data_4ZXI # _model_server_result.job_id sKmhm25r4_d-a1CJP3LuIA _model_server_result.datetime_utc '2024-11-13 11:56:52' _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 4zxi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1405}' # _entry.id 4ZXI # _exptl.entry_id 4ZXI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 6 _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 4ZXI _cell.length_a 116.1 _cell.length_b 116.1 _cell.length_c 342.02 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZXI _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,F,G,H _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 6 _struct_asym.id F _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 N HIS 2 A HIS 0 1_555 F NI NI . A NI 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc2 A ND1 HIS 2 A HIS 0 1_555 F NI NI . A NI 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc3 A OG1 THR 766 A THR 764 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? covale ? covale1 A OG SER 1008 A SER 1006 1_555 B P24 PNS . A PNS 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.639 ? metalc ? metalc4 C O GLY . A GLY 1402 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc5 D O5' AMP . A AMP 1403 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc6 A NE2 HIS 526 A HIS 524 1_555 F NI NI . A NI 1405 5_454 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? # _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 4ZXI _atom_sites.fract_transf_matrix[1][1] 0.008613 _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] 0.008613 _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] 0.002924 _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 PNS A 1 1401 1319 PNS PNS . C 3 GLY A 1 1402 1 GLY GLY . D 4 AMP A 1 1403 2 AMP AMP . E 5 XP4 A 1 1404 1 XP4 XP4 . F 6 NI A 1 1405 1 NI NI . G 7 MG A 1 1406 1 MG MG . H 8 HOH A 1 1501 1 HOH HOH . H 8 HOH A 2 1502 6 HOH HOH . H 8 HOH A 3 1503 10 HOH HOH . H 8 HOH A 4 1504 11 HOH HOH . H 8 HOH A 5 1505 14 HOH HOH . H 8 HOH A 6 1506 2 HOH HOH . H 8 HOH A 7 1507 16 HOH HOH . H 8 HOH A 8 1508 7 HOH HOH . H 8 HOH A 9 1509 8 HOH HOH . H 8 HOH A 10 1510 12 HOH HOH . H 8 HOH A 11 1511 3 HOH HOH . H 8 HOH A 12 1512 13 HOH HOH . H 8 HOH A 13 1513 9 HOH HOH . H 8 HOH A 14 1514 4 HOH HOH . H 8 HOH A 15 1515 5 HOH HOH . H 8 HOH A 16 1516 15 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 F _atom_site.label_entity_id 6 _atom_site.Cartn_x 10.022 _atom_site.Cartn_y -74.14 _atom_site.Cartn_z -21.058 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 67.42 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 1405 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 82 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #