data_8VAG # _model_server_result.job_id 4PM8I-kWhynnGU6jog5YEQ _model_server_result.datetime_utc '2024-11-28 08:30:28' _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 8vag # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":302}' # _entry.id 8VAG # _exptl.entry_id 8VAG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) 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 90 _cell.angle_gamma 120 _cell.entry_id 8VAG _cell.length_a 91.668 _cell.length_b 91.668 _cell.length_c 117.602 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VAG _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 1 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_444 -x-1,-x+y-1,-z-1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 -45.834 -79.386817 -39.200667 # 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 ? 2 E N N ? 2 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 OE1 GLU 101 A GLU 81 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc2 A OE2 GLU 101 A GLU 81 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc3 A ND1 HIS 108 A HIS 88 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc4 A OE2 GLU 162 A GLU 142 1_555 D MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc5 A NE2 HIS 194 A HIS 174 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc6 A OD1 ASP 198 A ASP 178 1_555 D MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc7 A ND1 HIS 201 A HIS 181 1_555 D MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc8 C MN MN . A MN 301 1_555 G O HOH . A HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc9 D MN MN . A MN 302 1_555 G O HOH . A HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc10 D MN MN . A MN 302 1_555 G O HOH . A HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc11 B OE1 GLU 101 B GLU 81 1_555 E MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc12 B OE2 GLU 101 B GLU 81 1_555 E MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc13 B ND1 HIS 108 B HIS 88 1_555 E MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? metalc ? metalc14 B OE1 GLU 162 B GLU 142 1_555 F MN MN . B MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc15 B OE2 GLU 162 B GLU 142 1_555 F MN MN . B MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc16 B NE2 HIS 194 B HIS 174 1_555 E MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc17 B OD1 ASP 198 B ASP 178 1_555 F MN MN . B MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc18 B ND1 HIS 201 B HIS 181 1_555 F MN MN . B MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc19 E MN MN . B MN 301 1_555 H O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc20 E MN MN . B MN 301 1_555 H O HOH . B HOH 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc21 F MN MN . B MN 302 1_555 H O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc22 F MN MN . B MN 302 1_555 H O HOH . B HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8VAG _atom_sites.fract_transf_matrix[1][1] 0.010909 _atom_sites.fract_transf_matrix[1][2] 0.006298 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012597 _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] 0.008503 _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 MN A 1 301 1 MN MN . D 2 MN A 1 302 2 MN MN . E 2 MN B 1 301 3 MN MN . F 2 MN B 1 302 4 MN MN . G 3 HOH A 1 401 28 HOH HOH . G 3 HOH A 2 402 45 HOH HOH . G 3 HOH A 3 403 60 HOH HOH . G 3 HOH A 4 404 2 HOH HOH . G 3 HOH A 5 405 30 HOH HOH . G 3 HOH A 6 406 41 HOH HOH . G 3 HOH A 7 407 1 HOH HOH . G 3 HOH A 8 408 58 HOH HOH . G 3 HOH A 9 409 14 HOH HOH . G 3 HOH A 10 410 24 HOH HOH . G 3 HOH A 11 411 6 HOH HOH . G 3 HOH A 12 412 27 HOH HOH . G 3 HOH A 13 413 56 HOH HOH . G 3 HOH A 14 414 55 HOH HOH . G 3 HOH A 15 415 47 HOH HOH . G 3 HOH A 16 416 29 HOH HOH . G 3 HOH A 17 417 52 HOH HOH . G 3 HOH A 18 418 25 HOH HOH . G 3 HOH A 19 419 26 HOH HOH . G 3 HOH A 20 420 48 HOH HOH . G 3 HOH A 21 421 40 HOH HOH . G 3 HOH A 22 422 57 HOH HOH . G 3 HOH A 23 423 19 HOH HOH . G 3 HOH A 24 424 54 HOH HOH . G 3 HOH A 25 425 49 HOH HOH . G 3 HOH A 26 426 51 HOH HOH . G 3 HOH A 27 427 46 HOH HOH . G 3 HOH A 28 428 33 HOH HOH . G 3 HOH A 29 429 17 HOH HOH . G 3 HOH A 30 430 50 HOH HOH . G 3 HOH A 31 431 44 HOH HOH . G 3 HOH A 32 432 43 HOH HOH . G 3 HOH A 33 433 53 HOH HOH . H 3 HOH B 1 401 4 HOH HOH . H 3 HOH B 2 402 13 HOH HOH . H 3 HOH B 3 403 20 HOH HOH . H 3 HOH B 4 404 5 HOH HOH . H 3 HOH B 5 405 21 HOH HOH . H 3 HOH B 6 406 35 HOH HOH . H 3 HOH B 7 407 22 HOH HOH . H 3 HOH B 8 408 15 HOH HOH . H 3 HOH B 9 409 9 HOH HOH . H 3 HOH B 10 410 31 HOH HOH . H 3 HOH B 11 411 7 HOH HOH . H 3 HOH B 12 412 39 HOH HOH . H 3 HOH B 13 413 59 HOH HOH . H 3 HOH B 14 414 36 HOH HOH . H 3 HOH B 15 415 8 HOH HOH . H 3 HOH B 16 416 61 HOH HOH . H 3 HOH B 17 417 11 HOH HOH . H 3 HOH B 18 418 32 HOH HOH . H 3 HOH B 19 419 23 HOH HOH . H 3 HOH B 20 420 34 HOH HOH . H 3 HOH B 21 421 3 HOH HOH . H 3 HOH B 22 422 12 HOH HOH . H 3 HOH B 23 423 38 HOH HOH . H 3 HOH B 24 424 37 HOH HOH . H 3 HOH B 25 425 16 HOH HOH . H 3 HOH B 26 426 18 HOH HOH . H 3 HOH B 27 427 42 HOH HOH . H 3 HOH B 28 428 10 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _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 2 _atom_site.Cartn_x -54.333 _atom_site.Cartn_y 34.97 _atom_site.Cartn_z -17.915 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 50.17 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _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 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 365 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #