data_5VPT # _model_server_result.job_id VD800_r-6Wat5fhXYmO0PQ _model_server_result.datetime_utc '2024-11-05 12:35:59' _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 5vpt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 5VPT # _exptl.entry_id 5VPT _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 2 _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 5VPT _cell.length_a 89.881 _cell.length_b 89.881 _cell.length_c 133.731 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VPT _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # 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 1 1 A,B,C,D,E,F 2 1,2,3,4 # 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' 2_685 -x+1,-y+3,z -1 0 0 0 -1 0 0 0 1 89.881 269.643 0 3 'crystal symmetry operation' 3_765 -y+2,x+1,z 0 -1 0 1 0 0 0 0 1 179.762 89.881 0 4 'crystal symmetry operation' 4_475 y-1,-x+2,z 0 1 0 -1 0 0 0 0 1 -89.881 179.762 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O15 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O17 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.85 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O18 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O15 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc11 C MN MN . A MN 202 1_555 F O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc12 C MN MN . A MN 202 1_555 F O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? # _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 5VPT _atom_sites.fract_transf_matrix[1][1] 0.011126 _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] 0.011126 _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] 0.007478 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 SO4 A 1 203 203 SO4 SO4 . E 4 R07 A 1 204 1 R07 0GK . F 5 HOH A 1 301 2 HOH HOH . F 5 HOH A 2 302 25 HOH HOH . F 5 HOH A 3 303 1 HOH HOH . F 5 HOH A 4 304 14 HOH HOH . F 5 HOH A 5 305 16 HOH HOH . F 5 HOH A 6 306 24 HOH HOH . F 5 HOH A 7 307 19 HOH HOH . F 5 HOH A 8 308 8 HOH HOH . F 5 HOH A 9 309 4 HOH HOH . F 5 HOH A 10 310 23 HOH HOH . F 5 HOH A 11 311 20 HOH HOH . F 5 HOH A 12 312 9 HOH HOH . F 5 HOH A 13 313 10 HOH HOH . F 5 HOH A 14 314 11 HOH HOH . F 5 HOH A 15 315 7 HOH HOH . F 5 HOH A 16 316 3 HOH HOH . F 5 HOH A 17 317 17 HOH HOH . F 5 HOH A 18 318 12 HOH HOH . F 5 HOH A 19 319 13 HOH HOH . F 5 HOH A 20 320 21 HOH HOH . F 5 HOH A 21 321 5 HOH HOH . F 5 HOH A 22 322 15 HOH HOH . F 5 HOH A 23 323 6 HOH HOH . F 5 HOH A 24 324 18 HOH HOH . F 5 HOH A 25 325 22 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 C _atom_site.label_entity_id 2 _atom_site.Cartn_x 43.099 _atom_site.Cartn_y 107.317 _atom_site.Cartn_z 284.764 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 59.61 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 202 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #