data_5CKM # _model_server_result.job_id KZvEF19dplr4c8Xkidrs3g _model_server_result.datetime_utc '2024-10-22 15:30:07' _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 5ckm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5CKM # _exptl.entry_id 5CKM _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 3 _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 5CKM _cell.length_a 82.9 _cell.length_b 119.39 _cell.length_c 104.02 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CKM _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 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 # 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 52 A CYS 53 1_555 A SG CYS 70 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 122 A CYS 123 1_555 A SG CYS 136 A CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 132 A CYS 133 1_555 A SG CYS 145 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf4 A SG CYS 147 A CYS 148 1_555 A SG CYS 160 A CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 164 A CYS 165 1_555 A SG CYS 191 A CYS 192 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 221 A CYS 222 1_555 A SG CYS 239 A CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 83 A ASN 84 1_555 E C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? metalc ? metalc1 A OE2 GLU 47 A GLU 48 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc2 A OD1 ASP 55 A ASP 56 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc3 A OD2 ASP 55 A ASP 56 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc4 A OD1 ASP 100 A ASP 101 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc5 A O SER 102 A SER 103 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc6 A OD1 ASN 103 A ASN 104 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc7 A OD1 ASP 118 A ASP 119 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? metalc ? metalc8 A OD2 ASP 118 A ASP 119 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc9 A O VAL 119 A VAL 120 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc10 A OE1 GLU 121 A GLU 122 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.792 ? metalc ? metalc11 A OD1 ASN 138 A ASN 139 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc12 A O TYR 139 A TYR 140 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc13 A O GLY 142 A GLY 143 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc14 A OE1 GLU 214 A GLU 215 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? metalc ? metalc15 A OD1 ASP 224 A ASP 225 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.733 ? metalc ? metalc16 A OD2 ASP 224 A ASP 225 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.634 ? metalc ? metalc17 A OD1 ASP 261 A ASP 262 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc18 A O SER 263 A SER 264 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc19 B CA CA . A CA 301 1_555 F O HOH . A HOH 479 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc20 C CA CA . A CA 302 1_555 F O HOH . A HOH 464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc21 D CA CA . A CA 303 1_555 F O HOH . A HOH 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? # _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 5CKM _atom_sites.fract_transf_matrix[1][1] 0.012063 _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] 0.008376 _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] 0.009614 _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 1 301 290 CA CA . C 2 CA A 1 302 291 CA CA . D 2 CA A 1 303 292 CA CA . E 3 NAG A 1 304 300 NAG NAG . F 4 HOH A 1 401 78 HOH HOH . F 4 HOH A 2 402 137 HOH HOH . F 4 HOH A 3 403 25 HOH HOH . F 4 HOH A 4 404 114 HOH HOH . F 4 HOH A 5 405 51 HOH HOH . F 4 HOH A 6 406 83 HOH HOH . F 4 HOH A 7 407 23 HOH HOH . F 4 HOH A 8 408 17 HOH HOH . F 4 HOH A 9 409 71 HOH HOH . F 4 HOH A 10 410 37 HOH HOH . F 4 HOH A 11 411 31 HOH HOH . F 4 HOH A 12 412 75 HOH HOH . F 4 HOH A 13 413 34 HOH HOH . F 4 HOH A 14 414 68 HOH HOH . F 4 HOH A 15 415 92 HOH HOH . F 4 HOH A 16 416 4 HOH HOH . F 4 HOH A 17 417 36 HOH HOH . F 4 HOH A 18 418 57 HOH HOH . F 4 HOH A 19 419 46 HOH HOH . F 4 HOH A 20 420 111 HOH HOH . F 4 HOH A 21 421 130 HOH HOH . F 4 HOH A 22 422 82 HOH HOH . F 4 HOH A 23 423 3 HOH HOH . F 4 HOH A 24 424 132 HOH HOH . F 4 HOH A 25 425 72 HOH HOH . F 4 HOH A 26 426 60 HOH HOH . F 4 HOH A 27 427 128 HOH HOH . F 4 HOH A 28 428 28 HOH HOH . F 4 HOH A 29 429 89 HOH HOH . F 4 HOH A 30 430 18 HOH HOH . F 4 HOH A 31 431 126 HOH HOH . F 4 HOH A 32 432 77 HOH HOH . F 4 HOH A 33 433 41 HOH HOH . F 4 HOH A 34 434 21 HOH HOH . F 4 HOH A 35 435 15 HOH HOH . F 4 HOH A 36 436 127 HOH HOH . F 4 HOH A 37 437 38 HOH HOH . F 4 HOH A 38 438 11 HOH HOH . F 4 HOH A 39 439 13 HOH HOH . F 4 HOH A 40 440 135 HOH HOH . F 4 HOH A 41 441 14 HOH HOH . F 4 HOH A 42 442 1 HOH HOH . F 4 HOH A 43 443 58 HOH HOH . F 4 HOH A 44 444 79 HOH HOH . F 4 HOH A 45 445 134 HOH HOH . F 4 HOH A 46 446 76 HOH HOH . F 4 HOH A 47 447 27 HOH HOH . F 4 HOH A 48 448 117 HOH HOH . F 4 HOH A 49 449 39 HOH HOH . F 4 HOH A 50 450 106 HOH HOH . F 4 HOH A 51 451 26 HOH HOH . F 4 HOH A 52 452 91 HOH HOH . F 4 HOH A 53 453 118 HOH HOH . F 4 HOH A 54 454 87 HOH HOH . F 4 HOH A 55 455 9 HOH HOH . F 4 HOH A 56 456 66 HOH HOH . F 4 HOH A 57 457 19 HOH HOH . F 4 HOH A 58 458 33 HOH HOH . F 4 HOH A 59 459 32 HOH HOH . F 4 HOH A 60 460 8 HOH HOH . F 4 HOH A 61 461 6 HOH HOH . F 4 HOH A 62 462 16 HOH HOH . F 4 HOH A 63 463 12 HOH HOH . F 4 HOH A 64 464 80 HOH HOH . F 4 HOH A 65 465 99 HOH HOH . F 4 HOH A 66 466 90 HOH HOH . F 4 HOH A 67 467 20 HOH HOH . F 4 HOH A 68 468 94 HOH HOH . F 4 HOH A 69 469 59 HOH HOH . F 4 HOH A 70 470 104 HOH HOH . F 4 HOH A 71 471 24 HOH HOH . F 4 HOH A 72 472 70 HOH HOH . F 4 HOH A 73 473 107 HOH HOH . F 4 HOH A 74 474 81 HOH HOH . F 4 HOH A 75 475 120 HOH HOH . F 4 HOH A 76 476 105 HOH HOH . F 4 HOH A 77 477 22 HOH HOH . F 4 HOH A 78 478 2 HOH HOH . F 4 HOH A 79 479 52 HOH HOH . F 4 HOH A 80 480 35 HOH HOH . F 4 HOH A 81 481 97 HOH HOH . F 4 HOH A 82 482 40 HOH HOH . F 4 HOH A 83 483 100 HOH HOH . F 4 HOH A 84 484 10 HOH HOH . F 4 HOH A 85 485 98 HOH HOH . F 4 HOH A 86 486 74 HOH HOH . F 4 HOH A 87 487 7 HOH HOH . F 4 HOH A 88 488 42 HOH HOH . F 4 HOH A 89 489 30 HOH HOH . F 4 HOH A 90 490 45 HOH HOH . F 4 HOH A 91 491 95 HOH HOH . F 4 HOH A 92 492 84 HOH HOH . F 4 HOH A 93 493 64 HOH HOH . F 4 HOH A 94 494 109 HOH HOH . F 4 HOH A 95 495 116 HOH HOH . F 4 HOH A 96 496 48 HOH HOH . F 4 HOH A 97 497 122 HOH HOH . F 4 HOH A 98 498 131 HOH HOH . F 4 HOH A 99 499 50 HOH HOH . F 4 HOH A 100 500 62 HOH HOH . F 4 HOH A 101 501 141 HOH HOH . F 4 HOH A 102 502 54 HOH HOH . F 4 HOH A 103 503 49 HOH HOH . F 4 HOH A 104 504 110 HOH HOH . F 4 HOH A 105 505 55 HOH HOH . F 4 HOH A 106 506 5 HOH HOH . F 4 HOH A 107 507 123 HOH HOH . F 4 HOH A 108 508 125 HOH HOH . F 4 HOH A 109 509 29 HOH HOH . F 4 HOH A 110 510 88 HOH HOH . F 4 HOH A 111 511 136 HOH HOH . F 4 HOH A 112 512 113 HOH HOH . F 4 HOH A 113 513 102 HOH HOH . F 4 HOH A 114 514 119 HOH HOH . F 4 HOH A 115 515 93 HOH HOH . F 4 HOH A 116 516 133 HOH HOH . F 4 HOH A 117 517 85 HOH HOH . F 4 HOH A 118 518 96 HOH HOH . F 4 HOH A 119 519 47 HOH HOH . F 4 HOH A 120 520 65 HOH HOH . F 4 HOH A 121 521 63 HOH HOH . F 4 HOH A 122 522 61 HOH HOH . F 4 HOH A 123 523 103 HOH HOH . F 4 HOH A 124 524 108 HOH HOH . F 4 HOH A 125 525 124 HOH HOH . F 4 HOH A 126 526 53 HOH HOH . F 4 HOH A 127 527 140 HOH HOH . F 4 HOH A 128 528 67 HOH HOH . F 4 HOH A 129 529 121 HOH HOH . F 4 HOH A 130 530 138 HOH HOH . F 4 HOH A 131 531 69 HOH HOH . F 4 HOH A 132 532 129 HOH HOH . F 4 HOH A 133 533 139 HOH HOH . F 4 HOH A 134 534 43 HOH HOH . F 4 HOH A 135 535 73 HOH HOH . F 4 HOH A 136 536 101 HOH HOH . F 4 HOH A 137 537 86 HOH HOH . F 4 HOH A 138 538 44 HOH HOH . F 4 HOH A 139 539 112 HOH HOH . F 4 HOH A 140 540 56 HOH HOH . F 4 HOH A 141 541 115 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 15.514 _atom_site.Cartn_y -33.52 _atom_site.Cartn_z -13.613 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.88 _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 22 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #