data_1DE9 # _model_server_result.job_id RobmDw73LDAtizSiK99bvg _model_server_result.datetime_utc '2024-12-01 00:27:53' _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 1de9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1000}' # _entry.id 1DE9 # _exptl.entry_id 1DE9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 5 _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 1DE9 _cell.length_a 90.06 _cell.length_b 98.35 _cell.length_c 101.05 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DE9 _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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 ? tetrameric 4 author_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,G,I 1 1 D,E,F,H,J 2 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 ? 5 I N N ? 5 J 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 covale ? covale1 B O3' 3DR 1 Y 3DR 6 1_555 B P DG 2 Y DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.597 ? covale ? covale2 E O3' 3DR 1 V 3DR 6 1_555 E P DG 2 V DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? metalc ? metalc1 A O3' DC 4 X DC 5 1_555 I MN MN . A MN 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc2 B OP1 3DR 1 Y 3DR 6 1_555 I MN MN . A MN 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc3 D O3' DC 4 U DC 5 1_555 J MN MN . B MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc4 E OP1 3DR 1 V 3DR 6 1_555 J MN MN . B MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc5 G OE1 GLU 54 A GLU 96 1_555 I MN MN . A MN 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc6 G OE2 GLU 54 A GLU 96 1_555 I MN MN . A MN 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc7 H OE2 GLU 54 B GLU 96 1_555 J MN MN . B MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc8 H OE1 GLU 54 B GLU 96 1_555 J MN MN . B MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? hydrog 'DT-DG MISPAIR' hydrog1 A O2 DT 2 X DT 3 1_555 C N2 DG 9 Z DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DA MISPAIR' hydrog2 A N1 DA 3 X DA 4 1_555 C N6 DA 8 Z DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DT MISPAIR' hydrog3 A O2 DC 4 X DC 5 1_555 C N3 DT 7 Z DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog4 B O6 DG 2 Y DG 7 1_555 C N4 DC 4 Z DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N1 DA 3 Y DA 8 1_555 C N3 DT 3 Z DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N6 DA 3 Y DA 8 1_555 C O4 DT 3 Z DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog7 B N3 DT 4 Y DT 9 1_555 C N1 DA 2 Z DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N3 DC 5 Y DC 10 1_555 C N1 DG 1 Z DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N4 DC 5 Y DC 10 1_555 C O6 DG 1 Z DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B O2 DC 5 Y DC 10 1_555 C N2 DG 1 Z DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog11 D O4 DT 2 U DT 3 1_555 F N6 DA 8 W DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DG MISPAIR' hydrog12 D O2 DT 2 U DT 3 1_555 F N2 DG 9 W DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog13 D N3 DC 4 U DC 5 1_555 F N2 DG 6 W DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog14 E N2 DG 2 V DG 7 1_555 F O2 DC 4 W DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DA MISPAIR' hydrog15 E N1 DA 3 V DA 8 1_555 F N6 DA 2 W DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog16 E N3 DT 4 V DT 9 1_555 F N1 DA 2 W DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog17 E O2 DC 5 V DC 10 1_555 F N1 DG 1 W DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 1DE9 _atom_sites.fract_transf_matrix[1][1] 0.011104 _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] 0.010168 _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] 0.009896 _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 I 5 MN A 1 1000 1000 MN MN . J 5 MN B 1 1001 1001 MN MN . # _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 I _atom_site.label_entity_id 5 _atom_site.Cartn_x 47.866 _atom_site.Cartn_y 9.534 _atom_site.Cartn_z 40.274 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 19.74 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 1000 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 462 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #