH 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc26 E CA CA . A CA 304 1_555 F O HOH . A HOH 461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc27 E CA CA . A CA 304 1_555 F O HOH . A HOH 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.188 ? metalc ? metalc28 E CA CA . A CA 304 1_555 F O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? # _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 5D2U _atom_sites.fract_transf_matrix[1][1] 0.026287 _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] 0.006499 _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] 0.012083 _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 CA A 1 301 1 CA CA . C 2 CA A 1 302 2 CA CA . D 2 CA A 1 303 3 CA CA . E 2 CA A 1 304 4 CA CA . F 3 HOH A 1 401 107 HOH HOH . F 3 HOH A 2 402 33 HOH HOH . F 3 HOH A 3 403 106 HOH HOH . F 3 HOH A 4 404 26 HOH HOH . F 3 HOH A 5 405 53 HOH HOH . F 3 HOH A 6 406 40 HOH HOH . F 3 HOH A 7 407 62 HOH HOH . F 3 HOH A 8 408 82 HOH HOH . F 3 HOH A 9 409 17 HOH HOH . F 3 HOH A 10 410 35 HOH HOH . F 3 HOH A 11 411 80 HOH HOH . F 3 HOH A 12 412 14 HOH HOH . F 3 HOH A 13 413 1 HOH HOH . F 3 HOH A 14 414 15 HOH HOH . F 3 HOH A 15 415 66 HOH HOH . F 3 HOH A 16 416 38 HOH HOH . F 3 HOH A 17 417 32 HOH HOH . F 3 HOH A 18 418 72 HOH HOH . F 3 HOH A 19 419 7 HOH HOH . F 3 HOH A 20 420 18 HOH HOH . F 3 HOH A 21 421 44 HOH HOH . F 3 HOH A 22 422 9 HOH HOH . F 3 HOH A 23 423 2 HOH HOH . F 3 HOH A 24 424 16 HOH HOH . F 3 HOH A 25 425 6 HOH HOH . F 3 HOH A 26 426 102 HOH HOH . F 3 HOH A 27 427 10 HOH HOH . F 3 HOH A 28 428 73 HOH HOH . F 3 HOH A 29 429 83 HOH HOH . F 3 HOH A 30 430 105 HOH HOH . F 3 HOH A 31 431 93 HOH HOH . F 3 HOH A 32 432 75 HOH HOH . F 3 HOH A 33 433 45 HOH HOH . F 3 HOH A 34 434 30 HOH HOH . F 3 HOH A 35 435 24 HOH HOH . F 3 HOH A 36 436 31 HOH HOH . F 3 HOH A 37 437 68 HOH HOH . F 3 HOH A 38 438 51 HOH HOH . F 3 HOH A 39 439 36 HOH HOH . F 3 HOH A 40 440 57 HOH HOH . F 3 HOH A 41 441 3 HOH HOH . F 3 HOH A 42 442 113 HOH HOH . F 3 HOH A 43 443 70 HOH HOH . F 3 HOH A 44 444 12 HOH HOH . F 3 HOH A 45 445 100 HOH HOH . F 3 HOH A 46 446 28 HOH HOH . F 3 HOH A 47 447 27 HOH HOH . F 3 HOH A 48 448 20 HOH HOH . F 3 HOH A 49 449 95 HOH HOH . F 3 HOH A 50 450 37 HOH HOH . F 3 HOH A 51 451 19 HOH HOH . F 3 HOH A 52 452 78 HOH HOH . F 3 HOH A 53 453 85 HOH HOH . F 3 HOH A 54 454 94 HOH HOH . F 3 HOH A 55 455 58 HOH HOH . F 3 HOH A 56 456 79 HOH HOH . F 3 HOH A 57 457 87 HOH HOH . F 3 HOH A 58 458 5 HOH HOH . F 3 HOH A 59 459 4 HOH HOH . F 3 HOH A 60 460 64 HOH HOH . F 3 HOH A 61 461 86 HOH HOH . F 3 HOH A 62 462 21 HOH HOH . F 3 HOH A 63 463 23 HOH HOH . F 3 HOH A 64 464 13 HOH HOH . F 3 HOH A 65 465 99 HOH HOH . F 3 HOH A 66 466 46 HOH HOH . F 3 HOH A 67 467 11 HOH HOH . F 3 HOH A 68 468 25 HOH HOH . F 3 HOH A 69 469 108 HOH HOH . F 3 HOH A 70 470 42 HOH HOH . F 3 HOH A 71 471 71 HOH HOH . F 3 HOH A 72 472 110 HOH HOH . F 3 HOH A 73 473 29 HOH HOH . F 3 HOH A 74 474 97 HOH HOH . F 3 HOH A 75 475 84 HOH HOH . F 3 HOH A 76 476 81 HOH HOH . F 3 HOH A 77 477 22 HOH HOH . F 3 HOH A 78 478 54 HOH HOH . F 3 HOH A 79 479 61 HOH HOH . F 3 HOH A 80 480 89 HOH HOH . F 3 HOH A 81 481 8 HOH HOH . F 3 HOH A 82 482 59 HOH HOH . F 3 HOH A 83 483 90 HOH HOH . F 3 HOH A 84 484 88 HOH HOH . F 3 HOH A 85 485 41 HOH HOH . F 3 HOH A 86 486 91 HOH HOH . F 3 HOH A 87 487 98 HOH HOH . F 3 HOH A 88 488 112 HOH HOH . F 3 HOH A 89 489 52 HOH HOH . F 3 HOH A 90 490 55 HOH HOH . F 3 HOH A 91 491 103 HOH HOH . F 3 HOH A 92 492 34 HOH HOH . F 3 HOH A 93 493 50 HOH HOH . F 3 HOH A 94 494 39 HOH HOH . F 3 HOH A 95 495 109 HOH HOH . F 3 HOH A 96 496 92 HOH HOH . F 3 HOH A 97 497 101 HOH HOH . F 3 HOH A 98 498 114 HOH HOH . F 3 HOH A 99 499 104 HOH HOH . F 3 HOH A 100 500 43 HOH HOH . F 3 HOH A 101 501 96 HOH HOH . F 3 HOH A 102 502 111 HOH HOH . F 3 HOH A 103 503 77 HOH HOH . F 3 HOH A 104 504 74 HOH HOH . F 3 HOH A 105 505 48 HOH HOH . F 3 HOH A 106 506 47 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 D _atom_site.label_entity_id 2 _atom_site.Cartn_x -5.908 _atom_site.Cartn_y -11.177 _atom_site.Cartn_z 4.243 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 42.93 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 303 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 358 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #