data_5J4R # _model_server_result.job_id B5mlPd7rwxFQiDJeUV7WLg _model_server_result.datetime_utc '2024-10-20 00:25:27' _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 5j4r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 5J4R # _exptl.entry_id 5J4R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) 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 5J4R _cell.length_a 52.03 _cell.length_b 102.77 _cell.length_c 123.98 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5J4R _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _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 _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 metalc ? metalc1 A NE2 HIS 165 A HIS 164 1_555 C NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc2 A NE2 HIS 260 A HIS 259 1_555 C NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc3 B O1 AKG . A AKG 301 1_555 C NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc4 B O5 AKG . A AKG 301 1_555 C NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc5 C NI NI . A NI 302 1_555 D O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc6 C NI NI . A NI 302 1_555 D O HOH . A HOH 571 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? # _chem_comp.formula 'Ni 2' _chem_comp.formula_weight 58.693 _chem_comp.id NI _chem_comp.mon_nstd_flag . _chem_comp.name 'NICKEL (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5J4R _atom_sites.fract_transf_matrix[1][1] 0.01922 _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] 0.00973 _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] 0.008066 _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 AKG A 1 301 1 AKG AKG . C 3 NI A 1 302 1 NI NI . D 4 HOH A 1 401 144 HOH HOH . D 4 HOH A 2 402 201 HOH HOH . D 4 HOH A 3 403 152 HOH HOH . D 4 HOH A 4 404 181 HOH HOH . D 4 HOH A 5 405 241 HOH HOH . D 4 HOH A 6 406 169 HOH HOH . D 4 HOH A 7 407 120 HOH HOH . D 4 HOH A 8 408 159 HOH HOH . D 4 HOH A 9 409 237 HOH HOH . D 4 HOH A 10 410 69 HOH HOH . D 4 HOH A 11 411 273 HOH HOH . D 4 HOH A 12 412 40 HOH HOH . D 4 HOH A 13 413 184 HOH HOH . D 4 HOH A 14 414 26 HOH HOH . D 4 HOH A 15 415 111 HOH HOH . D 4 HOH A 16 416 171 HOH HOH . D 4 HOH A 17 417 178 HOH HOH . D 4 HOH A 18 418 93 HOH HOH . D 4 HOH A 19 419 242 HOH HOH . D 4 HOH A 20 420 78 HOH HOH . D 4 HOH A 21 421 163 HOH HOH . D 4 HOH A 22 422 38 HOH HOH . D 4 HOH A 23 423 101 HOH HOH . D 4 HOH A 24 424 48 HOH HOH . D 4 HOH A 25 425 72 HOH HOH . D 4 HOH A 26 426 49 HOH HOH . D 4 HOH A 27 427 43 HOH HOH . D 4 HOH A 28 428 6 HOH HOH . D 4 HOH A 29 429 227 HOH HOH . D 4 HOH A 30 430 146 HOH HOH . D 4 HOH A 31 431 157 HOH HOH . D 4 HOH A 32 432 44 HOH HOH . D 4 HOH A 33 433 14 HOH HOH . D 4 HOH A 34 434 18 HOH HOH . D 4 HOH A 35 435 47 HOH HOH . D 4 HOH A 36 436 114 HOH HOH . D 4 HOH A 37 437 80 HOH HOH . D 4 HOH A 38 438 7 HOH HOH . D 4 HOH A 39 439 156 HOH HOH . D 4 HOH A 40 440 194 HOH HOH . D 4 HOH A 41 441 34 HOH HOH . D 4 HOH A 42 442 87 HOH HOH . D 4 HOH A 43 443 39 HOH HOH . D 4 HOH A 44 444 238 HOH HOH . D 4 HOH A 45 445 179 HOH HOH . D 4 HOH A 46 446 250 HOH HOH . D 4 HOH A 47 447 84 HOH HOH . D 4 HOH A 48 448 283 HOH HOH . D 4 HOH A 49 449 64 HOH HOH . D 4 HOH A 50 450 61 HOH HOH . D 4 HOH A 51 451 96 HOH HOH . D 4 HOH A 52 452 102 HOH HOH . D 4 HOH A 53 453 28 HOH HOH . D 4 HOH A 54 454 56 HOH HOH . D 4 HOH A 55 455 293 HOH HOH . D 4 HOH A 56 456 3 HOH HOH . D 4 HOH A 57 457 195 HOH HOH . D 4 HOH A 58 458 1 HOH HOH . D 4 HOH A 59 459 12 HOH HOH . D 4 HOH A 60 460 9 HOH HOH . D 4 HOH A 61 461 166 HOH HOH . D 4 HOH A 62 462 106 HOH HOH . D 4 HOH A 63 463 192 HOH HOH . D 4 HOH A 64 464 81 HOH HOH . D 4 HOH A 65 465 235 HOH HOH . D 4 HOH A 66 466 223 HOH HOH . D 4 HOH A 67 467 90 HOH HOH . D 4 HOH A 68 468 190 HOH HOH . D 4 HOH A 69 469 73 HOH HOH . D 4 HOH A 70 470 29 HOH HOH . D 4 HOH A 71 471 51 HOH HOH . D 4 HOH A 72 472 53 HOH HOH . D 4 HOH A 73 473 149 HOH HOH . D 4 HOH A 74 474 197 HOH HOH . D 4 HOH A 75 475 27 HOH HOH . D 4 HOH A 76 476 131 HOH HOH . D 4 HOH A 77 477 191 HOH HOH . D 4 HOH A 78 478 22 HOH HOH . D 4 HOH A 79 479 58 HOH HOH . D 4 HOH A 80 480 86 HOH HOH . D 4 HOH A 81 481 62 HOH HOH . D 4 HOH A 82 482 100 HOH HOH . D 4 HOH A 83 483 76 HOH HOH . D 4 HOH A 84 484 4 HOH HOH . D 4 HOH A 85 485 42 HOH HOH . D 4 HOH A 86 486 115 HOH HOH . D 4 HOH A 87 487 127 HOH HOH . D 4 HOH A 88 488 130 HOH HOH . D 4 HOH A 89 489 10 HOH HOH . D 4 HOH A 90 490 41 HOH HOH . D 4 HOH A 91 491 83 HOH HOH . D 4 HOH A 92 492 66 HOH HOH . D 4 HOH A 93 493 32 HOH HOH . D 4 HOH A 94 494 160 HOH HOH . D 4 HOH A 95 495 8 HOH HOH . D 4 HOH A 96 496 232 HOH HOH . D 4 HOH A 97 497 5 HOH HOH . D 4 HOH A 98 498 287 HOH HOH . D 4 HOH A 99 499 117 HOH HOH . D 4 HOH A 100 500 36 HOH HOH . D 4 HOH A 101 501 153 HOH HOH . D 4 HOH A 102 502 132 HOH HOH . D 4 HOH A 103 503 126 HOH HOH . D 4 HOH A 104 504 147 HOH HOH . D 4 HOH A 105 505 19 HOH HOH . D 4 HOH A 106 506 50 HOH HOH . D 4 HOH A 107 507 17 HOH HOH . D 4 HOH A 108 508 2 HOH HOH . D 4 HOH A 109 509 139 HOH HOH . D 4 HOH A 110 510 70 HOH HOH . D 4 HOH A 111 511 165 HOH HOH . D 4 HOH A 112 512 60 HOH HOH . D 4 HOH A 113 513 54 HOH HOH . D 4 HOH A 114 514 110 HOH HOH . D 4 HOH A 115 515 186 HOH HOH . D 4 HOH A 116 516 71 HOH HOH . D 4 HOH A 117 517 52 HOH HOH . D 4 HOH A 118 518 257 HOH HOH . D 4 HOH A 119 519 57 HOH HOH . D 4 HOH A 120 520 79 HOH HOH . D 4 HOH A 121 521 94 HOH HOH . D 4 HOH A 122 522 15 HOH HOH . D 4 HOH A 123 523 121 HOH HOH . D 4 HOH A 124 524 224 HOH HOH . D 4 HOH A 125 525 173 HOH HOH . D 4 HOH A 126 526 77 HOH HOH . D 4 HOH A 127 527 92 HOH HOH . D 4 HOH A 128 528 59 HOH HOH . D 4 HOH A 129 529 245 HOH HOH . D 4 HOH A 130 530 20 HOH HOH . D 4 HOH A 131 531 88 HOH HOH . D 4 HOH A 132 532 233 HOH HOH . D 4 HOH A 133 533 95 HOH HOH . D 4 HOH A 134 534 89 HOH HOH . D 4 HOH A 135 535 11 HOH HOH . D 4 HOH A 136 536 211 HOH HOH . D 4 HOH A 137 537 16 HOH HOH . D 4 HOH A 138 538 33 HOH HOH . D 4 HOH A 139 539 103 HOH HOH . D 4 HOH A 140 540 182 HOH HOH . D 4 HOH A 141 541 109 HOH HOH . D 4 HOH A 142 542 74 HOH HOH . D 4 HOH A 143 543 67 HOH HOH . D 4 HOH A 144 544 30 HOH HOH . D 4 HOH A 145 545 150 HOH HOH . D 4 HOH A 146 546 35 HOH HOH . D 4 HOH A 147 547 274 HOH HOH . D 4 HOH A 148 548 266 HOH HOH . D 4 HOH A 149 549 46 HOH HOH . D 4 HOH A 150 550 217 HOH HOH . D 4 HOH A 151 551 13 HOH HOH . D 4 HOH A 152 552 301 HOH HOH . D 4 HOH A 153 553 31 HOH HOH . D 4 HOH A 154 554 141 HOH HOH . D 4 HOH A 155 555 145 HOH HOH . D 4 HOH A 156 556 24 HOH HOH . D 4 HOH A 157 557 188 HOH HOH . D 4 HOH A 158 558 170 HOH HOH . D 4 HOH A 159 559 25 HOH HOH . D 4 HOH A 160 560 104 HOH HOH . D 4 HOH A 161 561 123 HOH HOH . D 4 HOH A 162 562 124 HOH HOH . D 4 HOH A 163 563 209 HOH HOH . D 4 HOH A 164 564 180 HOH HOH . D 4 HOH A 165 565 55 HOH HOH . D 4 HOH A 166 566 134 HOH HOH . D 4 HOH A 167 567 107 HOH HOH . D 4 HOH A 168 568 290 HOH HOH . D 4 HOH A 169 569 247 HOH HOH . D 4 HOH A 170 570 68 HOH HOH . D 4 HOH A 171 571 219 HOH HOH . D 4 HOH A 172 572 113 HOH HOH . D 4 HOH A 173 573 98 HOH HOH . D 4 HOH A 174 574 162 HOH HOH . D 4 HOH A 175 575 189 HOH HOH . D 4 HOH A 176 576 65 HOH HOH . D 4 HOH A 177 577 125 HOH HOH . D 4 HOH A 178 578 119 HOH HOH . D 4 HOH A 179 579 128 HOH HOH . D 4 HOH A 180 580 105 HOH HOH . D 4 HOH A 181 581 185 HOH HOH . D 4 HOH A 182 582 172 HOH HOH . D 4 HOH A 183 583 108 HOH HOH . D 4 HOH A 184 584 133 HOH HOH . D 4 HOH A 185 585 151 HOH HOH . D 4 HOH A 186 586 158 HOH HOH . D 4 HOH A 187 587 260 HOH HOH . D 4 HOH A 188 588 161 HOH HOH . D 4 HOH A 189 589 200 HOH HOH . D 4 HOH A 190 590 253 HOH HOH . D 4 HOH A 191 591 221 HOH HOH . D 4 HOH A 192 592 91 HOH HOH . D 4 HOH A 193 593 239 HOH HOH . D 4 HOH A 194 594 175 HOH HOH . D 4 HOH A 195 595 251 HOH HOH . D 4 HOH A 196 596 174 HOH HOH . D 4 HOH A 197 597 300 HOH HOH . D 4 HOH A 198 598 99 HOH HOH . D 4 HOH A 199 599 82 HOH HOH . D 4 HOH A 200 600 222 HOH HOH . D 4 HOH A 201 601 196 HOH HOH . D 4 HOH A 202 602 299 HOH HOH . D 4 HOH A 203 603 112 HOH HOH . D 4 HOH A 204 604 45 HOH HOH . D 4 HOH A 205 605 252 HOH HOH . D 4 HOH A 206 606 254 HOH HOH . D 4 HOH A 207 607 263 HOH HOH . D 4 HOH A 208 608 261 HOH HOH . D 4 HOH A 209 609 212 HOH HOH . D 4 HOH A 210 610 256 HOH HOH . D 4 HOH A 211 611 118 HOH HOH . D 4 HOH A 212 612 122 HOH HOH . D 4 HOH A 213 613 271 HOH HOH . D 4 HOH A 214 614 218 HOH HOH . D 4 HOH A 215 615 262 HOH HOH . D 4 HOH A 216 616 21 HOH HOH . D 4 HOH A 217 617 177 HOH HOH . D 4 HOH A 218 618 208 HOH HOH . D 4 HOH A 219 619 214 HOH HOH . D 4 HOH A 220 620 148 HOH HOH . D 4 HOH A 221 621 176 HOH HOH . D 4 HOH A 222 622 75 HOH HOH . D 4 HOH A 223 623 136 HOH HOH . D 4 HOH A 224 624 143 HOH HOH . D 4 HOH A 225 625 198 HOH HOH . D 4 HOH A 226 626 205 HOH HOH . D 4 HOH A 227 627 135 HOH HOH . D 4 HOH A 228 628 265 HOH HOH . D 4 HOH A 229 629 288 HOH HOH . D 4 HOH A 230 630 164 HOH HOH . D 4 HOH A 231 631 129 HOH HOH . D 4 HOH A 232 632 230 HOH HOH . D 4 HOH A 233 633 23 HOH HOH . D 4 HOH A 234 634 154 HOH HOH . D 4 HOH A 235 635 138 HOH HOH . D 4 HOH A 236 636 97 HOH HOH . D 4 HOH A 237 637 243 HOH HOH . D 4 HOH A 238 638 155 HOH HOH . D 4 HOH A 239 639 85 HOH HOH . D 4 HOH A 240 640 63 HOH HOH . D 4 HOH A 241 641 37 HOH HOH . D 4 HOH A 242 642 142 HOH HOH . D 4 HOH A 243 643 215 HOH HOH . D 4 HOH A 244 644 199 HOH HOH . D 4 HOH A 245 645 140 HOH HOH . D 4 HOH A 246 646 137 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NI _atom_site.label_atom_id NI _atom_site.label_comp_id NI _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 10.15 _atom_site.Cartn_y 10.116 _atom_site.Cartn_z 39.987 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 20.88 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 302 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #