data_5DQW # _model_server_result.job_id 2N2fbwPukJ4FHWHu9wDkZw _model_server_result.datetime_utc '2025-03-01 19:06:36' _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 5dqw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 5DQW # _exptl.entry_id 5DQW _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.33 _cell.angle_gamma 90 _cell.entry_id 5DQW _cell.length_a 46.865 _cell.length_b 52.499 _cell.length_c 82.322 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DQW _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,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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F 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 metalc ? metalc1 A NE2 HIS 35 A HIS 29 1_555 D NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc2 A NE2 HIS 64 A HIS 58 1_555 D NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc3 A OD1 ASP 130 A ASP 124 1_555 D NI NI . A NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc4 D NI NI . A NI 302 1_555 G O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? metalc ? metalc5 B NE2 HIS 35 B HIS 29 1_555 F NI NI . B NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? metalc ? metalc6 B OD1 ASP 130 B ASP 124 1_555 F NI NI . B NI 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc7 F NI NI . B NI 302 1_555 H O HOH . B HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.754 ? # _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 5DQW _atom_sites.fract_transf_matrix[1][1] 0.021338 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001241 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019048 _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] 0.012168 _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 ADP A 1 301 301 ADP ADP . D 3 NI A 1 302 1 NI NI . E 2 ADP B 1 301 301 ADP ADP . F 3 NI B 1 302 2 NI NI . G 4 HOH A 1 401 1 HOH HOH . G 4 HOH A 2 402 146 HOH HOH . G 4 HOH A 3 403 23 HOH HOH . G 4 HOH A 4 404 156 HOH HOH . G 4 HOH A 5 405 83 HOH HOH . G 4 HOH A 6 406 24 HOH HOH . G 4 HOH A 7 407 14 HOH HOH . G 4 HOH A 8 408 133 HOH HOH . G 4 HOH A 9 409 75 HOH HOH . G 4 HOH A 10 410 8 HOH HOH . G 4 HOH A 11 411 40 HOH HOH . G 4 HOH A 12 412 10 HOH HOH . G 4 HOH A 13 413 89 HOH HOH . G 4 HOH A 14 414 49 HOH HOH . G 4 HOH A 15 415 12 HOH HOH . G 4 HOH A 16 416 161 HOH HOH . G 4 HOH A 17 417 19 HOH HOH . G 4 HOH A 18 418 150 HOH HOH . G 4 HOH A 19 419 84 HOH HOH . G 4 HOH A 20 420 3 HOH HOH . G 4 HOH A 21 421 160 HOH HOH . G 4 HOH A 22 422 7 HOH HOH . G 4 HOH A 23 423 96 HOH HOH . G 4 HOH A 24 424 71 HOH HOH . G 4 HOH A 25 425 22 HOH HOH . G 4 HOH A 26 426 18 HOH HOH . G 4 HOH A 27 427 30 HOH HOH . G 4 HOH A 28 428 90 HOH HOH . G 4 HOH A 29 429 87 HOH HOH . G 4 HOH A 30 430 42 HOH HOH . G 4 HOH A 31 431 158 HOH HOH . G 4 HOH A 32 432 4 HOH HOH . G 4 HOH A 33 433 44 HOH HOH . G 4 HOH A 34 434 67 HOH HOH . G 4 HOH A 35 435 140 HOH HOH . G 4 HOH A 36 436 43 HOH HOH . G 4 HOH A 37 437 129 HOH HOH . H 4 HOH B 1 401 78 HOH HOH . H 4 HOH B 2 402 2 HOH HOH . H 4 HOH B 3 403 53 HOH HOH . H 4 HOH B 4 404 5 HOH HOH . H 4 HOH B 5 405 57 HOH HOH . H 4 HOH B 6 406 46 HOH HOH . H 4 HOH B 7 407 68 HOH HOH . H 4 HOH B 8 408 101 HOH HOH . H 4 HOH B 9 409 132 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 3 _atom_site.Cartn_x 6.159 _atom_site.Cartn_y -10.279 _atom_site.Cartn_z 9.667 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 55.21 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 302 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 33 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #