data_5IHY # _model_server_result.job_id B8PnptxA4ezQPsx8POHtbQ _model_server_result.datetime_utc '2024-11-05 00:40:44' _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 5ihy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 5IHY # _exptl.entry_id 5IHY _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.7 _cell.angle_gamma 90 _cell.entry_id 5IHY _cell.length_a 47.487 _cell.length_b 53.087 _cell.length_c 83.388 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IHY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D 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 A C MSE 7 A MSE 1 1_555 A N THR 8 A THR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A NE2 HIS 35 A HIS 29 1_555 C NI NI . A NI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? covale ? covale2 A C LYS 105 A LYS 99 1_555 A N MSE 106 A MSE 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 A C MSE 106 A MSE 100 1_555 A N SER 107 A SER 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale4 A C PHE 144 A PHE 138 1_555 A N MSE 145 A MSE 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 A C MSE 145 A MSE 139 1_555 A N PHE 146 A PHE 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C ASP 174 A ASP 168 1_555 A N MSE 175 A MSE 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 A C MSE 175 A MSE 169 1_555 A N MSE 176 A MSE 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 A C MSE 176 A MSE 170 1_555 A N ASN 177 A ASN 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale9 A C PHE 191 A PHE 185 1_555 A N MSE 192 A MSE 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale10 A C MSE 192 A MSE 186 1_555 A N LEU 193 A LEU 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale11 B C LYS 105 B LYS 99 1_555 B N MSE 106 B MSE 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 B C MSE 106 B MSE 100 1_555 B N SER 107 B SER 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale13 B C PHE 144 B PHE 138 1_555 B N MSE 145 B MSE 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale14 B C MSE 145 B MSE 139 1_555 B N PHE 146 B PHE 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale15 B C ASP 174 B ASP 168 1_555 B N MSE 175 B MSE 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale16 B C MSE 175 B MSE 169 1_555 B N MSE 176 B MSE 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale17 B C MSE 176 B MSE 170 1_555 B N ASN 177 B ASN 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale18 B C PHE 191 B PHE 185 1_555 B N MSE 192 B MSE 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale19 B C MSE 192 B MSE 186 1_555 B N LEU 193 B LEU 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _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 5IHY _atom_sites.fract_transf_matrix[1][1] 0.021058 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001363 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018837 _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] 0.012017 _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 C 2 NI A 1 301 1 NI NI . D 2 NI B 1 301 2 NI NI . E 3 HOH A 1 401 7 HOH HOH . E 3 HOH A 2 402 24 HOH HOH . E 3 HOH A 3 403 21 HOH HOH . E 3 HOH A 4 404 18 HOH HOH . E 3 HOH A 5 405 13 HOH HOH . E 3 HOH A 6 406 17 HOH HOH . E 3 HOH A 7 407 3 HOH HOH . E 3 HOH A 8 408 12 HOH HOH . F 3 HOH B 1 401 11 HOH HOH . F 3 HOH B 2 402 15 HOH HOH . F 3 HOH B 3 403 19 HOH HOH . F 3 HOH B 4 404 8 HOH HOH . F 3 HOH B 5 405 6 HOH HOH . F 3 HOH B 6 406 14 HOH HOH . F 3 HOH B 7 407 10 HOH HOH . F 3 HOH B 8 408 20 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 2 _atom_site.Cartn_x 25.822 _atom_site.Cartn_y -28 _atom_site.Cartn_z 31.169 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 118.88 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 301 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #