data_5DAW # _model_server_result.job_id 4_GOiMXpWFXjzxJgVLmr8A _model_server_result.datetime_utc '2024-12-01 12:19:55' _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 5daw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5DAW # _exptl.entry_id 5DAW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 2 _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 5DAW _cell.length_a 73.27 _cell.length_b 118.6 _cell.length_c 67.22 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DAW _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 author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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' 3_454 -x-1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 -73.27 0 -33.61 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 134 A HIS 134 1_555 B NI NI . A NI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? metalc ? metalc2 A OD1 ASP 136 A ASP 136 1_555 B NI NI . A NI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc3 A NE2 HIS 211 A HIS 211 1_555 B NI NI . A NI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? metalc ? metalc4 B NI NI . A NI 401 1_555 C O1 AKG . A AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc5 B NI NI . A NI 401 1_555 C O5 AKG . A AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc6 B NI NI . A NI 401 1_555 E O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? # _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 5DAW _atom_sites.fract_transf_matrix[1][1] 0.013648 _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] 0.008432 _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] 0.014877 _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 NI A 1 401 301 NI NI . C 3 AKG A 1 402 302 AKG AKG . D 4 58K A 1 403 303 58K LIG . E 5 HOH A 1 501 84 HOH HOH . E 5 HOH A 2 502 52 HOH HOH . E 5 HOH A 3 503 100 HOH HOH . E 5 HOH A 4 504 106 HOH HOH . E 5 HOH A 5 505 115 HOH HOH . E 5 HOH A 6 506 41 HOH HOH . E 5 HOH A 7 507 62 HOH HOH . E 5 HOH A 8 508 87 HOH HOH . E 5 HOH A 9 509 45 HOH HOH . E 5 HOH A 10 510 43 HOH HOH . E 5 HOH A 11 511 16 HOH HOH . E 5 HOH A 12 512 170 HOH HOH . E 5 HOH A 13 513 48 HOH HOH . E 5 HOH A 14 514 241 HOH HOH . E 5 HOH A 15 515 6 HOH HOH . E 5 HOH A 16 516 191 HOH HOH . E 5 HOH A 17 517 137 HOH HOH . E 5 HOH A 18 518 212 HOH HOH . E 5 HOH A 19 519 163 HOH HOH . E 5 HOH A 20 520 97 HOH HOH . E 5 HOH A 21 521 251 HOH HOH . E 5 HOH A 22 522 51 HOH HOH . E 5 HOH A 23 523 203 HOH HOH . E 5 HOH A 24 524 11 HOH HOH . E 5 HOH A 25 525 79 HOH HOH . E 5 HOH A 26 526 3 HOH HOH . E 5 HOH A 27 527 232 HOH HOH . E 5 HOH A 28 528 263 HOH HOH . E 5 HOH A 29 529 38 HOH HOH . E 5 HOH A 30 530 13 HOH HOH . E 5 HOH A 31 531 29 HOH HOH . E 5 HOH A 32 532 21 HOH HOH . E 5 HOH A 33 533 53 HOH HOH . E 5 HOH A 34 534 267 HOH HOH . E 5 HOH A 35 535 252 HOH HOH . E 5 HOH A 36 536 4 HOH HOH . E 5 HOH A 37 537 31 HOH HOH . E 5 HOH A 38 538 15 HOH HOH . E 5 HOH A 39 539 60 HOH HOH . E 5 HOH A 40 540 98 HOH HOH . E 5 HOH A 41 541 46 HOH HOH . E 5 HOH A 42 542 10 HOH HOH . E 5 HOH A 43 543 200 HOH HOH . E 5 HOH A 44 544 26 HOH HOH . E 5 HOH A 45 545 69 HOH HOH . E 5 HOH A 46 546 156 HOH HOH . E 5 HOH A 47 547 22 HOH HOH . E 5 HOH A 48 548 30 HOH HOH . E 5 HOH A 49 549 86 HOH HOH . E 5 HOH A 50 550 187 HOH HOH . E 5 HOH A 51 551 138 HOH HOH . E 5 HOH A 52 552 246 HOH HOH . E 5 HOH A 53 553 18 HOH HOH . E 5 HOH A 54 554 239 HOH HOH . E 5 HOH A 55 555 19 HOH HOH . E 5 HOH A 56 556 55 HOH HOH . E 5 HOH A 57 557 25 HOH HOH . E 5 HOH A 58 558 28 HOH HOH . E 5 HOH A 59 559 95 HOH HOH . E 5 HOH A 60 560 14 HOH HOH . E 5 HOH A 61 561 133 HOH HOH . E 5 HOH A 62 562 128 HOH HOH . E 5 HOH A 63 563 68 HOH HOH . E 5 HOH A 64 564 77 HOH HOH . E 5 HOH A 65 565 169 HOH HOH . E 5 HOH A 66 566 219 HOH HOH . E 5 HOH A 67 567 1 HOH HOH . E 5 HOH A 68 568 9 HOH HOH . E 5 HOH A 69 569 131 HOH HOH . E 5 HOH A 70 570 66 HOH HOH . E 5 HOH A 71 571 58 HOH HOH . E 5 HOH A 72 572 33 HOH HOH . E 5 HOH A 73 573 117 HOH HOH . E 5 HOH A 74 574 248 HOH HOH . E 5 HOH A 75 575 27 HOH HOH . E 5 HOH A 76 576 175 HOH HOH . E 5 HOH A 77 577 173 HOH HOH . E 5 HOH A 78 578 104 HOH HOH . E 5 HOH A 79 579 34 HOH HOH . E 5 HOH A 80 580 261 HOH HOH . E 5 HOH A 81 581 2 HOH HOH . E 5 HOH A 82 582 20 HOH HOH . E 5 HOH A 83 583 37 HOH HOH . E 5 HOH A 84 584 12 HOH HOH . E 5 HOH A 85 585 124 HOH HOH . E 5 HOH A 86 586 121 HOH HOH . E 5 HOH A 87 587 197 HOH HOH . E 5 HOH A 88 588 114 HOH HOH . E 5 HOH A 89 589 136 HOH HOH . E 5 HOH A 90 590 40 HOH HOH . E 5 HOH A 91 591 228 HOH HOH . E 5 HOH A 92 592 7 HOH HOH . E 5 HOH A 93 593 63 HOH HOH . E 5 HOH A 94 594 132 HOH HOH . E 5 HOH A 95 595 83 HOH HOH . E 5 HOH A 96 596 201 HOH HOH . E 5 HOH A 97 597 147 HOH HOH . E 5 HOH A 98 598 164 HOH HOH . E 5 HOH A 99 599 130 HOH HOH . E 5 HOH A 100 600 177 HOH HOH . E 5 HOH A 101 601 211 HOH HOH . E 5 HOH A 102 602 111 HOH HOH . E 5 HOH A 103 603 102 HOH HOH . E 5 HOH A 104 604 50 HOH HOH . E 5 HOH A 105 605 141 HOH HOH . E 5 HOH A 106 606 204 HOH HOH . E 5 HOH A 107 607 208 HOH HOH . E 5 HOH A 108 608 198 HOH HOH . E 5 HOH A 109 609 23 HOH HOH . E 5 HOH A 110 610 57 HOH HOH . E 5 HOH A 111 611 39 HOH HOH . E 5 HOH A 112 612 146 HOH HOH . E 5 HOH A 113 613 159 HOH HOH . E 5 HOH A 114 614 195 HOH HOH . E 5 HOH A 115 615 59 HOH HOH . E 5 HOH A 116 616 150 HOH HOH . E 5 HOH A 117 617 215 HOH HOH . E 5 HOH A 118 618 44 HOH HOH . E 5 HOH A 119 619 78 HOH HOH . E 5 HOH A 120 620 158 HOH HOH . E 5 HOH A 121 621 17 HOH HOH . E 5 HOH A 122 622 237 HOH HOH . E 5 HOH A 123 623 74 HOH HOH . E 5 HOH A 124 624 5 HOH HOH . E 5 HOH A 125 625 123 HOH HOH . E 5 HOH A 126 626 157 HOH HOH . E 5 HOH A 127 627 226 HOH HOH . E 5 HOH A 128 628 101 HOH HOH . E 5 HOH A 129 629 96 HOH HOH . E 5 HOH A 130 630 80 HOH HOH . E 5 HOH A 131 631 64 HOH HOH . E 5 HOH A 132 632 135 HOH HOH . E 5 HOH A 133 633 259 HOH HOH . E 5 HOH A 134 634 61 HOH HOH . E 5 HOH A 135 635 260 HOH HOH . E 5 HOH A 136 636 168 HOH HOH . E 5 HOH A 137 637 71 HOH HOH . E 5 HOH A 138 638 109 HOH HOH . E 5 HOH A 139 639 129 HOH HOH . E 5 HOH A 140 640 179 HOH HOH . E 5 HOH A 141 641 218 HOH HOH . E 5 HOH A 142 642 85 HOH HOH . E 5 HOH A 143 643 8 HOH HOH . E 5 HOH A 144 644 112 HOH HOH . E 5 HOH A 145 645 165 HOH HOH . E 5 HOH A 146 646 24 HOH HOH . E 5 HOH A 147 647 110 HOH HOH . E 5 HOH A 148 648 192 HOH HOH . E 5 HOH A 149 649 266 HOH HOH . E 5 HOH A 150 650 107 HOH HOH . E 5 HOH A 151 651 230 HOH HOH . E 5 HOH A 152 652 227 HOH HOH . E 5 HOH A 153 653 42 HOH HOH . E 5 HOH A 154 654 174 HOH HOH . E 5 HOH A 155 655 249 HOH HOH . E 5 HOH A 156 656 73 HOH HOH . E 5 HOH A 157 657 184 HOH HOH . E 5 HOH A 158 658 258 HOH HOH . E 5 HOH A 159 659 105 HOH HOH . E 5 HOH A 160 660 93 HOH HOH . E 5 HOH A 161 661 89 HOH HOH . E 5 HOH A 162 662 190 HOH HOH . E 5 HOH A 163 663 213 HOH HOH . E 5 HOH A 164 664 72 HOH HOH . E 5 HOH A 165 665 182 HOH HOH . E 5 HOH A 166 666 148 HOH HOH . E 5 HOH A 167 667 233 HOH HOH . E 5 HOH A 168 668 206 HOH HOH . E 5 HOH A 169 669 120 HOH HOH . E 5 HOH A 170 670 242 HOH HOH . E 5 HOH A 171 671 160 HOH HOH . E 5 HOH A 172 672 75 HOH HOH . E 5 HOH A 173 673 88 HOH HOH . E 5 HOH A 174 674 32 HOH HOH . E 5 HOH A 175 675 125 HOH HOH . E 5 HOH A 176 676 224 HOH HOH . E 5 HOH A 177 677 167 HOH HOH . E 5 HOH A 178 678 144 HOH HOH . E 5 HOH A 179 679 220 HOH HOH . E 5 HOH A 180 680 250 HOH HOH . E 5 HOH A 181 681 193 HOH HOH . E 5 HOH A 182 682 113 HOH HOH . E 5 HOH A 183 683 172 HOH HOH . E 5 HOH A 184 684 214 HOH HOH . E 5 HOH A 185 685 240 HOH HOH . E 5 HOH A 186 686 103 HOH HOH . E 5 HOH A 187 687 151 HOH HOH . E 5 HOH A 188 688 166 HOH HOH . E 5 HOH A 189 689 189 HOH HOH . E 5 HOH A 190 690 35 HOH HOH . E 5 HOH A 191 691 243 HOH HOH . E 5 HOH A 192 692 82 HOH HOH . E 5 HOH A 193 693 222 HOH HOH . E 5 HOH A 194 694 194 HOH HOH . E 5 HOH A 195 695 118 HOH HOH . E 5 HOH A 196 696 231 HOH HOH . E 5 HOH A 197 697 81 HOH HOH . E 5 HOH A 198 698 202 HOH HOH . E 5 HOH A 199 699 235 HOH HOH . E 5 HOH A 200 700 36 HOH HOH . E 5 HOH A 201 701 254 HOH HOH . E 5 HOH A 202 702 145 HOH HOH . E 5 HOH A 203 703 155 HOH HOH . E 5 HOH A 204 704 229 HOH HOH . E 5 HOH A 205 705 108 HOH HOH . E 5 HOH A 206 706 186 HOH HOH . E 5 HOH A 207 707 185 HOH HOH . E 5 HOH A 208 708 122 HOH HOH . E 5 HOH A 209 709 143 HOH HOH . E 5 HOH A 210 710 94 HOH HOH . E 5 HOH A 211 711 196 HOH HOH . E 5 HOH A 212 712 264 HOH HOH . E 5 HOH A 213 713 255 HOH HOH . E 5 HOH A 214 714 47 HOH HOH . E 5 HOH A 215 715 178 HOH HOH . E 5 HOH A 216 716 176 HOH HOH . E 5 HOH A 217 717 216 HOH HOH . E 5 HOH A 218 718 56 HOH HOH . E 5 HOH A 219 719 244 HOH HOH . E 5 HOH A 220 720 134 HOH HOH . E 5 HOH A 221 721 188 HOH HOH . E 5 HOH A 222 722 238 HOH HOH . E 5 HOH A 223 723 223 HOH HOH . E 5 HOH A 224 724 236 HOH HOH . E 5 HOH A 225 725 171 HOH HOH . E 5 HOH A 226 726 225 HOH HOH . E 5 HOH A 227 727 153 HOH HOH . E 5 HOH A 228 728 119 HOH HOH . E 5 HOH A 229 729 126 HOH HOH . E 5 HOH A 230 730 65 HOH HOH . E 5 HOH A 231 731 67 HOH HOH . E 5 HOH A 232 732 199 HOH HOH . E 5 HOH A 233 733 245 HOH HOH . E 5 HOH A 234 734 257 HOH HOH . E 5 HOH A 235 735 49 HOH HOH . E 5 HOH A 236 736 76 HOH HOH . E 5 HOH A 237 737 210 HOH HOH . E 5 HOH A 238 738 99 HOH HOH . E 5 HOH A 239 739 256 HOH HOH . E 5 HOH A 240 740 221 HOH HOH . E 5 HOH A 241 741 152 HOH HOH . E 5 HOH A 242 742 161 HOH HOH . E 5 HOH A 243 743 139 HOH HOH . E 5 HOH A 244 744 92 HOH HOH . E 5 HOH A 245 745 205 HOH HOH . E 5 HOH A 246 746 183 HOH HOH . E 5 HOH A 247 747 253 HOH HOH . E 5 HOH A 248 748 217 HOH HOH . E 5 HOH A 249 749 116 HOH HOH . E 5 HOH A 250 750 91 HOH HOH . E 5 HOH A 251 751 149 HOH HOH . E 5 HOH A 252 752 234 HOH HOH . E 5 HOH A 253 753 154 HOH HOH . E 5 HOH A 254 754 209 HOH HOH . E 5 HOH A 255 755 90 HOH HOH . E 5 HOH A 256 756 162 HOH HOH . E 5 HOH A 257 757 262 HOH HOH . E 5 HOH A 258 758 70 HOH HOH . E 5 HOH A 259 759 265 HOH HOH . E 5 HOH A 260 760 207 HOH HOH . E 5 HOH A 261 761 181 HOH HOH . E 5 HOH A 262 762 142 HOH HOH . E 5 HOH A 263 763 247 HOH HOH . E 5 HOH A 264 764 180 HOH HOH . E 5 HOH A 265 765 127 HOH HOH . E 5 HOH A 266 766 140 HOH HOH . E 5 HOH A 267 767 54 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 B _atom_site.label_entity_id 2 _atom_site.Cartn_x -21.352 _atom_site.Cartn_y -24.222 _atom_site.Cartn_z -5.644 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 19.71 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #