data_5KNY # _model_server_result.job_id OD4B6GDrT4lw2Jp8cxs5kg _model_server_result.datetime_utc '2024-11-16 08:32:25' _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 5kny # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":302}' # _entry.id 5KNY # _exptl.entry_id 5KNY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.95 _cell.angle_gamma 90 _cell.entry_id 5KNY _cell.length_a 54.523 _cell.length_b 86.075 _cell.length_c 79.824 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KNY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # 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 1 1 A,B,E,F,G,H,M,N 2 1 C,D,I,J,K,L,O,P 3 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 F N N ? 3 H N N ? 3 J N N ? 3 L 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 OD1 ASP 187 A ASP 182 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc2 E OAI YPG . A YPG 301 1_555 F MG MG . A MG 302 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc3 E OAB YPG . A YPG 301 1_555 F MG MG . A MG 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc4 E OAH YPG . A YPG 301 1_555 F MG MG . A MG 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc5 F MG MG . A MG 302 1_555 M O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc6 F MG MG . A MG 302 1_555 M O HOH . A HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc7 F MG MG . A MG 302 1_555 M O HOH . A HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc8 B OD1 ASP 187 B ASP 182 1_555 H MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc9 G OAI YPG . B YPG 301 1_555 H MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc10 H MG MG . B MG 302 1_555 N O HOH . B HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc11 H MG MG . B MG 302 1_555 N O HOH . B HOH 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc12 H MG MG . B MG 302 1_555 N O HOH . B HOH 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc13 C OD1 ASP 187 C ASP 182 1_555 J MG MG . C MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc14 I OAI YPG . C YPG 301 1_555 J MG MG . C MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc15 J MG MG . C MG 302 1_555 O O HOH . C HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc16 D OD2 ASP 187 D ASP 182 1_555 L MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc17 K OAI YPG . D YPG 301 1_555 L MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5KNY _atom_sites.fract_transf_matrix[1][1] 0.018341 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005242 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011618 _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] 0.013029 _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 E 2 YPG A 1 301 1 YPG DRG . F 3 MG A 1 302 2 MG MG . G 2 YPG B 1 301 2 YPG DRG . H 3 MG B 1 302 1 MG MG . I 2 YPG C 1 301 3 YPG DRG . J 3 MG C 1 302 5 MG MG . K 2 YPG D 1 301 4 YPG DRG . L 3 MG D 1 302 3 MG MG . M 4 HOH A 1 401 26 HOH HOH . M 4 HOH A 2 402 28 HOH HOH . M 4 HOH A 3 403 4 HOH HOH . M 4 HOH A 4 404 25 HOH HOH . M 4 HOH A 5 405 33 HOH HOH . M 4 HOH A 6 406 22 HOH HOH . M 4 HOH A 7 407 5 HOH HOH . N 4 HOH B 1 401 7 HOH HOH . N 4 HOH B 2 402 11 HOH HOH . N 4 HOH B 3 403 3 HOH HOH . N 4 HOH B 4 404 19 HOH HOH . N 4 HOH B 5 405 21 HOH HOH . N 4 HOH B 6 406 12 HOH HOH . N 4 HOH B 7 407 1 HOH HOH . N 4 HOH B 8 408 20 HOH HOH . N 4 HOH B 9 409 8 HOH HOH . N 4 HOH B 10 410 23 HOH HOH . O 4 HOH C 1 401 2 HOH HOH . O 4 HOH C 2 402 29 HOH HOH . O 4 HOH C 3 403 34 HOH HOH . O 4 HOH C 4 404 35 HOH HOH . O 4 HOH C 5 405 30 HOH HOH . O 4 HOH C 6 406 27 HOH HOH . P 4 HOH D 1 401 36 HOH HOH . P 4 HOH D 2 402 9 HOH HOH . P 4 HOH D 3 403 10 HOH HOH . P 4 HOH D 4 404 14 HOH HOH . P 4 HOH D 5 405 32 HOH HOH . P 4 HOH D 6 406 24 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _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 78.671 _atom_site.Cartn_y 96.856 _atom_site.Cartn_z 24.093 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 63.86 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 302 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 1 #