data_1R6Z # _model_server_result.job_id qNKyFXOxFn_T3pQ1fzXmaQ _model_server_result.datetime_utc '2025-02-05 05:55:03' _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 1r6z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":729}' # _entry.id 1R6Z # _exptl.entry_id 1R6Z _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 9 _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 1R6Z _cell.length_a 89.811 _cell.length_b 89.811 _cell.length_c 380.326 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1R6Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS trimeric 3 author_and_software_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 PISA monomeric 1 software_defined_assembly 3 PISA monomeric 1 software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R 1 1 A,D,G,H,I,P 2 1 B,E,J,K,L,Q 3 1 C,F,M,N,O,R 4 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 O N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 GLC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n D GLC 1 B 1 GLC ? 3 MAL 2 n D GLC 2 B 2 GLC ? 3 MAL 2 n E GLC 1 C 1 GLC ? 2 MAL 2 n E GLC 2 C 2 GLC ? 2 MAL 2 n F GLC 1 D 1 GLC ? 1 MAL 2 n F GLC 2 D 2 GLC ? 1 MAL # 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 D O4 GLC . B GLC 1 1_555 D C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 sing covale ? covale2 E O4 GLC . C GLC 1 1_555 E C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 sing covale ? covale3 F O4 GLC . D GLC 1 1_555 F C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 sing metalc ? metalc1 A ND1 HIS 40 P HIS 38 1_555 I NI NI . P NI 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc2 A O HIS 40 P HIS 38 1_555 I NI NI . P NI 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc3 A NE2 HIS 454 P HIS 671 1_555 G NI NI . P NI 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc4 G NI NI . P NI 728 1_555 C NE2 HIS 378 Z HIS 595 1_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc5 B O HIS 40 A HIS 38 1_555 L NI NI . A NI 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc6 B NE2 HIS 378 A HIS 595 1_655 M NI NI . Z NI 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc7 B NE2 HIS 454 A HIS 671 1_555 J NI NI . A NI 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc8 C ND1 HIS 40 Z HIS 38 1_555 N NI NI . Z NI 729 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc9 C O HIS 40 Z HIS 38 1_555 N NI NI . Z NI 729 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc10 C ND1 HIS 40 Z HIS 38 1_555 O NI NI . Z NI 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? metalc ? metalc11 C NE2 HIS 454 Z HIS 671 1_555 M NI NI . Z NI 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc12 C OD2 ASP 455 Z ASP 672 1_555 M NI NI . Z NI 728 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? # _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 1R6Z _atom_sites.fract_transf_matrix[1][1] 0.011134 _atom_sites.fract_transf_matrix[1][2] 0.006429 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012857 _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] 0.002629 _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 G 3 NI P 1 728 1 NI NI . H 3 NI P 1 729 7 NI NI . I 3 NI P 1 730 8 NI NI . J 3 NI A 1 728 2 NI NI . K 3 NI A 1 729 5 NI NI . L 3 NI A 1 730 6 NI NI . M 3 NI Z 1 728 3 NI NI . N 3 NI Z 1 729 4 NI NI . O 3 NI Z 1 730 9 NI NI . P 4 HOH P 1 731 3 HOH TIP . P 4 HOH P 2 732 4 HOH TIP . P 4 HOH P 3 733 5 HOH TIP . P 4 HOH P 4 734 6 HOH TIP . P 4 HOH P 5 735 7 HOH TIP . P 4 HOH P 6 736 8 HOH TIP . P 4 HOH P 7 737 10 HOH TIP . P 4 HOH P 8 738 22 HOH TIP . P 4 HOH P 9 739 24 HOH TIP . P 4 HOH P 10 740 27 HOH TIP . P 4 HOH P 11 741 31 HOH TIP . P 4 HOH P 12 742 37 HOH TIP . P 4 HOH P 13 743 39 HOH TIP . P 4 HOH P 14 744 40 HOH TIP . P 4 HOH P 15 745 51 HOH TIP . P 4 HOH P 16 746 55 HOH TIP . P 4 HOH P 17 747 56 HOH TIP . Q 4 HOH A 1 731 12 HOH TIP . Q 4 HOH A 2 732 15 HOH TIP . Q 4 HOH A 3 733 17 HOH TIP . Q 4 HOH A 4 734 19 HOH TIP . Q 4 HOH A 5 735 20 HOH TIP . Q 4 HOH A 6 736 23 HOH TIP . Q 4 HOH A 7 737 26 HOH TIP . Q 4 HOH A 8 738 28 HOH TIP . Q 4 HOH A 9 739 30 HOH TIP . Q 4 HOH A 10 740 33 HOH TIP . Q 4 HOH A 11 741 38 HOH TIP . Q 4 HOH A 12 742 41 HOH TIP . Q 4 HOH A 13 743 42 HOH TIP . Q 4 HOH A 14 744 43 HOH TIP . Q 4 HOH A 15 745 46 HOH TIP . Q 4 HOH A 16 746 47 HOH TIP . Q 4 HOH A 17 747 48 HOH TIP . Q 4 HOH A 18 748 49 HOH TIP . Q 4 HOH A 19 749 50 HOH TIP . Q 4 HOH A 20 750 53 HOH TIP . Q 4 HOH A 21 751 54 HOH TIP . Q 4 HOH A 22 752 57 HOH TIP . R 4 HOH Z 1 731 1 HOH TIP . R 4 HOH Z 2 732 2 HOH TIP . R 4 HOH Z 3 733 9 HOH TIP . R 4 HOH Z 4 734 11 HOH TIP . R 4 HOH Z 5 735 13 HOH TIP . R 4 HOH Z 6 736 14 HOH TIP . R 4 HOH Z 7 737 16 HOH TIP . R 4 HOH Z 8 738 18 HOH TIP . R 4 HOH Z 9 739 21 HOH TIP . R 4 HOH Z 10 740 25 HOH TIP . R 4 HOH Z 11 741 29 HOH TIP . R 4 HOH Z 12 742 32 HOH TIP . R 4 HOH Z 13 743 34 HOH TIP . R 4 HOH Z 14 744 35 HOH TIP . R 4 HOH Z 15 745 36 HOH TIP . R 4 HOH Z 16 746 44 HOH TIP . R 4 HOH Z 17 747 45 HOH TIP . R 4 HOH Z 18 748 52 HOH TIP . # _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 H _atom_site.label_entity_id 3 _atom_site.Cartn_x 45.426 _atom_site.Cartn_y 29.998 _atom_site.Cartn_z 2.199 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 100.33 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 729 _atom_site.auth_asym_id P _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 74 _model_server_stats.create_model_time_ms 41 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #