data_4IDZ
#
_model_server_result.job_id            Q61BXNprfLsTuFmv29vhZg 
_model_server_result.datetime_utc      '2024-11-30 09:33:40' 
_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          4idz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":603}' 
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_entry.id    4IDZ 
#
_exptl.entry_id    4IDZ 
_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    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         120 
_cell.entry_id            4IDZ 
_cell.length_a            140.412 
_cell.length_b            140.412 
_cell.length_c            83.447 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4IDZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        146 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3' 
#
_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 
_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
disulf ? disulf1 A SG CYS 67 A CYS 77 1_555 A SG CYS 382 A CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc1 A NE2 HIS 221 A HIS 231 1_555 D NI NI . A NI 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc2 A OD1 ASP 223 A ASP 233 1_555 D NI NI . A NI 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? 
metalc ? metalc3 A NE2 HIS 297 A HIS 307 1_555 D NI NI . A NI 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
metalc ? metalc4 B O2' OGA . A OGA 601 1_555 D NI NI . A NI 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc5 B O2 OGA . A OGA 601 1_555 D NI NI . A NI 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc6 D NI NI . A NI 603 1_555 E O HOH . A HOH 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? 
#
_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                     4IDZ 
_atom_sites.fract_transf_matrix[1][1]    0.007122 
_atom_sites.fract_transf_matrix[1][2]    0.004112 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008224 
_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]    0.011984 
_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 OGA A 1 601 1 OGA OGA . 
C 3 GOL A 1 602 1 GOL GOL . 
D 4 NI A 1 603 1 NI NI . 
E 5 HOH A 1 701 1 HOH HOH . 
E 5 HOH A 2 702 2 HOH HOH . 
E 5 HOH A 3 703 3 HOH HOH . 
E 5 HOH A 4 704 5 HOH HOH . 
E 5 HOH A 5 705 6 HOH HOH . 
E 5 HOH A 6 706 7 HOH HOH . 
E 5 HOH A 7 707 8 HOH HOH . 
E 5 HOH A 8 708 9 HOH HOH . 
E 5 HOH A 9 709 10 HOH HOH . 
E 5 HOH A 10 710 11 HOH HOH . 
E 5 HOH A 11 711 12 HOH HOH . 
E 5 HOH A 12 712 13 HOH HOH . 
E 5 HOH A 13 713 14 HOH HOH . 
E 5 HOH A 14 714 15 HOH HOH . 
E 5 HOH A 15 715 16 HOH HOH . 
E 5 HOH A 16 716 17 HOH HOH . 
E 5 HOH A 17 717 18 HOH HOH . 
E 5 HOH A 18 718 19 HOH HOH . 
E 5 HOH A 19 719 20 HOH HOH . 
E 5 HOH A 20 720 21 HOH HOH . 
E 5 HOH A 21 721 22 HOH HOH . 
E 5 HOH A 22 722 23 HOH HOH . 
E 5 HOH A 23 723 24 HOH HOH . 
E 5 HOH A 24 724 25 HOH HOH . 
E 5 HOH A 25 725 26 HOH HOH . 
E 5 HOH A 26 726 27 HOH HOH . 
E 5 HOH A 27 727 28 HOH HOH . 
E 5 HOH A 28 728 30 HOH HOH . 
E 5 HOH A 29 729 31 HOH HOH . 
E 5 HOH A 30 730 33 HOH HOH . 
E 5 HOH A 31 731 35 HOH HOH . 
E 5 HOH A 32 732 36 HOH HOH . 
E 5 HOH A 33 733 37 HOH HOH . 
E 5 HOH A 34 734 38 HOH HOH . 
E 5 HOH A 35 735 39 HOH HOH . 
E 5 HOH A 36 736 40 HOH HOH . 
E 5 HOH A 37 737 43 HOH HOH . 
E 5 HOH A 38 738 44 HOH HOH . 
E 5 HOH A 39 739 45 HOH HOH . 
E 5 HOH A 40 740 46 HOH HOH . 
E 5 HOH A 41 741 48 HOH HOH . 
E 5 HOH A 42 742 49 HOH HOH . 
E 5 HOH A 43 743 50 HOH HOH . 
E 5 HOH A 44 744 51 HOH HOH . 
E 5 HOH A 45 745 52 HOH HOH . 
E 5 HOH A 46 746 53 HOH HOH . 
E 5 HOH A 47 747 54 HOH HOH . 
E 5 HOH A 48 748 56 HOH HOH . 
E 5 HOH A 49 749 57 HOH HOH . 
E 5 HOH A 50 750 58 HOH HOH . 
E 5 HOH A 51 751 59 HOH HOH . 
E 5 HOH A 52 752 60 HOH HOH . 
E 5 HOH A 53 753 61 HOH HOH . 
E 5 HOH A 54 754 62 HOH HOH . 
E 5 HOH A 55 755 63 HOH HOH . 
E 5 HOH A 56 756 64 HOH HOH . 
E 5 HOH A 57 757 65 HOH HOH . 
E 5 HOH A 58 758 66 HOH HOH . 
E 5 HOH A 59 759 68 HOH HOH . 
E 5 HOH A 60 760 69 HOH HOH . 
E 5 HOH A 61 761 71 HOH HOH . 
E 5 HOH A 62 762 72 HOH HOH . 
E 5 HOH A 63 763 73 HOH HOH . 
E 5 HOH A 64 764 75 HOH HOH . 
E 5 HOH A 65 765 77 HOH HOH . 
E 5 HOH A 66 766 78 HOH HOH . 
E 5 HOH A 67 767 79 HOH HOH . 
E 5 HOH A 68 768 80 HOH HOH . 
E 5 HOH A 69 769 84 HOH HOH . 
E 5 HOH A 70 770 86 HOH HOH . 
E 5 HOH A 71 771 87 HOH HOH . 
E 5 HOH A 72 772 88 HOH HOH . 
E 5 HOH A 73 773 89 HOH HOH . 
E 5 HOH A 74 774 90 HOH HOH . 
E 5 HOH A 75 775 91 HOH HOH . 
E 5 HOH A 76 776 92 HOH HOH . 
E 5 HOH A 77 777 93 HOH HOH . 
E 5 HOH A 78 778 94 HOH HOH . 
E 5 HOH A 79 779 96 HOH HOH . 
E 5 HOH A 80 780 97 HOH HOH . 
E 5 HOH A 81 781 98 HOH HOH . 
E 5 HOH A 82 782 99 HOH HOH . 
E 5 HOH A 83 783 100 HOH HOH . 
E 5 HOH A 84 784 101 HOH HOH . 
E 5 HOH A 85 785 102 HOH HOH . 
E 5 HOH A 86 786 103 HOH HOH . 
E 5 HOH A 87 787 104 HOH HOH . 
E 5 HOH A 88 788 105 HOH HOH . 
E 5 HOH A 89 789 106 HOH HOH . 
E 5 HOH A 90 790 107 HOH HOH . 
E 5 HOH A 91 791 108 HOH HOH . 
E 5 HOH A 92 792 109 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         D 
_atom_site.label_entity_id       4 
_atom_site.Cartn_x               29.443 
_atom_site.Cartn_y               -5.083 
_atom_site.Cartn_z               -24.009 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        48.46 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           603 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#