data_6YDJ # _model_server_result.job_id deAhaXmbn0cYLW1g8DHXhQ _model_server_result.datetime_utc '2024-11-08 13:46:29' _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 6ydj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 6YDJ # _exptl.entry_id 6YDJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM 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 6YDJ _cell.length_a 37.08 _cell.length_b 54.25 _cell.length_c 104.32 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YDJ _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 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,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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 metalc ? metalc1 A OD1 ASP 8 A ASP 8 1_555 C MG MGF . A MGF 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc2 A OD2 ASP 8 A ASP 8 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc3 A O ASP 10 A ASP 10 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc4 A O GLU 124 A GLU 124 1_555 E NA NA . A NA 304 4_475 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc5 A OD1 ASN 127 A ASN 127 1_555 E NA NA . A NA 304 4_475 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc6 A OD1 ASP 170 A ASP 170 1_555 D MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc7 B O1 BG6 . A BG6 301 1_555 C MG MGF . A MGF 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc8 D MG MG . A MG 303 1_555 H O HOH . A HOH 441 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc9 D MG MG . A MG 303 1_555 H O HOH . A HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc10 E NA NA . A NA 304 1_555 H O HOH . A HOH 440 4_575 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc11 E NA NA . A NA 304 1_555 H O HOH . A HOH 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc12 E NA NA . A NA 304 1_555 H O HOH . A HOH 561 4_575 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc13 E NA NA . A NA 304 1_555 H O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6YDJ _atom_sites.fract_transf_matrix[1][1] 0.026969 _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] 0.018433 _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] 0.009586 _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 BG6 A 1 301 1831 BG6 BG6 . C 3 MGF A 1 302 2832 MGF MGF . D 4 MG A 1 303 2833 MG MG . E 5 NA A 1 304 1 NA NA . F 6 EDO A 1 305 2 EDO EDO . G 7 PDO A 1 306 1 PDO PDO . H 8 HOH A 1 401 93 HOH HOH . H 8 HOH A 2 402 174 HOH HOH . H 8 HOH A 3 403 1 HOH HOH . H 8 HOH A 4 404 162 HOH HOH . H 8 HOH A 5 405 213 HOH HOH . H 8 HOH A 6 406 134 HOH HOH . H 8 HOH A 7 407 43 HOH HOH . H 8 HOH A 8 408 71 HOH HOH . H 8 HOH A 9 409 50 HOH HOH . H 8 HOH A 10 410 156 HOH HOH . H 8 HOH A 11 411 186 HOH HOH . H 8 HOH A 12 412 88 HOH HOH . H 8 HOH A 13 413 27 HOH HOH . H 8 HOH A 14 414 123 HOH HOH . H 8 HOH A 15 415 38 HOH HOH . H 8 HOH A 16 416 115 HOH HOH . H 8 HOH A 17 417 87 HOH HOH . H 8 HOH A 18 418 53 HOH HOH . H 8 HOH A 19 419 179 HOH HOH . H 8 HOH A 20 420 19 HOH HOH . H 8 HOH A 21 421 58 HOH HOH . H 8 HOH A 22 422 99 HOH HOH . H 8 HOH A 23 423 137 HOH HOH . H 8 HOH A 24 424 70 HOH HOH . H 8 HOH A 25 425 175 HOH HOH . H 8 HOH A 26 426 30 HOH HOH . H 8 HOH A 27 427 60 HOH HOH . H 8 HOH A 28 428 66 HOH HOH . H 8 HOH A 29 429 119 HOH HOH . H 8 HOH A 30 430 138 HOH HOH . H 8 HOH A 31 431 202 HOH HOH . H 8 HOH A 32 432 41 HOH HOH . H 8 HOH A 33 433 6 HOH HOH . H 8 HOH A 34 434 193 HOH HOH . H 8 HOH A 35 435 121 HOH HOH . H 8 HOH A 36 436 7 HOH HOH . H 8 HOH A 37 437 81 HOH HOH . H 8 HOH A 38 438 133 HOH HOH . H 8 HOH A 39 439 188 HOH HOH . H 8 HOH A 40 440 72 HOH HOH . H 8 HOH A 41 441 20 HOH HOH . H 8 HOH A 42 442 37 HOH HOH . H 8 HOH A 43 443 44 HOH HOH . H 8 HOH A 44 444 73 HOH HOH . H 8 HOH A 45 445 31 HOH HOH . H 8 HOH A 46 446 4 HOH HOH . H 8 HOH A 47 447 16 HOH HOH . H 8 HOH A 48 448 167 HOH HOH . H 8 HOH A 49 449 14 HOH HOH . H 8 HOH A 50 450 57 HOH HOH . H 8 HOH A 51 451 61 HOH HOH . H 8 HOH A 52 452 143 HOH HOH . H 8 HOH A 53 453 153 HOH HOH . H 8 HOH A 54 454 82 HOH HOH . H 8 HOH A 55 455 56 HOH HOH . H 8 HOH A 56 456 18 HOH HOH . H 8 HOH A 57 457 173 HOH HOH . H 8 HOH A 58 458 26 HOH HOH . H 8 HOH A 59 459 116 HOH HOH . H 8 HOH A 60 460 51 HOH HOH . H 8 HOH A 61 461 109 HOH HOH . H 8 HOH A 62 462 146 HOH HOH . H 8 HOH A 63 463 102 HOH HOH . H 8 HOH A 64 464 74 HOH HOH . H 8 HOH A 65 465 8 HOH HOH . H 8 HOH A 66 466 141 HOH HOH . H 8 HOH A 67 467 92 HOH HOH . H 8 HOH A 68 468 5 HOH HOH . H 8 HOH A 69 469 166 HOH HOH . H 8 HOH A 70 470 45 HOH HOH . H 8 HOH A 71 471 33 HOH HOH . H 8 HOH A 72 472 68 HOH HOH . H 8 HOH A 73 473 161 HOH HOH . H 8 HOH A 74 474 24 HOH HOH . H 8 HOH A 75 475 12 HOH HOH . H 8 HOH A 76 476 80 HOH HOH . H 8 HOH A 77 477 39 HOH HOH . H 8 HOH A 78 478 197 HOH HOH . H 8 HOH A 79 479 28 HOH HOH . H 8 HOH A 80 480 112 HOH HOH . H 8 HOH A 81 481 13 HOH HOH . H 8 HOH A 82 482 150 HOH HOH . H 8 HOH A 83 483 64 HOH HOH . H 8 HOH A 84 484 23 HOH HOH . H 8 HOH A 85 485 129 HOH HOH . H 8 HOH A 86 486 36 HOH HOH . H 8 HOH A 87 487 15 HOH HOH . H 8 HOH A 88 488 78 HOH HOH . H 8 HOH A 89 489 113 HOH HOH . H 8 HOH A 90 490 75 HOH HOH . H 8 HOH A 91 491 46 HOH HOH . H 8 HOH A 92 492 105 HOH HOH . H 8 HOH A 93 493 131 HOH HOH . H 8 HOH A 94 494 185 HOH HOH . H 8 HOH A 95 495 159 HOH HOH . H 8 HOH A 96 496 40 HOH HOH . H 8 HOH A 97 497 187 HOH HOH . H 8 HOH A 98 498 177 HOH HOH . H 8 HOH A 99 499 48 HOH HOH . H 8 HOH A 100 500 196 HOH HOH . H 8 HOH A 101 501 168 HOH HOH . H 8 HOH A 102 502 170 HOH HOH . H 8 HOH A 103 503 76 HOH HOH . H 8 HOH A 104 504 77 HOH HOH . H 8 HOH A 105 505 122 HOH HOH . H 8 HOH A 106 506 17 HOH HOH . H 8 HOH A 107 507 136 HOH HOH . H 8 HOH A 108 508 126 HOH HOH . H 8 HOH A 109 509 49 HOH HOH . H 8 HOH A 110 510 29 HOH HOH . H 8 HOH A 111 511 103 HOH HOH . H 8 HOH A 112 512 139 HOH HOH . H 8 HOH A 113 513 125 HOH HOH . H 8 HOH A 114 514 110 HOH HOH . H 8 HOH A 115 515 25 HOH HOH . H 8 HOH A 116 516 155 HOH HOH . H 8 HOH A 117 517 11 HOH HOH . H 8 HOH A 118 518 97 HOH HOH . H 8 HOH A 119 519 108 HOH HOH . H 8 HOH A 120 520 21 HOH HOH . H 8 HOH A 121 521 67 HOH HOH . H 8 HOH A 122 522 106 HOH HOH . H 8 HOH A 123 523 183 HOH HOH . H 8 HOH A 124 524 89 HOH HOH . H 8 HOH A 125 525 86 HOH HOH . H 8 HOH A 126 526 69 HOH HOH . H 8 HOH A 127 527 90 HOH HOH . H 8 HOH A 128 528 118 HOH HOH . H 8 HOH A 129 529 204 HOH HOH . H 8 HOH A 130 530 148 HOH HOH . H 8 HOH A 131 531 9 HOH HOH . H 8 HOH A 132 532 120 HOH HOH . H 8 HOH A 133 533 84 HOH HOH . H 8 HOH A 134 534 104 HOH HOH . H 8 HOH A 135 535 94 HOH HOH . H 8 HOH A 136 536 85 HOH HOH . H 8 HOH A 137 537 199 HOH HOH . H 8 HOH A 138 538 101 HOH HOH . H 8 HOH A 139 539 42 HOH HOH . H 8 HOH A 140 540 135 HOH HOH . H 8 HOH A 141 541 117 HOH HOH . H 8 HOH A 142 542 95 HOH HOH . H 8 HOH A 143 543 132 HOH HOH . H 8 HOH A 144 544 140 HOH HOH . H 8 HOH A 145 545 3 HOH HOH . H 8 HOH A 146 546 96 HOH HOH . H 8 HOH A 147 547 79 HOH HOH . H 8 HOH A 148 548 63 HOH HOH . H 8 HOH A 149 549 55 HOH HOH . H 8 HOH A 150 550 98 HOH HOH . H 8 HOH A 151 551 83 HOH HOH . H 8 HOH A 152 552 22 HOH HOH . H 8 HOH A 153 553 182 HOH HOH . H 8 HOH A 154 554 169 HOH HOH . H 8 HOH A 155 555 32 HOH HOH . H 8 HOH A 156 556 190 HOH HOH . H 8 HOH A 157 557 172 HOH HOH . H 8 HOH A 158 558 147 HOH HOH . H 8 HOH A 159 559 52 HOH HOH . H 8 HOH A 160 560 212 HOH HOH . H 8 HOH A 161 561 145 HOH HOH . H 8 HOH A 162 562 192 HOH HOH . H 8 HOH A 163 563 200 HOH HOH . H 8 HOH A 164 564 181 HOH HOH . H 8 HOH A 165 565 2 HOH HOH . H 8 HOH A 166 566 142 HOH HOH . H 8 HOH A 167 567 184 HOH HOH . H 8 HOH A 168 568 149 HOH HOH . H 8 HOH A 169 569 91 HOH HOH . H 8 HOH A 170 570 195 HOH HOH . H 8 HOH A 171 571 171 HOH HOH . H 8 HOH A 172 572 208 HOH HOH . H 8 HOH A 173 573 163 HOH HOH . H 8 HOH A 174 574 157 HOH HOH . H 8 HOH A 175 575 54 HOH HOH . H 8 HOH A 176 576 144 HOH HOH . H 8 HOH A 177 577 194 HOH HOH . H 8 HOH A 178 578 160 HOH HOH . H 8 HOH A 179 579 107 HOH HOH . H 8 HOH A 180 580 130 HOH HOH . H 8 HOH A 181 581 35 HOH HOH . H 8 HOH A 182 582 209 HOH HOH . H 8 HOH A 183 583 191 HOH HOH . H 8 HOH A 184 584 65 HOH HOH . H 8 HOH A 185 585 128 HOH HOH . H 8 HOH A 186 586 165 HOH HOH . H 8 HOH A 187 587 158 HOH HOH . H 8 HOH A 188 588 59 HOH HOH . H 8 HOH A 189 589 207 HOH HOH . H 8 HOH A 190 590 114 HOH HOH . H 8 HOH A 191 591 203 HOH HOH . H 8 HOH A 192 592 10 HOH HOH . H 8 HOH A 193 593 154 HOH HOH . H 8 HOH A 194 594 152 HOH HOH . H 8 HOH A 195 595 206 HOH HOH . H 8 HOH A 196 596 180 HOH HOH . H 8 HOH A 197 597 151 HOH HOH . H 8 HOH A 198 598 178 HOH HOH . H 8 HOH A 199 599 111 HOH HOH . H 8 HOH A 200 600 210 HOH HOH . H 8 HOH A 201 601 100 HOH HOH . H 8 HOH A 202 602 205 HOH HOH . H 8 HOH A 203 603 201 HOH HOH . H 8 HOH A 204 604 189 HOH HOH . H 8 HOH A 205 605 164 HOH HOH . H 8 HOH A 206 606 176 HOH HOH . H 8 HOH A 207 607 211 HOH HOH . H 8 HOH A 208 608 198 HOH HOH . H 8 HOH A 209 609 214 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _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 4 _atom_site.Cartn_x 10.257 _atom_site.Cartn_y 56.885 _atom_site.Cartn_z 11.156 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 6.61 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _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 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 1 #