data_1KRB # _model_server_result.job_id vi-ZY7LuAln45GtxuI3aSA _model_server_result.datetime_utc '2024-11-16 23:40:10' _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 1krb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":575}' # _entry.id 1KRB # _exptl.entry_id 1KRB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) ION' _entity.pdbx_number_of_molecules 2 _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 1KRB _cell.length_a 170.8 _cell.length_b 170.8 _cell.length_c 170.8 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KRB _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details nonameric _pdbx_struct_assembly.oligomeric_count 9 _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 1,2,3 # 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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 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 ? 4 D N N ? 4 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 covale ? covale1 C C LEU 216 C LEU 216 1_555 C N KCX 217 C KCX 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale2 C C KCX 217 C KCX 217 1_555 C N ILE 218 C ILE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 C NE2 HIS 134 C HIS 134 1_555 E NI NI . C NI 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc2 C NE2 HIS 136 C HIS 136 1_555 E NI NI . C NI 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc3 C OQ2 KCX 217 C KCX 217 1_555 D NI NI . C NI 574 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc4 C OQ1 KCX 217 C KCX 217 1_555 E NI NI . C NI 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc5 C ND1 HIS 246 C HIS 246 1_555 D NI NI . C NI 574 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc6 C NE2 HIS 272 C HIS 272 1_555 D NI NI . C NI 574 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc7 C OD1 ASP 360 C ASP 360 1_555 E NI NI . C NI 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc8 E NI NI . C NI 575 1_555 H O HOH . C HOH 577 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? # _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 1KRB _atom_sites.fract_transf_matrix[1][1] 0.005855 _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] 0.005855 _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] 0.005855 _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 D 4 NI C 1 574 574 NI NI . E 4 NI C 1 575 575 NI NI . F 5 HOH A 1 101 4 HOH HOH . F 5 HOH A 2 102 20 HOH HOH . F 5 HOH A 3 103 21 HOH HOH . F 5 HOH A 4 104 22 HOH HOH . F 5 HOH A 5 105 58 HOH HOH . F 5 HOH A 6 106 72 HOH HOH . F 5 HOH A 7 107 80 HOH HOH . F 5 HOH A 8 108 81 HOH HOH . F 5 HOH A 9 109 90 HOH HOH . F 5 HOH A 10 110 92 HOH HOH . F 5 HOH A 11 111 97 HOH HOH . F 5 HOH A 12 112 110 HOH HOH . F 5 HOH A 13 113 126 HOH HOH . F 5 HOH A 14 114 134 HOH HOH . G 5 HOH B 1 107 69 HOH HOH . G 5 HOH B 2 108 115 HOH HOH . G 5 HOH B 3 109 122 HOH HOH . G 5 HOH B 4 110 130 HOH HOH . G 5 HOH B 5 111 149 HOH HOH . G 5 HOH B 6 112 152 HOH HOH . H 5 HOH C 1 577 1 HOH HOH . H 5 HOH C 2 578 2 HOH HOH . H 5 HOH C 3 579 3 HOH HOH . H 5 HOH C 4 580 5 HOH HOH . H 5 HOH C 5 581 6 HOH HOH . H 5 HOH C 6 582 7 HOH HOH . H 5 HOH C 7 583 8 HOH HOH . H 5 HOH C 8 584 9 HOH HOH . H 5 HOH C 9 585 10 HOH HOH . H 5 HOH C 10 586 11 HOH HOH . H 5 HOH C 11 587 12 HOH HOH . H 5 HOH C 12 588 13 HOH HOH . H 5 HOH C 13 589 14 HOH HOH . H 5 HOH C 14 590 15 HOH HOH . H 5 HOH C 15 591 16 HOH HOH . H 5 HOH C 16 592 17 HOH HOH . H 5 HOH C 17 593 18 HOH HOH . H 5 HOH C 18 594 19 HOH HOH . H 5 HOH C 19 595 23 HOH HOH . H 5 HOH C 20 596 24 HOH HOH . H 5 HOH C 21 597 25 HOH HOH . H 5 HOH C 22 598 26 HOH HOH . H 5 HOH C 23 599 27 HOH HOH . H 5 HOH C 24 600 28 HOH HOH . H 5 HOH C 25 601 29 HOH HOH . H 5 HOH C 26 602 30 HOH HOH . H 5 HOH C 27 603 31 HOH HOH . H 5 HOH C 28 604 32 HOH HOH . H 5 HOH C 29 605 33 HOH HOH . H 5 HOH C 30 606 34 HOH HOH . H 5 HOH C 31 607 35 HOH HOH . H 5 HOH C 32 608 36 HOH HOH . H 5 HOH C 33 609 37 HOH HOH . H 5 HOH C 34 610 38 HOH HOH . H 5 HOH C 35 611 39 HOH HOH . H 5 HOH C 36 612 40 HOH HOH . H 5 HOH C 37 613 41 HOH HOH . H 5 HOH C 38 614 42 HOH HOH . H 5 HOH C 39 615 43 HOH HOH . H 5 HOH C 40 616 44 HOH HOH . H 5 HOH C 41 617 45 HOH HOH . H 5 HOH C 42 618 46 HOH HOH . H 5 HOH C 43 619 47 HOH HOH . H 5 HOH C 44 620 48 HOH HOH . H 5 HOH C 45 621 49 HOH HOH . H 5 HOH C 46 622 50 HOH HOH . H 5 HOH C 47 623 51 HOH HOH . H 5 HOH C 48 624 52 HOH HOH . H 5 HOH C 49 625 53 HOH HOH . H 5 HOH C 50 626 54 HOH HOH . H 5 HOH C 51 627 55 HOH HOH . H 5 HOH C 52 628 56 HOH HOH . H 5 HOH C 53 629 57 HOH HOH . H 5 HOH C 54 630 59 HOH HOH . H 5 HOH C 55 631 60 HOH HOH . H 5 HOH C 56 632 61 HOH HOH . H 5 HOH C 57 633 62 HOH HOH . H 5 HOH C 58 634 63 HOH HOH . H 5 HOH C 59 635 64 HOH HOH . H 5 HOH C 60 636 65 HOH HOH . H 5 HOH C 61 637 66 HOH HOH . H 5 HOH C 62 638 67 HOH HOH . H 5 HOH C 63 639 68 HOH HOH . H 5 HOH C 64 640 70 HOH HOH . H 5 HOH C 65 641 71 HOH HOH . H 5 HOH C 66 642 73 HOH HOH . H 5 HOH C 67 643 74 HOH HOH . H 5 HOH C 68 644 75 HOH HOH . H 5 HOH C 69 645 76 HOH HOH . H 5 HOH C 70 646 77 HOH HOH . H 5 HOH C 71 647 78 HOH HOH . H 5 HOH C 72 648 79 HOH HOH . H 5 HOH C 73 649 82 HOH HOH . H 5 HOH C 74 650 83 HOH HOH . H 5 HOH C 75 651 84 HOH HOH . H 5 HOH C 76 652 85 HOH HOH . H 5 HOH C 77 653 86 HOH HOH . H 5 HOH C 78 654 87 HOH HOH . H 5 HOH C 79 655 88 HOH HOH . H 5 HOH C 80 656 89 HOH HOH . H 5 HOH C 81 657 91 HOH HOH . H 5 HOH C 82 658 93 HOH HOH . H 5 HOH C 83 659 94 HOH HOH . H 5 HOH C 84 660 95 HOH HOH . H 5 HOH C 85 661 96 HOH HOH . H 5 HOH C 86 662 98 HOH HOH . H 5 HOH C 87 663 99 HOH HOH . H 5 HOH C 88 664 100 HOH HOH . H 5 HOH C 89 665 101 HOH HOH . H 5 HOH C 90 666 102 HOH HOH . H 5 HOH C 91 667 103 HOH HOH . H 5 HOH C 92 668 104 HOH HOH . H 5 HOH C 93 669 105 HOH HOH . H 5 HOH C 94 670 106 HOH HOH . H 5 HOH C 95 671 107 HOH HOH . H 5 HOH C 96 672 108 HOH HOH . H 5 HOH C 97 673 109 HOH HOH . H 5 HOH C 98 674 111 HOH HOH . H 5 HOH C 99 675 112 HOH HOH . H 5 HOH C 100 676 113 HOH HOH . H 5 HOH C 101 677 114 HOH HOH . H 5 HOH C 102 678 116 HOH HOH . H 5 HOH C 103 679 117 HOH HOH . H 5 HOH C 104 680 118 HOH HOH . H 5 HOH C 105 681 119 HOH HOH . H 5 HOH C 106 682 120 HOH HOH . H 5 HOH C 107 683 121 HOH HOH . H 5 HOH C 108 684 123 HOH HOH . H 5 HOH C 109 685 124 HOH HOH . H 5 HOH C 110 686 125 HOH HOH . H 5 HOH C 111 687 127 HOH HOH . H 5 HOH C 112 688 128 HOH HOH . H 5 HOH C 113 689 129 HOH HOH . H 5 HOH C 114 690 131 HOH HOH . H 5 HOH C 115 691 132 HOH HOH . H 5 HOH C 116 692 133 HOH HOH . H 5 HOH C 117 693 135 HOH HOH . H 5 HOH C 118 694 136 HOH HOH . H 5 HOH C 119 695 137 HOH HOH . H 5 HOH C 120 696 138 HOH HOH . H 5 HOH C 121 697 139 HOH HOH . H 5 HOH C 122 698 140 HOH HOH . H 5 HOH C 123 699 141 HOH HOH . H 5 HOH C 124 700 142 HOH HOH . H 5 HOH C 125 701 143 HOH HOH . H 5 HOH C 126 702 144 HOH HOH . H 5 HOH C 127 703 145 HOH HOH . H 5 HOH C 128 704 146 HOH HOH . H 5 HOH C 129 705 147 HOH HOH . H 5 HOH C 130 706 148 HOH HOH . H 5 HOH C 131 707 150 HOH HOH . H 5 HOH C 132 708 151 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 E _atom_site.label_entity_id 4 _atom_site.Cartn_x 67.903 _atom_site.Cartn_y 104.459 _atom_site.Cartn_z 72.357 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 17.68 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 575 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #